diff --git a/CHANGELOG b/CHANGELOG
index 6cc7604fddcab7277a2b77bf0a25b625282b1d74..79d73f90e0344e733c768f90c51436b7f21d1ca0 100644
--- a/CHANGELOG
+++ b/CHANGELOG
@@ -1,8 +1,10 @@
minerva (18.1.1) stable; urgency=medium
* Bug fix: SBGN-ML import/export should not use compartmentOrder for
non-compartment entities (#2193)
+ * Bug fix: invalir relation type has been used as default
+ (bqbiol:isDescribedBy), the default is changed to: bqbiol:is (#2206)
- -- Piotr Gawron <piotr.gawron@uni.lu> Tue, 04 Feb 2025 16:00:00 +0200
+ -- Piotr Gawron <piotr.gawron@uni.lu> Wed, 05 Feb 2025 12:00:00 +0200
minerva (18.1.0) stable; urgency=medium
* Small improvement: SBGN-ML import/export is processing notes (#2192)
diff --git a/annotation/src/main/java/lcsb/mapviewer/annotation/services/MiriamConnectorImpl.java b/annotation/src/main/java/lcsb/mapviewer/annotation/services/MiriamConnectorImpl.java
index ae458bcb33a76284cd3798149041085c7a8c69cb..f60eb7ad87da207d084a55c54a2f0c2fed0c6d22 100644
--- a/annotation/src/main/java/lcsb/mapviewer/annotation/services/MiriamConnectorImpl.java
+++ b/annotation/src/main/java/lcsb/mapviewer/annotation/services/MiriamConnectorImpl.java
@@ -1,31 +1,28 @@
package lcsb.mapviewer.annotation.services;
-import java.io.IOException;
-import java.net.HttpURLConnection;
-import java.net.URL;
-
-import org.apache.http.HttpStatus;
-import org.apache.logging.log4j.LogManager;
-import org.apache.logging.log4j.Logger;
-import org.hibernate.AnnotationException;
-import org.springframework.stereotype.Service;
-import org.springframework.transaction.annotation.Transactional;
-
import lcsb.mapviewer.annotation.cache.CachableInterface;
import lcsb.mapviewer.annotation.cache.QueryCacheInterface;
import lcsb.mapviewer.annotation.cache.SourceNotAvailable;
import lcsb.mapviewer.common.exception.InvalidArgumentException;
import lcsb.mapviewer.converter.annotation.XmlAnnotationParser;
import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
+import org.apache.http.HttpStatus;
+import org.apache.logging.log4j.LogManager;
+import org.apache.logging.log4j.Logger;
+import org.hibernate.AnnotationException;
+import org.springframework.stereotype.Service;
+import org.springframework.transaction.annotation.Transactional;
+
+import java.io.IOException;
+import java.net.HttpURLConnection;
+import java.net.URL;
/**
* Class responsible for connection to Miriam DB. It allows to update URI of
* database being used and retrieve urls for miriam uri.
- *
+ *
* @author Piotr Gawron
- *
*/
@Service
@Transactional
@@ -42,9 +39,9 @@ public class MiriamConnectorImpl extends CachableInterface implements MiriamConn
/**
* Default class logger.
*/
- private Logger logger = LogManager.getLogger();
+ private final Logger logger = LogManager.getLogger();
- private XmlAnnotationParser xap = new XmlAnnotationParser();
+ private final XmlAnnotationParser xap = new XmlAnnotationParser();
/**
* Default class constructor. Prevent initialization.
@@ -66,7 +63,7 @@ public class MiriamConnectorImpl extends CachableInterface implements MiriamConn
}
MiriamType dataType = MiriamType.getTypeByUri(rows[0]);
String resource = rows[1];
- result = getUrlString(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, dataType, resource));
+ result = getUrlString(new MiriamData(dataType, resource));
} else {
result = super.refreshCacheQuery(query);
}
@@ -79,8 +76,7 @@ public class MiriamConnectorImpl extends CachableInterface implements MiriamConn
/**
* Returns url to the web page represented by {@link MiriamData} parameter.
*
- * @param miriamData
- * miriam data
+ * @param miriamData miriam data
* @return url to resource pointed by miriam data
*/
@Override
@@ -147,7 +143,7 @@ public class MiriamConnectorImpl extends CachableInterface implements MiriamConn
this.setCache(null);
try {
- String url = getUrlString(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.PUBMED, "3453"));
+ String url = getUrlString(new MiriamData(MiriamType.PUBMED, "3453"));
status.setStatus(ExternalServiceStatusType.OK);
if (url == null) {
status.setStatus(ExternalServiceStatusType.DOWN);
@@ -163,12 +159,11 @@ public class MiriamConnectorImpl extends CachableInterface implements MiriamConn
/**
* Check if identifier can be transformed into {@link MiriamData}.
*
- * @param string
- * identifier in the format NAME:IDENTIFIER. Where NAME is the name
- * from {@link MiriamType#getCommonName()} and IDENTIFIER is resource
- * identifier.
+ * @param string identifier in the format NAME:IDENTIFIER. Where NAME is the name
+ * from {@link MiriamType#getCommonName()} and IDENTIFIER is resource
+ * identifier.
* @return <code>true</code> if identifier can be transformed into
- * {@link MiriamData}
+ * {@link MiriamData}
*/
@Override
public boolean isValidIdentifier(final String string) {
@@ -183,10 +178,9 @@ public class MiriamConnectorImpl extends CachableInterface implements MiriamConn
/**
* Checks if {@link MiriamType} is valid.
*
- * @param type
- * type to be checked
+ * @param type type to be checked
* @return <code>true</code> if {@link MiriamType} is valid, <code>false</code>
- * otherwise
+ * otherwise
*/
@Override
public boolean isValidMiriamType(final MiriamType type) {
@@ -199,8 +193,7 @@ public class MiriamConnectorImpl extends CachableInterface implements MiriamConn
/**
* Returns uri to miriam resource.
*
- * @param md
- * {@link MiriamData} object for which uri should be returned
+ * @param md {@link MiriamData} object for which uri should be returned
* @return uri to miriam resource
*/
@Override
diff --git a/annotation/src/main/java/lcsb/mapviewer/annotation/services/annotators/GoAnnotatorImpl.java b/annotation/src/main/java/lcsb/mapviewer/annotation/services/annotators/GoAnnotatorImpl.java
index 7a1f5702572cf30de07e59648387dfbb4313a5af..4e5fcd35ae9b326205a42ff7a6113df26dccb2c7 100644
--- a/annotation/src/main/java/lcsb/mapviewer/annotation/services/annotators/GoAnnotatorImpl.java
+++ b/annotation/src/main/java/lcsb/mapviewer/annotation/services/annotators/GoAnnotatorImpl.java
@@ -1,19 +1,7 @@
package lcsb.mapviewer.annotation.services.annotators;
-import java.io.IOException;
-import java.util.Arrays;
-import java.util.HashMap;
-import java.util.List;
-import java.util.Map;
-
-import org.apache.logging.log4j.LogManager;
-import org.apache.logging.log4j.Logger;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.stereotype.Service;
-
import com.fasterxml.jackson.core.type.TypeReference;
import com.fasterxml.jackson.databind.ObjectMapper;
-
import lcsb.mapviewer.annotation.cache.QueryCacheInterface;
import lcsb.mapviewer.annotation.cache.SourceNotAvailable;
import lcsb.mapviewer.annotation.cache.XmlSerializer;
@@ -23,7 +11,6 @@ import lcsb.mapviewer.annotation.services.ExternalServiceStatusType;
import lcsb.mapviewer.common.exception.InvalidArgumentException;
import lcsb.mapviewer.common.exception.NotImplementedException;
import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
import lcsb.mapviewer.model.map.compartment.Compartment;
import lcsb.mapviewer.model.map.species.Complex;
@@ -32,12 +19,22 @@ import lcsb.mapviewer.model.user.annotator.AnnotatorData;
import lcsb.mapviewer.model.user.annotator.AnnotatorInputParameter;
import lcsb.mapviewer.model.user.annotator.AnnotatorOutputParameter;
import lcsb.mapviewer.model.user.annotator.BioEntityField;
+import org.apache.logging.log4j.LogManager;
+import org.apache.logging.log4j.Logger;
+import org.springframework.beans.factory.annotation.Autowired;
+import org.springframework.stereotype.Service;
+
+import java.io.IOException;
+import java.util.Arrays;
+import java.util.Collections;
+import java.util.HashMap;
+import java.util.List;
+import java.util.Map;
/**
* This class is a backend to Gene Ontology API.
- *
+ *
* @author Piotr Gawron
- *
*/
@Service
public class GoAnnotatorImpl extends ElementAnnotator implements GoAnnotator {
@@ -50,15 +47,15 @@ public class GoAnnotatorImpl extends ElementAnnotator implements GoAnnotator {
/**
* Default class logger.
*/
- private Logger logger = LogManager.getLogger();
+ private final Logger logger = LogManager.getLogger();
/**
* Object that allows to serialize {@link Go} elements into xml string and
* deserialize xml into {@link Go} objects.
*/
- private XmlSerializer<Go> goSerializer;
+ private final XmlSerializer<Go> goSerializer;
- private ObjectMapper objectMapper = new ObjectMapper();
+ private final ObjectMapper objectMapper = new ObjectMapper();
/**
* Constructor. Initializes structures used for transforming {@link Go}
@@ -66,7 +63,7 @@ public class GoAnnotatorImpl extends ElementAnnotator implements GoAnnotator {
*/
@Autowired
public GoAnnotatorImpl() {
- super(GoAnnotator.class, new Class[] { Phenotype.class, Compartment.class, Complex.class }, true);
+ super(GoAnnotator.class, new Class[]{Phenotype.class, Compartment.class, Complex.class}, true);
goSerializer = new XmlSerializer<>(Go.class);
}
@@ -78,7 +75,7 @@ public class GoAnnotatorImpl extends ElementAnnotator implements GoAnnotator {
String name = (String) query;
if (name.startsWith(GO_TERM_CACHE_PREFIX)) {
String term = name.substring(GO_TERM_CACHE_PREFIX.length());
- MiriamData md = new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.GO, term);
+ MiriamData md = new MiriamData(MiriamType.GO, term);
result = goSerializer.objectToString(getGoElement(md));
} else if (name.startsWith("http")) {
result = getWebPageContent(name);
@@ -127,7 +124,7 @@ public class GoAnnotatorImpl extends ElementAnnotator implements GoAnnotator {
@Override
public List<AnnotatorInputParameter> getAvailableInputParameters() {
- return Arrays.asList(new AnnotatorInputParameter(MiriamType.GO));
+ return Collections.singletonList(new AnnotatorInputParameter(MiriamType.GO));
}
@Override
@@ -146,11 +143,9 @@ public class GoAnnotatorImpl extends ElementAnnotator implements GoAnnotator {
* Returns go entry from the Gene Ontology database for the goTerm
* (identifier).
*
- * @param md
- * {@link MiriamData} object referencing to entry in GO database
+ * @param md {@link MiriamData} object referencing to entry in GO database
* @return entry in Gene Ontology database
- * @throws GoSearchException
- * thrown when there is a problem with accessing data in go database
+ * @throws GoSearchException thrown when there is a problem with accessing data in go database
*/
@Override
public Go getGoElement(final MiriamData md) throws GoSearchException {
diff --git a/annotation/src/test/java/lcsb/mapviewer/annotation/services/ChEMBLParserTest.java b/annotation/src/test/java/lcsb/mapviewer/annotation/services/ChEMBLParserTest.java
index c33bbd5ee4e058a2e65a242e2d138d83e8260598..2bb9b48a4c98d421a581c61c576dc88fb01899c7 100644
--- a/annotation/src/test/java/lcsb/mapviewer/annotation/services/ChEMBLParserTest.java
+++ b/annotation/src/test/java/lcsb/mapviewer/annotation/services/ChEMBLParserTest.java
@@ -14,7 +14,6 @@ import lcsb.mapviewer.annotation.services.annotators.UniprotAnnotator;
import lcsb.mapviewer.annotation.services.annotators.UniprotSearchException;
import lcsb.mapviewer.common.exception.InvalidArgumentException;
import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
import org.apache.commons.lang3.SerializationException;
import org.junit.After;
@@ -180,11 +179,11 @@ public class ChEMBLParserTest extends AnnotationTestFunctions {
for (final Target t : test.getTargets()) {
assertTrue(t.getReferences()
- .contains(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.PUBMED, "16891588")));
+ .contains(new MiriamData(MiriamType.PUBMED, "16891588")));
assertTrue(t.getReferences()
- .contains(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.PUBMED, "16956592")));
+ .contains(new MiriamData(MiriamType.PUBMED, "16956592")));
assertTrue(t.getReferences()
- .contains(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.PUBMED, "16971495")));
+ .contains(new MiriamData(MiriamType.PUBMED, "16971495")));
}
}
diff --git a/annotation/src/test/java/lcsb/mapviewer/annotation/services/MiriamConnectorTest.java b/annotation/src/test/java/lcsb/mapviewer/annotation/services/MiriamConnectorTest.java
index b9780fc7813e4c5f70ac984c05ed0bba230fb7a8..445af6b389d760cc97dfa5b80d83a966fe130ee9 100644
--- a/annotation/src/test/java/lcsb/mapviewer/annotation/services/MiriamConnectorTest.java
+++ b/annotation/src/test/java/lcsb/mapviewer/annotation/services/MiriamConnectorTest.java
@@ -1,7 +1,25 @@
package lcsb.mapviewer.annotation.services;
+import lcsb.mapviewer.annotation.AnnotationTestFunctions;
+import lcsb.mapviewer.annotation.cache.GeneralCacheInterface;
+import lcsb.mapviewer.annotation.cache.SourceNotAvailable;
+import lcsb.mapviewer.annotation.cache.WebPageDownloader;
+import lcsb.mapviewer.common.exception.InvalidArgumentException;
+import lcsb.mapviewer.model.map.MiriamData;
+import lcsb.mapviewer.model.map.MiriamType;
+import org.junit.After;
+import org.junit.Before;
+import org.junit.Test;
+import org.mockito.Mockito;
+import org.springframework.beans.factory.annotation.Autowired;
+import org.springframework.test.util.ReflectionTestUtils;
+
+import java.io.IOException;
+import java.lang.reflect.Field;
+
import static org.junit.Assert.assertEquals;
import static org.junit.Assert.assertFalse;
+import static org.junit.Assert.assertNotEquals;
import static org.junit.Assert.assertNotNull;
import static org.junit.Assert.assertNull;
import static org.junit.Assert.assertTrue;
@@ -9,25 +27,6 @@ import static org.mockito.ArgumentMatchers.anyString;
import static org.mockito.ArgumentMatchers.nullable;
import static org.mockito.Mockito.when;
-import java.io.IOException;
-import java.lang.reflect.Field;
-
-import org.junit.After;
-import org.junit.Before;
-import org.junit.Test;
-import org.mockito.Mockito;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.test.util.ReflectionTestUtils;
-
-import lcsb.mapviewer.annotation.AnnotationTestFunctions;
-import lcsb.mapviewer.annotation.cache.GeneralCacheInterface;
-import lcsb.mapviewer.annotation.cache.SourceNotAvailable;
-import lcsb.mapviewer.annotation.cache.WebPageDownloader;
-import lcsb.mapviewer.common.exception.InvalidArgumentException;
-import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
-import lcsb.mapviewer.model.map.MiriamType;
-
public class MiriamConnectorTest extends AnnotationTestFunctions {
@Autowired
@@ -36,7 +35,7 @@ public class MiriamConnectorTest extends AnnotationTestFunctions {
@Autowired
private GeneralCacheInterface cache;
- private WebPageDownloader webPageDownloader = new WebPageDownloader();
+ private final WebPageDownloader webPageDownloader = new WebPageDownloader();
@Before
public void setUp() {
@@ -50,12 +49,12 @@ public class MiriamConnectorTest extends AnnotationTestFunctions {
@Test
public void testGoUri() throws Exception {
- assertFalse(MiriamType.GO.getUris().size() == 1);
+ assertNotEquals(1, MiriamType.GO.getUris().size());
}
@Test(timeout = 15000)
public void testMeshUrl() throws Exception {
- MiriamData md = new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.MESH_2012, "D004249");
+ MiriamData md = new MiriamData(MiriamType.MESH_2012, "D004249");
assertNotNull(getWebpage(miriamConnector.getUrlString(md)));
}
diff --git a/annotation/src/test/java/lcsb/mapviewer/annotation/services/ModelAnnotatorTest.java b/annotation/src/test/java/lcsb/mapviewer/annotation/services/ModelAnnotatorTest.java
index b4f0033ce06eda8034585b773ef4d63527426fca..d1e9980b5a9d8c62d17b3e87524c9552a73c04dc 100644
--- a/annotation/src/test/java/lcsb/mapviewer/annotation/services/ModelAnnotatorTest.java
+++ b/annotation/src/test/java/lcsb/mapviewer/annotation/services/ModelAnnotatorTest.java
@@ -1,31 +1,10 @@
package lcsb.mapviewer.annotation.services;
-import static org.junit.Assert.assertEquals;
-import static org.junit.Assert.assertFalse;
-import static org.junit.Assert.assertNotNull;
-import static org.junit.Assert.assertNull;
-import static org.junit.Assert.assertTrue;
-
-import java.util.ArrayList;
-import java.util.Collection;
-import java.util.HashMap;
-import java.util.HashSet;
-import java.util.List;
-import java.util.Map;
-import java.util.Set;
-
-import org.apache.commons.lang3.mutable.MutableDouble;
-import org.junit.After;
-import org.junit.Before;
-import org.junit.Test;
-import org.springframework.beans.factory.annotation.Autowired;
-
import lcsb.mapviewer.annotation.AnnotationTestFunctions;
import lcsb.mapviewer.annotation.services.annotators.IElementAnnotator;
import lcsb.mapviewer.common.IProgressUpdater;
import lcsb.mapviewer.model.map.BioEntity;
import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
import lcsb.mapviewer.model.map.model.Model;
import lcsb.mapviewer.model.map.model.ModelFullIndexed;
@@ -40,9 +19,29 @@ import lcsb.mapviewer.model.map.species.Species;
import lcsb.mapviewer.model.user.UserAnnotationSchema;
import lcsb.mapviewer.model.user.UserClassAnnotators;
import lcsb.mapviewer.persist.dao.map.ModelDao;
+import org.apache.commons.lang3.mutable.MutableDouble;
+import org.junit.After;
+import org.junit.Before;
+import org.junit.Test;
+import org.springframework.beans.factory.annotation.Autowired;
+
+import java.util.ArrayList;
+import java.util.Collection;
+import java.util.HashMap;
+import java.util.HashSet;
+import java.util.List;
+import java.util.Map;
+import java.util.Set;
+
+import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertFalse;
+import static org.junit.Assert.assertNotEquals;
+import static org.junit.Assert.assertNotNull;
+import static org.junit.Assert.assertNull;
+import static org.junit.Assert.assertTrue;
public class ModelAnnotatorTest extends AnnotationTestFunctions {
- private IProgressUpdater updater = new IProgressUpdater() {
+ private final IProgressUpdater updater = new IProgressUpdater() {
@Override
public void setProgress(final double progress) {
}
@@ -73,7 +72,7 @@ public class ModelAnnotatorTest extends AnnotationTestFunctions {
Species protein2 = new GenericProtein("a2");
protein2.setName("PDK1");
- protein2.addMiriamData(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.CAS, "c"));
+ protein2.addMiriamData(new MiriamData(MiriamType.CAS, "c"));
model.addElement(protein1);
model.addElement(protein2);
@@ -95,7 +94,7 @@ public class ModelAnnotatorTest extends AnnotationTestFunctions {
Ion species2 = new Ion("id2");
species2.setName("h2o");
- species2.addMiriamData(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.CHEBI, "12345"));
+ species2.addMiriamData(new MiriamData(MiriamType.CHEBI, "12345"));
model.addElement(species2);
model.addReaction(new Reaction("re"));
@@ -177,10 +176,10 @@ public class ModelAnnotatorTest extends AnnotationTestFunctions {
modelAnnotator.annotateModel(model, updater, modelAnnotator.createDefaultAnnotatorSchema());
assertFalse(sa2.getNotes().contains("Symbol"));
assertNotNull(sa1.getSymbol());
- assertFalse(sa1.getSymbol().equals(""));
+ assertNotEquals("", sa1.getSymbol());
// modelAnnotator.removeIncorrectAnnotations(model, updater);
assertNotNull(sa1.getSymbol());
- assertFalse(sa1.getSymbol().equals(""));
+ assertNotEquals("", sa1.getSymbol());
assertFalse(sa1.getNotes().contains("Symbol"));
assertFalse(sa2.getNotes().contains("Symbol"));
assertNull(sa2.getSymbol());
diff --git a/annotation/src/test/java/lcsb/mapviewer/annotation/services/annotators/ChebiAnnotatorTest.java b/annotation/src/test/java/lcsb/mapviewer/annotation/services/annotators/ChebiAnnotatorTest.java
index 419856eb265edc6368ebc3b54a9e31d19741005f..086b5a60f54d9ca8ff1acfa062ed29fc21abb0a6 100644
--- a/annotation/src/test/java/lcsb/mapviewer/annotation/services/annotators/ChebiAnnotatorTest.java
+++ b/annotation/src/test/java/lcsb/mapviewer/annotation/services/annotators/ChebiAnnotatorTest.java
@@ -1,21 +1,5 @@
package lcsb.mapviewer.annotation.services.annotators;
-import static org.junit.Assert.assertEquals;
-import static org.junit.Assert.assertFalse;
-import static org.junit.Assert.assertNotNull;
-import static org.junit.Assert.assertNull;
-import static org.junit.Assert.assertTrue;
-import static org.mockito.ArgumentMatchers.any;
-
-import java.io.IOException;
-
-import org.junit.After;
-import org.junit.Before;
-import org.junit.Test;
-import org.mockito.Mockito;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.test.util.ReflectionTestUtils;
-
import lcsb.mapviewer.annotation.AnnotationTestFunctions;
import lcsb.mapviewer.annotation.cache.GeneralCacheInterface;
import lcsb.mapviewer.annotation.cache.WebPageDownloader;
@@ -23,10 +7,24 @@ import lcsb.mapviewer.annotation.data.Chebi;
import lcsb.mapviewer.annotation.services.ExternalServiceStatusType;
import lcsb.mapviewer.common.exception.InvalidArgumentException;
import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
import lcsb.mapviewer.model.map.species.SimpleMolecule;
import lcsb.mapviewer.model.map.species.Species;
+import org.junit.After;
+import org.junit.Before;
+import org.junit.Test;
+import org.mockito.Mockito;
+import org.springframework.beans.factory.annotation.Autowired;
+import org.springframework.test.util.ReflectionTestUtils;
+
+import java.io.IOException;
+
+import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertNotEquals;
+import static org.junit.Assert.assertNotNull;
+import static org.junit.Assert.assertNull;
+import static org.junit.Assert.assertTrue;
+import static org.mockito.ArgumentMatchers.any;
public class ChebiAnnotatorTest extends AnnotationTestFunctions {
@@ -171,11 +169,11 @@ public class ChebiAnnotatorTest extends AnnotationTestFunctions {
}
}
- assertFalse(simpleMolecule.getFullName().equals(""));
+ assertNotEquals("", simpleMolecule.getFullName());
assertNotNull(inchi);
assertNotNull(inchiKey);
- assertFalse(simpleMolecule.getSmiles().equals(""));
- assertFalse(simpleMolecule.getSynonyms().size() == 0);
+ assertNotEquals("", simpleMolecule.getSmiles());
+ assertNotEquals(0, simpleMolecule.getSynonyms().size());
}
@Test(expected = AnnotatorException.class)
@@ -206,7 +204,7 @@ public class ChebiAnnotatorTest extends AnnotationTestFunctions {
public void testUpdateChemicalFromDb() throws Exception {
SimpleMolecule simpleMolecule = new SimpleMolecule("id");
simpleMolecule
- .addMiriamData(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.CHEBI, "CHEBI:15377"));
+ .addMiriamData(new MiriamData(MiriamType.CHEBI, "CHEBI:15377"));
backend.annotateElement(simpleMolecule);
@@ -221,11 +219,11 @@ public class ChebiAnnotatorTest extends AnnotationTestFunctions {
inchiKey = md;
}
}
- assertFalse("".equals(simpleMolecule.getFullName()));
+ assertNotEquals("", simpleMolecule.getFullName());
assertNotNull(inchi);
assertNotNull(inchiKey);
- assertFalse(simpleMolecule.getSmiles().equals(""));
- assertFalse(simpleMolecule.getSynonyms().size() == 0);
+ assertNotEquals("", simpleMolecule.getSmiles());
+ assertNotEquals(0, simpleMolecule.getSynonyms().size());
}
@Test
@@ -236,7 +234,7 @@ public class ChebiAnnotatorTest extends AnnotationTestFunctions {
simpleMolecule.setSmiles("x");
simpleMolecule.addSynonym("x");
simpleMolecule
- .addMiriamData(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.CHEBI, "CHEBI:15377"));
+ .addMiriamData(new MiriamData(MiriamType.CHEBI, "CHEBI:15377"));
backend.annotateElement(simpleMolecule);
@@ -295,8 +293,8 @@ public class ChebiAnnotatorTest extends AnnotationTestFunctions {
}
}
- assertTrue("No STITCH annotation extracted from STITCH annotator", mdStitch != null);
- assertTrue("Wrong number of Stitch annotations ", counter == 1);
+ assertNotNull("No STITCH annotation extracted from STITCH annotator", mdStitch);
+ assertEquals("Wrong number of Stitch annotations ", 1, counter);
assertTrue("Invalid STITCH annotation extracted from STITCH annotator based on CHEBI ID",
mdStitch.getResource().equalsIgnoreCase("WBYWAXJHAXSJNI"));
}
diff --git a/annotation/src/test/java/lcsb/mapviewer/annotation/services/annotators/GoAnnotatorTest.java b/annotation/src/test/java/lcsb/mapviewer/annotation/services/annotators/GoAnnotatorTest.java
index bfb8cdd95f5696f81f04d2830f51ee865478f565..059ebe14907cdc672ed0c570898bb7f52c43982e 100644
--- a/annotation/src/test/java/lcsb/mapviewer/annotation/services/annotators/GoAnnotatorTest.java
+++ b/annotation/src/test/java/lcsb/mapviewer/annotation/services/annotators/GoAnnotatorTest.java
@@ -1,22 +1,5 @@
package lcsb.mapviewer.annotation.services.annotators;
-import static org.junit.Assert.assertEquals;
-import static org.junit.Assert.assertFalse;
-import static org.junit.Assert.assertNotNull;
-import static org.junit.Assert.assertTrue;
-import static org.mockito.ArgumentMatchers.anyString;
-import static org.mockito.ArgumentMatchers.nullable;
-import static org.mockito.Mockito.when;
-
-import java.io.IOException;
-
-import org.junit.After;
-import org.junit.Before;
-import org.junit.Test;
-import org.mockito.Mockito;
-import org.springframework.beans.factory.annotation.Autowired;
-import org.springframework.test.util.ReflectionTestUtils;
-
import lcsb.mapviewer.annotation.AnnotationTestFunctions;
import lcsb.mapviewer.annotation.cache.GeneralCacheInterface;
import lcsb.mapviewer.annotation.cache.SourceNotAvailable;
@@ -25,9 +8,24 @@ import lcsb.mapviewer.annotation.data.Go;
import lcsb.mapviewer.annotation.services.ExternalServiceStatusType;
import lcsb.mapviewer.common.exception.InvalidArgumentException;
import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
import lcsb.mapviewer.model.map.compartment.Compartment;
+import org.junit.After;
+import org.junit.Before;
+import org.junit.Test;
+import org.mockito.Mockito;
+import org.springframework.beans.factory.annotation.Autowired;
+import org.springframework.test.util.ReflectionTestUtils;
+
+import java.io.IOException;
+
+import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertNotEquals;
+import static org.junit.Assert.assertNotNull;
+import static org.junit.Assert.assertTrue;
+import static org.mockito.ArgumentMatchers.anyString;
+import static org.mockito.ArgumentMatchers.nullable;
+import static org.mockito.Mockito.when;
public class GoAnnotatorTest extends AnnotationTestFunctions {
@@ -37,7 +35,7 @@ public class GoAnnotatorTest extends AnnotationTestFunctions {
@Autowired
private GeneralCacheInterface cache;
- private WebPageDownloader webPageDownloader = new WebPageDownloader();
+ private final WebPageDownloader webPageDownloader = new WebPageDownloader();
@Before
public void setUp() throws Exception {
@@ -53,15 +51,15 @@ public class GoAnnotatorTest extends AnnotationTestFunctions {
public void testContent() throws Exception {
Compartment compartmentAlias = new Compartment("id");
compartmentAlias
- .addMiriamData(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.GO, "GO:0046902"));
+ .addMiriamData(new MiriamData(MiriamType.GO, "GO:0046902"));
goAnnotator.annotateElement(compartmentAlias);
- assertFalse(compartmentAlias.getFullName().equals(""));
- assertFalse(compartmentAlias.getNotes().equals(""));
+ assertNotEquals("", compartmentAlias.getFullName());
+ assertNotEquals("", compartmentAlias.getNotes());
}
@Test
public void testGetGoData() throws Exception {
- MiriamData md = new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.GO, "GO:0042644");
+ MiriamData md = new MiriamData(MiriamType.GO, "GO:0042644");
Go go = goAnnotator.getGoElement(md);
assertEquals("GO:0042644", go.getGoTerm());
assertNotNull(go.getCommonName());
@@ -73,7 +71,7 @@ public class GoAnnotatorTest extends AnnotationTestFunctions {
public void testAnnotateWhenProblemWithNetworkResponse() throws Exception {
ReflectionTestUtils.setField(goAnnotator, "cache", null);
- MiriamData md = new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.GO, "GO:0042644");
+ MiriamData md = new MiriamData(MiriamType.GO, "GO:0042644");
WebPageDownloader downloader = Mockito.mock(WebPageDownloader.class);
when(downloader.getFromNetwork(anyString(), anyString(), nullable(String.class))).thenReturn("");
ReflectionTestUtils.setField(goAnnotator, "webPageDownloader", downloader);
diff --git a/converter-CellDesigner/src/test/java/lcsb/mapviewer/converter/model/celldesigner/annotation/RestAnnotationParserTest.java b/converter-CellDesigner/src/test/java/lcsb/mapviewer/converter/model/celldesigner/annotation/RestAnnotationParserTest.java
index b48af662cc6040a5f8ea6033e040067baab0435e..1ab0102ac738e4bc4d7ab1b1516016ea8ae3263d 100644
--- a/converter-CellDesigner/src/test/java/lcsb/mapviewer/converter/model/celldesigner/annotation/RestAnnotationParserTest.java
+++ b/converter-CellDesigner/src/test/java/lcsb/mapviewer/converter/model/celldesigner/annotation/RestAnnotationParserTest.java
@@ -1,36 +1,34 @@
package lcsb.mapviewer.converter.model.celldesigner.annotation;
-import static org.junit.Assert.assertEquals;
-import static org.junit.Assert.assertFalse;
-import static org.junit.Assert.assertNotNull;
-import static org.junit.Assert.assertNull;
-import static org.junit.Assert.assertTrue;
-
-import java.awt.Color;
-import java.util.List;
-import java.util.Set;
-
-import org.apache.xerces.dom.DocumentImpl;
-import org.junit.After;
-import org.junit.Before;
-import org.junit.Test;
-import org.mockito.Mockito;
-import org.w3c.dom.Document;
-import org.w3c.dom.Node;
-
import lcsb.mapviewer.common.exception.InvalidArgumentException;
import lcsb.mapviewer.common.exception.NotImplementedException;
import lcsb.mapviewer.converter.model.celldesigner.CellDesignerTestFunctions;
import lcsb.mapviewer.converter.model.celldesigner.structure.CellDesignerElement;
import lcsb.mapviewer.model.map.BioEntity;
import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
import lcsb.mapviewer.model.map.model.Model;
import lcsb.mapviewer.model.map.reaction.Reaction;
import lcsb.mapviewer.model.map.species.Element;
import lcsb.mapviewer.model.map.species.GenericProtein;
import lcsb.mapviewer.model.map.species.Species;
+import org.apache.xerces.dom.DocumentImpl;
+import org.junit.After;
+import org.junit.Before;
+import org.junit.Test;
+import org.mockito.Mockito;
+import org.w3c.dom.Document;
+import org.w3c.dom.Node;
+
+import java.awt.Color;
+import java.util.List;
+import java.util.Set;
+
+import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertFalse;
+import static org.junit.Assert.assertNotNull;
+import static org.junit.Assert.assertNull;
+import static org.junit.Assert.assertTrue;
public class RestAnnotationParserTest extends CellDesignerTestFunctions {
@@ -170,9 +168,9 @@ public class RestAnnotationParserTest extends CellDesignerTestFunctions {
if (element.getName().equals("blabla")) {
assertEquals(2, element.getMiriamData().size());
element.getMiriamData()
- .add(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.PUBMED, "12345"));
+ .add(new MiriamData(MiriamType.PUBMED, "12345"));
element.getMiriamData()
- .add(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.PUBMED, "333666"));
+ .add(new MiriamData(MiriamType.PUBMED, "333666"));
assertEquals(2, element.getMiriamData().size());
}
assertFalse(element.getNotes().contains("rdf:RDF"));
@@ -305,8 +303,7 @@ public class RestAnnotationParserTest extends CellDesignerTestFunctions {
+ "Description: VMH database: <a xmlns=\"http://www.w3.org/1999/xhtml\" href=\"http://vmh.uni.lu/#metabolite/mma\">mma</a>\n"
+ "SemanticZoomLevelVisibility: 5\n"
+ "Charge: 0\n"
- + "</notes>\n"
- + "");
+ + "</notes>\n");
String notes = rap.getNotes(node);
assertFalse(notes.contains("http://www.w3.org/1999/xhtml"));
}
diff --git a/converter-SBGNML/src/test/java/lcsb/mapviewer/converter/model/sbgnml/SbgnmlXmlExporterTest.java b/converter-SBGNML/src/test/java/lcsb/mapviewer/converter/model/sbgnml/SbgnmlXmlExporterTest.java
index 34655cfe5df8cc06dfee66b6c0759707eb78eb81..2b34837e9dd83824f21f9fe1aac7fb1fb67e4461 100644
--- a/converter-SBGNML/src/test/java/lcsb/mapviewer/converter/model/sbgnml/SbgnmlXmlExporterTest.java
+++ b/converter-SBGNML/src/test/java/lcsb/mapviewer/converter/model/sbgnml/SbgnmlXmlExporterTest.java
@@ -172,7 +172,7 @@ public class SbgnmlXmlExporterTest extends SbgnmlTestFunctions {
assertTrue(SbgnUtil.isValid(tempFile));
}
-
+ isDescribedBy
@Test
public void importExportZ() throws Exception {
Compartment compartment = createCompartment();
diff --git a/converter/src/test/java/lcsb/mapviewer/converter/annotation/XmlAnnotationParserTest.java b/converter/src/test/java/lcsb/mapviewer/converter/annotation/XmlAnnotationParserTest.java
index 50b2e81a90371e4c4d5967e69295fd6765f27aa4..5c03c95b12acf2e6ff624496d7eea126ccce9543 100644
--- a/converter/src/test/java/lcsb/mapviewer/converter/annotation/XmlAnnotationParserTest.java
+++ b/converter/src/test/java/lcsb/mapviewer/converter/annotation/XmlAnnotationParserTest.java
@@ -1,23 +1,21 @@
package lcsb.mapviewer.converter.annotation;
-import static org.junit.Assert.assertEquals;
-import static org.junit.Assert.assertNotEquals;
-import static org.junit.Assert.assertNotNull;
-import static org.junit.Assert.assertTrue;
-
-import java.util.Arrays;
-import java.util.Set;
-
-import org.junit.After;
-import org.junit.Before;
-import org.junit.Test;
-import org.w3c.dom.Node;
-
import lcsb.mapviewer.common.exception.InvalidXmlSchemaException;
import lcsb.mapviewer.converter.ConverterTestFunctions;
import lcsb.mapviewer.model.map.MiriamData;
import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
+import org.junit.After;
+import org.junit.Before;
+import org.junit.Test;
+
+import java.util.Collections;
+import java.util.Set;
+
+import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertNotEquals;
+import static org.junit.Assert.assertNotNull;
+import static org.junit.Assert.assertTrue;
public class XmlAnnotationParserTest extends ConverterTestFunctions {
@@ -52,7 +50,7 @@ public class XmlAnnotationParserTest extends ConverterTestFunctions {
@Test
public void testMiriamDataToXmlAndBack() throws Exception {
- MiriamData md = new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.CHEBI, "e:f");
+ MiriamData md = new MiriamData(MiriamType.CHEBI, "e:f");
XmlAnnotationParser parser = new XmlAnnotationParser();
String xml = parser.miriamDataToXmlString(md);
assertNotNull(xml);
@@ -70,7 +68,7 @@ public class XmlAnnotationParserTest extends ConverterTestFunctions {
public void testParseInvalidRdf() throws Exception {
XmlAnnotationParser xap = new XmlAnnotationParser();
- xap.parseRdfNode((Node) null, null);
+ xap.parseRdfNode(null, null);
}
@Test
@@ -115,8 +113,8 @@ public class XmlAnnotationParserTest extends ConverterTestFunctions {
@Test
public void testMiriamDataToXmlWithUnsupportedType() throws Exception {
- MiriamData md = new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.CHEBI, "e:f");
- XmlAnnotationParser parser = new XmlAnnotationParser(Arrays.asList(MiriamRelationType.BQ_BIOL_ENCODES));
+ MiriamData md = new MiriamData(MiriamType.CHEBI, "e:f");
+ XmlAnnotationParser parser = new XmlAnnotationParser(Collections.singletonList(MiriamRelationType.BQ_BIOL_ENCODES));
String xml = parser.miriamDataToXmlString(md);
Set<MiriamData> set = parser.parseMiriamNode(super.getNodeFromXmlString(xml), null);
assertNotNull(set);
diff --git a/model/src/main/java/lcsb/mapviewer/model/map/MiriamData.java b/model/src/main/java/lcsb/mapviewer/model/map/MiriamData.java
index 71c1fd0ca684c574e20095ef551678b88a8f057d..93a0f0f3999bc4b538478bed745b7ca6ca1d28f7 100644
--- a/model/src/main/java/lcsb/mapviewer/model/map/MiriamData.java
+++ b/model/src/main/java/lcsb/mapviewer/model/map/MiriamData.java
@@ -134,7 +134,7 @@ public class MiriamData implements Comparable<MiriamData>, Serializable {
* @param resource {@link #resource}
*/
public MiriamData(final MiriamType mt, final String resource, final Class<?> annotator) {
- this(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, mt, resource, annotator);
+ this(MiriamRelationType.BQ_BIOL_IS, mt, resource, annotator);
}
/**
diff --git a/model/src/main/java/lcsb/mapviewer/model/map/MiriamType.java b/model/src/main/java/lcsb/mapviewer/model/map/MiriamType.java
index 9938bda0474f12fd7e18efabed85ce0962251542..9d9bb94a7da90418a643685b1f6d0a9f08d3e339 100644
--- a/model/src/main/java/lcsb/mapviewer/model/map/MiriamType.java
+++ b/model/src/main/java/lcsb/mapviewer/model/map/MiriamType.java
@@ -1,13 +1,5 @@
package lcsb.mapviewer.model.map;
-import java.io.UnsupportedEncodingException;
-import java.net.URLDecoder;
-import java.util.ArrayList;
-import java.util.List;
-
-import org.apache.logging.log4j.LogManager;
-import org.apache.logging.log4j.Logger;
-
import lcsb.mapviewer.common.exception.InvalidArgumentException;
import lcsb.mapviewer.model.map.compartment.Compartment;
import lcsb.mapviewer.model.map.reaction.Reaction;
@@ -18,694 +10,701 @@ import lcsb.mapviewer.model.map.species.Gene;
import lcsb.mapviewer.model.map.species.Phenotype;
import lcsb.mapviewer.model.map.species.Protein;
import lcsb.mapviewer.model.map.species.Rna;
+import org.apache.logging.log4j.LogManager;
+import org.apache.logging.log4j.Logger;
+
+import java.io.UnsupportedEncodingException;
+import java.net.URLDecoder;
+import java.util.ArrayList;
+import java.util.Collections;
+import java.util.List;
/**
* Type of known miriam annotation.
- *
+ *
* @author Piotr Gawron
- *
*/
@SuppressWarnings("unchecked")
public enum MiriamType {
_3DMET("3DMET",
"http://www.3dmet.dna.affrc.go.jp/",
- new String[] { "urn:miriam:3dmet",
+ new String[]{"urn:miriam:3dmet",
"http://identifiers.org/3dmet/",
"http://identifiers.org/3dmet",
"https://identifiers.org/3dmet/",
"https://identifiers.org/3dmet",
},
- new Class<?>[] {},
+ new Class<?>[]{},
" MIR:00000066",
- new Class<?>[] {},
+ new Class<?>[]{},
"3dmet",
"B01164"),
ABS("ABS",
"http://genome.crg.es/datasets/abs2005/",
- new String[] { "urn:miriam:abs",
+ new String[]{"urn:miriam:abs",
"http://identifiers.org/abs/",
"http://identifiers.org/abs",
"https://identifiers.org/abs/",
"https://identifiers.org/abs",
- }, new Class<?>[] {}, "MIR:00000277",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000277",
+ new Class<?>[]{},
"abs",
"A0014"),
ACEVIEW_WORM("Aceview Worm",
"https://www.ncbi.nlm.nih.gov/IEB/Research/Acembly/index.html?worm",
- new String[] { "urn:miriam:aceview.worm",
+ new String[]{"urn:miriam:aceview.worm",
"http://identifiers.org/aceview.worm/",
"http://identifiers.org/aceview.worm",
"https://identifiers.org/aceview.worm/",
"https://identifiers.org/aceview.worm",
- }, new Class<?>[] {}, "MIR:00000282",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000282",
+ new Class<?>[]{},
"aceview.worm",
"aap-1"),
AFFYMETRIX_PROBESET("Affymetrix Probeset",
"http://www.affymetrix.com/",
- new String[] { "urn:miriam:affy.probeset",
+ new String[]{"urn:miriam:affy.probeset",
"http://identifiers.org/affy.probeset/",
"http://identifiers.org/affy.probeset",
"https://identifiers.org/affy.probeset/",
"https://identifiers.org/affy.probeset",
- }, new Class<?>[] {}, "MIR:00000394",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000394",
+ new Class<?>[]{},
"affy.probeset",
"243002_at"),
AFTOL("AFTOL",
"http://aftol.org/data.php",
- new String[] { "urn:miriam:aftol.taxonomy",
+ new String[]{"urn:miriam:aftol.taxonomy",
"http://identifiers.org/aftol.taxonomy/",
"http://identifiers.org/aftol.taxonomy",
"https://identifiers.org/aftol.taxonomy/",
"https://identifiers.org/aftol.taxonomy",
- }, new Class<?>[] {}, "MIR:00000411",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000411",
+ new Class<?>[]{},
"aftol.taxonomy",
"959"),
ALLERGOME("Allergome",
"http://www.allergome.org/",
- new String[] { "urn:miriam:allergome",
+ new String[]{"urn:miriam:allergome",
"http://identifiers.org/allergome/",
"http://identifiers.org/allergome",
"https://identifiers.org/allergome/",
"https://identifiers.org/allergome",
- }, new Class<?>[] {}, "MIR:00000334",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000334",
+ new Class<?>[]{},
"allergome",
"1948"),
AMOEBADB("AmoebaDB",
"http://amoebadb.org/amoeba/",
- new String[] { "urn:miriam:amoebadb",
+ new String[]{"urn:miriam:amoebadb",
"http://identifiers.org/amoebadb/",
"http://identifiers.org/amoebadb",
"https://identifiers.org/amoebadb/",
"https://identifiers.org/amoebadb",
- }, new Class<?>[] {}, "MIR:00000148",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000148",
+ new Class<?>[]{},
"amoebadb",
"EDI_244000"),
ANATOMICAL_THERAPEUTIC_CHEMICAL("Anatomical Therapeutic Chemical",
"http://www.whocc.no/atc_ddd_index/",
- new String[] { "urn:miriam:atc",
+ new String[]{"urn:miriam:atc",
"http://identifiers.org/atc/",
"http://identifiers.org/atc",
"https://identifiers.org/atc/",
"https://identifiers.org/atc",
- }, new Class<?>[] {}, "MIR:00000088",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000088",
+ new Class<?>[]{},
"atc",
"A10BA02"),
ANATOMICAL_THERAPEUTIC_CHEMICAL_VETINARY("Anatomical Therapeutic Chemical Vetinary",
"http://www.whocc.no/atcvet/atcvet_index/",
- new String[] { "urn:miriam:atcvet",
+ new String[]{"urn:miriam:atcvet",
"http://identifiers.org/atcvet/",
"http://identifiers.org/atcvet",
"https://identifiers.org/atcvet/",
"https://identifiers.org/atcvet",
- }, new Class<?>[] {}, "MIR:00000267",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000267",
+ new Class<?>[]{},
"atcvet",
"QJ51RV02"),
ANIMAL_DIVERSITY_WEB("Animal Diversity Web",
"https://animaldiversity.org/",
- new String[] { "urn:miriam:adw",
+ new String[]{"urn:miriam:adw",
"http://identifiers.org/adw/",
"http://identifiers.org/adw",
"https://identifiers.org/adw/",
"https://identifiers.org/adw",
- }, new Class<?>[] {}, "MIR:00000492",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000492",
+ new Class<?>[]{},
"adw",
"Lycalopex_vetulus"),
ANIMAL_GENOME_CATTLE_QTL("Animal Genome Cattle QTL",
"https://www.animalgenome.org/QTLdb",
- new String[] { "urn:miriam:cattleqtldb",
+ new String[]{"urn:miriam:cattleqtldb",
"http://identifiers.org/cattleqtldb/",
"http://identifiers.org/cattleqtldb",
"https://identifiers.org/cattleqtldb/",
"https://identifiers.org/cattleqtldb",
- }, new Class<?>[] {}, "MIR:00000504",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000504",
+ new Class<?>[]{},
"cattleqtldb",
"4685"),
ANIMAL_GENOME_CHICKEN_QTL("Animal Genome Chicken QTL",
"https://www.animalgenome.org/QTLdb",
- new String[] { "urn:miriam:chickenqtldb",
+ new String[]{"urn:miriam:chickenqtldb",
"http://identifiers.org/chickenqtldb/",
"http://identifiers.org/chickenqtldb",
"https://identifiers.org/chickenqtldb/",
"https://identifiers.org/chickenqtldb",
- }, new Class<?>[] {}, "MIR:00000505",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000505",
+ new Class<?>[]{},
"chickenqtldb",
"14362"),
ANIMAL_GENOME_PIG_QTL("Animal Genome Pig QTL",
"https://www.animalgenome.org/QTLdb",
- new String[] { "urn:miriam:pigqtldb",
+ new String[]{"urn:miriam:pigqtldb",
"http://identifiers.org/pigqtldb/",
"http://identifiers.org/pigqtldb",
"https://identifiers.org/pigqtldb/",
"https://identifiers.org/pigqtldb",
- }, new Class<?>[] {}, "MIR:00000506",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000506",
+ new Class<?>[]{},
"pigqtldb",
"14"),
ANIMAL_GENOME_SHEEP_QTL("Animal Genome Sheep QTL",
"https://www.animalgenome.org/QTLdb",
- new String[] { "urn:miriam:sheepqtldb",
+ new String[]{"urn:miriam:sheepqtldb",
"http://identifiers.org/sheepqtldb/",
"http://identifiers.org/sheepqtldb",
"https://identifiers.org/sheepqtldb/",
"https://identifiers.org/sheepqtldb",
- }, new Class<?>[] {}, "MIR:00000507",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000507",
+ new Class<?>[]{},
"sheepqtldb",
"19803"),
ANIMAL_TFDB_FAMILY("Animal TFDB Family",
"http://www.bioguo.org/AnimalTFDB/family_index.php",
- new String[] { "urn:miriam:atfdb.family",
+ new String[]{"urn:miriam:atfdb.family",
"http://identifiers.org/atfdb.family/",
"http://identifiers.org/atfdb.family",
"https://identifiers.org/atfdb.family/",
"https://identifiers.org/atfdb.family",
- }, new Class<?>[] {}, "MIR:00000316",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000316",
+ new Class<?>[]{},
"atfdb.family",
"CUT"),
ANTIBIOTIC_RESISTANCE_GENES_DATABASE("Antibiotic Resistance Genes Database",
"http://ardb.cbcb.umd.edu/",
- new String[] { "urn:miriam:ardb",
+ new String[]{"urn:miriam:ardb",
"http://identifiers.org/ardb/",
"http://identifiers.org/ardb",
"https://identifiers.org/ardb/",
"https://identifiers.org/ardb",
- }, new Class<?>[] {}, "MIR:00000522",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000522",
+ new Class<?>[]{},
"ardb",
"CAE46076"),
ANTIBODY_REGISTRY("Antibody Registry",
"http://antibodyregistry.org/",
- new String[] { "urn:miriam:antibodyregistry",
+ new String[]{"urn:miriam:antibodyregistry",
"http://identifiers.org/antibodyregistry/",
"http://identifiers.org/antibodyregistry",
"https://identifiers.org/antibodyregistry/",
"https://identifiers.org/antibodyregistry",
- }, new Class<?>[] {}, "MIR:00000516",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000516",
+ new Class<?>[]{},
"antibodyregistry",
"493771"),
ANTWEB("AntWeb",
"http://www.antweb.org/",
- new String[] { "urn:miriam:antweb",
+ new String[]{"urn:miriam:antweb",
"http://identifiers.org/antweb/",
"http://identifiers.org/antweb",
"https://identifiers.org/antweb/",
"https://identifiers.org/antweb",
- }, new Class<?>[] {}, "MIR:00000146",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000146",
+ new Class<?>[]{},
"antweb",
"casent0106247"),
APD("APD",
"http://aps.unmc.edu/AP/",
- new String[] { "urn:miriam:apd",
+ new String[]{"urn:miriam:apd",
"http://identifiers.org/apd/",
"http://identifiers.org/apd",
"https://identifiers.org/apd/",
"https://identifiers.org/apd",
- }, new Class<?>[] {}, "MIR:00000278",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000278",
+ new Class<?>[]{},
"apd",
"01001"),
APHIDBASE_TRANSCRIPT("AphidBase Transcript",
"http://www.aphidbase.com/aphidbase",
- new String[] { "urn:miriam:aphidbase.transcript",
+ new String[]{"urn:miriam:aphidbase.transcript",
"http://identifiers.org/aphidbase.transcript/",
"http://identifiers.org/aphidbase.transcript",
"https://identifiers.org/aphidbase.transcript/",
"https://identifiers.org/aphidbase.transcript",
- }, new Class<?>[] {}, "MIR:00000393",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000393",
+ new Class<?>[]{},
"aphidbase.transcript",
"ACYPI000159"),
ARACHNOSERVER("ArachnoServer",
"http://www.arachnoserver.org/",
- new String[] { "urn:miriam:arachnoserver",
+ new String[]{"urn:miriam:arachnoserver",
"http://identifiers.org/arachnoserver/",
"http://identifiers.org/arachnoserver",
"https://identifiers.org/arachnoserver/",
"https://identifiers.org/arachnoserver",
- }, new Class<?>[] {}, "MIR:00000193",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000193",
+ new Class<?>[]{},
"arachnoserver",
"AS000060"),
ARRAYEXPRESS("ArrayExpress",
"https://www.ebi.ac.uk/arrayexpress/",
- new String[] { "urn:miriam:arrayexpress",
+ new String[]{"urn:miriam:arrayexpress",
"http://identifiers.org/arrayexpress/",
"http://identifiers.org/arrayexpress",
"https://identifiers.org/arrayexpress/",
"https://identifiers.org/arrayexpress",
- }, new Class<?>[] {}, "MIR:00000036",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000036",
+ new Class<?>[]{},
"arrayexpress",
"E-MEXP-1712"),
ARRAYEXPRESS_PLATFORM("ArrayExpress Platform",
"https://www.ebi.ac.uk/arrayexpress/",
- new String[] { "urn:miriam:arrayexpress.platform",
+ new String[]{"urn:miriam:arrayexpress.platform",
"http://identifiers.org/arrayexpress.platform/",
"http://identifiers.org/arrayexpress.platform",
"https://identifiers.org/arrayexpress.platform/",
"https://identifiers.org/arrayexpress.platform",
- }, new Class<?>[] {}, "MIR:00000294",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000294",
+ new Class<?>[]{},
"arrayexpress.platform",
"A-GEOD-50"),
ARXIV("arXiv",
"https://arxiv.org/",
- new String[] { "urn:miriam:arxiv", "urn:oai:arXiv.org",
+ new String[]{"urn:miriam:arxiv", "urn:oai:arXiv.org",
"http://identifiers.org/arxiv/",
"http://identifiers.org/arxiv",
"https://identifiers.org/arxiv/",
"https://identifiers.org/arxiv",
- }, new Class<?>[] {}, "MIR:00000035",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000035",
+ new Class<?>[]{},
"arxiv",
"0807.4956v1"),
ASAP("ASAP",
"http://asap.ahabs.wisc.edu/asap/home.php",
- new String[] { "urn:miriam:asap",
+ new String[]{"urn:miriam:asap",
"http://identifiers.org/asap/",
"http://identifiers.org/asap",
"https://identifiers.org/asap/",
"https://identifiers.org/asap",
- }, new Class<?>[] {}, "MIR:00000283",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000283",
+ new Class<?>[]{},
"asap",
"ABE-0009634"),
ASPGD_LOCUS("AspGD Locus",
"http://www.aspgd.org/",
- new String[] { "urn:miriam:aspgd.locus",
+ new String[]{"urn:miriam:aspgd.locus",
"http://identifiers.org/aspgd.locus/",
"http://identifiers.org/aspgd.locus",
"https://identifiers.org/aspgd.locus/",
"https://identifiers.org/aspgd.locus",
- }, new Class<?>[] {}, "MIR:00000412",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000412",
+ new Class<?>[]{},
"aspgd.locus",
"ASPL0000349247"),
ASPGD_PROTEIN("AspGD Protein",
"http://www.aspgd.org/",
- new String[] { "urn:miriam:aspgd.protein",
+ new String[]{"urn:miriam:aspgd.protein",
"http://identifiers.org/aspgd.protein/",
"http://identifiers.org/aspgd.protein",
"https://identifiers.org/aspgd.protein/",
"https://identifiers.org/aspgd.protein",
- }, new Class<?>[] {}, "MIR:00000413",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000413",
+ new Class<?>[]{},
"aspgd.protein",
"ASPL0000052200"),
ATCC("ATCC",
"http://www.atcc.org/",
- new String[] { "urn:miriam:atcc",
+ new String[]{"urn:miriam:atcc",
"http://identifiers.org/atcc/",
"http://identifiers.org/atcc",
"https://identifiers.org/atcc/",
"https://identifiers.org/atcc",
- }, new Class<?>[] {}, "MIR:00000284",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000284",
+ new Class<?>[]{},
"atcc",
"11303"),
AUTDB("AutDB",
"http://autism.mindspec.org/autdb/",
- new String[] { "urn:miriam:autdb",
+ new String[]{"urn:miriam:autdb",
"http://identifiers.org/autdb/",
"http://identifiers.org/autdb",
"https://identifiers.org/autdb/",
"https://identifiers.org/autdb",
- }, new Class<?>[] {}, "MIR:00000415",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000415",
+ new Class<?>[]{},
"autdb",
"ADA"),
BACMAP_BIOGRAPHY("BacMap Biography",
"http://bacmap.wishartlab.com/",
- new String[] { "urn:miriam:bacmap.biog",
+ new String[]{"urn:miriam:bacmap.biog",
"http://identifiers.org/bacmap.biog/",
"http://identifiers.org/bacmap.biog",
"https://identifiers.org/bacmap.biog/",
"https://identifiers.org/bacmap.biog",
- }, new Class<?>[] {}, "MIR:00000361",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000361",
+ new Class<?>[]{},
"bacmap.biog",
"1050"),
BACMAP_MAP("BacMap Map",
"http://bacmap.wishartlab.com/",
- new String[] { "urn:miriam:bacmap.map",
+ new String[]{"urn:miriam:bacmap.map",
"http://identifiers.org/bacmap.map/",
"http://identifiers.org/bacmap.map",
"https://identifiers.org/bacmap.map/",
"https://identifiers.org/bacmap.map",
- }, new Class<?>[] {}, "MIR:00000416",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000416",
+ new Class<?>[]{},
"bacmap.map",
"AP011135"),
BDGP_EST("BDGP EST",
"https://www.ncbi.nlm.nih.gov/dbEST/index.html",
- new String[] { "urn:miriam:bdgp.est",
+ new String[]{"urn:miriam:bdgp.est",
"http://identifiers.org/bdgp.est/",
"http://identifiers.org/bdgp.est",
"https://identifiers.org/bdgp.est/",
"https://identifiers.org/bdgp.est",
- }, new Class<?>[] {}, "MIR:00000285",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000285",
+ new Class<?>[]{},
"bdgp.est",
"EY223054.1"),
BDGP_INSERTION_DB("BDGP insertion DB",
"http://flypush.imgen.bcm.tmc.edu/pscreen/",
- new String[] { "urn:miriam:bdgp.insertion",
+ new String[]{"urn:miriam:bdgp.insertion",
"http://identifiers.org/bdgp.insertion/",
"http://identifiers.org/bdgp.insertion",
"https://identifiers.org/bdgp.insertion/",
"https://identifiers.org/bdgp.insertion",
- }, new Class<?>[] {}, "MIR:00000156",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000156",
+ new Class<?>[]{},
"bdgp.insertion",
"KG09531"),
BEETLEBASE("BeetleBase",
"http://beetlebase.org/",
- new String[] { "urn:miriam:beetlebase",
+ new String[]{"urn:miriam:beetlebase",
"http://identifiers.org/beetlebase/",
"http://identifiers.org/beetlebase",
"https://identifiers.org/beetlebase/",
"https://identifiers.org/beetlebase",
- }, new Class<?>[] {}, "MIR:00000157",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000157",
+ new Class<?>[]{},
"beetlebase",
"TC010103"),
BGEE_FAMILY("Bgee family",
"http://bgee.unil.ch/bgee/bgee",
- new String[] { "urn:miriam:bgee.family",
+ new String[]{"urn:miriam:bgee.family",
"http://identifiers.org/bgee.family/",
"http://identifiers.org/bgee.family",
"https://identifiers.org/bgee.family/",
"https://identifiers.org/bgee.family",
- }, new Class<?>[] {}, "MIR:00000417",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000417",
+ new Class<?>[]{},
"bgee.family",
"ENSFM00500000270089"),
BGEE_GENE("Bgee gene",
"https://bgee.org/",
- new String[] { "urn:miriam:bgee.gene",
+ new String[]{"urn:miriam:bgee.gene",
"http://identifiers.org/bgee.gene/",
"http://identifiers.org/bgee.gene",
"https://identifiers.org/bgee.gene/",
"https://identifiers.org/bgee.gene",
- }, new Class<?>[] {}, "MIR:00000418",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000418",
+ new Class<?>[]{},
"bgee.gene",
"FBgn0000015"),
BGEE_ORGAN("Bgee organ",
"http://bgee.unil.ch/bgee/bgee",
- new String[] { "urn:miriam:bgee.organ",
+ new String[]{"urn:miriam:bgee.organ",
"http://identifiers.org/bgee.organ/",
"http://identifiers.org/bgee.organ",
"https://identifiers.org/bgee.organ/",
"https://identifiers.org/bgee.organ",
- }, new Class<?>[] {}, "MIR:00000420",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000420",
+ new Class<?>[]{},
"bgee.organ",
"EHDAA:2185"),
BGEE_STAGE("Bgee stage",
"http://bgee.unil.ch/bgee/bgee",
- new String[] { "urn:miriam:bgee.stage",
+ new String[]{"urn:miriam:bgee.stage",
"http://identifiers.org/bgee.stage/",
"http://identifiers.org/bgee.stage",
"https://identifiers.org/bgee.stage/",
"https://identifiers.org/bgee.stage",
- }, new Class<?>[] {}, "MIR:00000419",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000419",
+ new Class<?>[]{},
"bgee.stage",
"HsapDO:0000004"),
BiGG_COMPARTMENT("BiGG Compartment",
"http://bigg.ucsd.edu/compartments/",
- new String[] { "urn:miriam:bigg.compartment",
+ new String[]{"urn:miriam:bigg.compartment",
"http://identifiers.org/bigg.compartment/",
"http://identifiers.org/bigg.compartment",
"https://identifiers.org/bigg.compartment/",
"https://identifiers.org/bigg.compartment",
},
- new Class<?>[] {},
+ new Class<?>[]{},
"MIR:00000555",
- new Class<?>[] {},
+ new Class<?>[]{},
"bigg.compartment",
"c"),
BiGG_METABOLITE("BiGG Metabolite",
"http://bigg.ucsd.edu/universal/metabolites",
- new String[] { "urn:miriam:bigg.metabolite",
+ new String[]{"urn:miriam:bigg.metabolite",
"http://identifiers.org/bigg.metabolite/",
"http://identifiers.org/bigg.metabolite",
"https://identifiers.org/bigg.metabolite/",
"https://identifiers.org/bigg.metabolite",
},
- new Class<?>[] {}, "MIR:00000556",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000556",
+ new Class<?>[]{},
"bigg.metabolite",
"12dgr161"),
BiGG_REACTIONS("BiGG Reaction",
"http://bigg.ucsd.edu/universal/reactions",
- new String[] { "urn:miriam:bigg.reaction",
+ new String[]{"urn:miriam:bigg.reaction",
"http://identifiers.org/bigg.reaction/",
"http://identifiers.org/bigg.reaction",
"https://identifiers.org/bigg.reaction/",
"https://identifiers.org/bigg.reaction",
},
- new Class<?>[] {}, "MIR:00000557",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000557",
+ new Class<?>[]{},
"bigg.reaction",
"13GS"),
BINDINGDB("BindingDB",
"https://www.bindingdb.org",
- new String[] { "urn:miriam:bindingDB",
+ new String[]{"urn:miriam:bindingDB",
"http://identifiers.org/bindingdb/",
"http://identifiers.org/bindingdb",
"https://identifiers.org/bindingdb/",
"https://identifiers.org/bindingdb",
- }, new Class<?>[] {}, "MIR:00000264",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000264",
+ new Class<?>[]{},
"bindingdb",
"e999"),
BIOCARTA_PATHWAY("BioCarta Pathway",
"https://www.biocarta.com/",
- new String[] { "urn:miriam:biocarta.pathway",
+ new String[]{"urn:miriam:biocarta.pathway",
"http://identifiers.org/biocarta.pathway/",
"http://identifiers.org/biocarta.pathway",
"https://identifiers.org/biocarta.pathway/",
"https://identifiers.org/biocarta.pathway",
- }, new Class<?>[] {}, "MIR:00000421",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000421",
+ new Class<?>[]{},
"biocarta.pathway",
"h_aktPathway"),
BIOCATALOGUE("BioCatalogue",
"https://www.biocatalogue.org/",
- new String[] { "urn:miriam:biocatalogue.service",
+ new String[]{"urn:miriam:biocatalogue.service",
"http://identifiers.org/biocatalogue.service/",
"http://identifiers.org/biocatalogue.service",
"https://identifiers.org/biocatalogue.service/",
"https://identifiers.org/biocatalogue.service",
- }, new Class<?>[] {}, "MIR:00000140",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000140",
+ new Class<?>[]{},
"biocatalogue.service",
"614"),
BIOCYC("BioCyc",
"http://biocyc.org",
- new String[] { "urn:miriam:biocyc",
+ new String[]{"urn:miriam:biocyc",
"http://identifiers.org/biocyc/",
"http://identifiers.org/biocyc",
"https://identifiers.org/biocyc/",
"https://identifiers.org/biocyc",
- }, new Class<?>[] {}, "MIR:00000194",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000194",
+ new Class<?>[]{},
"biocyc",
"ECOLI:CYT-D-UBIOX-CPLX"),
BIOGRID("BioGRID",
"http://thebiogrid.org/",
- new String[] { "urn:miriam:biogrid",
+ new String[]{"urn:miriam:biogrid",
"http://identifiers.org/biogrid/",
"http://identifiers.org/biogrid",
"https://identifiers.org/biogrid/",
"https://identifiers.org/biogrid",
- }, new Class<?>[] {}, "MIR:00000058",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000058",
+ new Class<?>[]{},
"biogrid",
"31623"),
@NoMiriamUrn
BIOKC("BioKC",
"https://biokb.lcsb.uni.lu/",
- new String[] {
+ new String[]{
"http://identifiers.org/biokc",
"http://identifiers.org/biokc/",
"https://identifiers.org/biokc",
"https://identifiers.org/biokc/",
- }, new Class<?>[] {}, "MIR:00000995",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000995",
+ new Class<?>[]{},
"biokc",
"bkc640"),
BIOMODELS_DATABASE("BioModels Database",
"https://www.ebi.ac.uk/biomodels/",
- new String[] { "urn:miriam:biomodels.db",
+ new String[]{"urn:miriam:biomodels.db",
"http://identifiers.org/biomodels.db/",
"http://identifiers.org/biomodels.db",
"https://identifiers.org/biomodels.db/",
"https://identifiers.org/biomodels.db",
},
- new Class<?>[] {}, "MIR:00000007",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000007",
+ new Class<?>[]{},
"biomodels.db",
"BIOMD0000000048"),
BIONUMBERS("BioNumbers",
"https://bionumbers.hms.harvard.edu",
- new String[] { "urn:miriam:bionumbers",
+ new String[]{"urn:miriam:bionumbers",
"http://identifiers.org/bionumbers/",
"http://identifiers.org/bionumbers",
"https://identifiers.org/bionumbers/",
"https://identifiers.org/bionumbers",
- }, new Class<?>[] {}, "MIR:00000101",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000101",
+ new Class<?>[]{},
"bionumbers",
"104674"),
BIOPORTAL("BioPortal",
"http://bioportal.bioontology.org/",
- new String[] { "urn:miriam:bioportal",
+ new String[]{"urn:miriam:bioportal",
"http://identifiers.org/bioportal/",
"http://identifiers.org/bioportal",
"https://identifiers.org/bioportal/",
"https://identifiers.org/bioportal",
- }, new Class<?>[] {}, "MIR:00000187",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000187",
+ new Class<?>[]{},
"bioportal",
"1046"),
BIOPROJECT("BioProject",
"http://trace.ddbj.nig.ac.jp/bioproject/",
- new String[] { "urn:miriam:bioproject",
+ new String[]{"urn:miriam:bioproject",
"http://identifiers.org/bioproject/",
"http://identifiers.org/bioproject",
"https://identifiers.org/bioproject/",
"https://identifiers.org/bioproject",
- }, new Class<?>[] {}, "MIR:00000349",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000349",
+ new Class<?>[]{},
"bioproject",
"PRJDB3"),
BIOSAMPLE("BioSample",
"https://www.ebi.ac.uk/biosamples/",
- new String[] { "urn:miriam:biosample",
+ new String[]{"urn:miriam:biosample",
"http://identifiers.org/biosample/",
"http://identifiers.org/biosample",
"https://identifiers.org/biosample/",
"https://identifiers.org/biosample",
- }, new Class<?>[] {}, "MIR:00000350",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000350",
+ new Class<?>[]{},
"biosample",
"SAMEA2397676"),
BIOSYSTEMS("BioSystems",
"https://www.ncbi.nlm.nih.gov/biosystems/",
- new String[] { "urn:miriam:biosystems",
+ new String[]{"urn:miriam:biosystems",
"http://identifiers.org/biosystems/",
"http://identifiers.org/biosystems",
"https://identifiers.org/biosystems/",
"https://identifiers.org/biosystems",
- }, new Class<?>[] {}, "MIR:00000097",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000097",
+ new Class<?>[]{},
"biosystems",
"001"),
BITTERDB_COMPOUND("BitterDB Compound",
"http://bitterdb.agri.huji.ac.il/dbbitter.php",
- new String[] { "urn:miriam:bitterdb.cpd",
+ new String[]{"urn:miriam:bitterdb.cpd",
"http://identifiers.org/bitterdb.cpd/",
"http://identifiers.org/bitterdb.cpd",
"https://identifiers.org/bitterdb.cpd/",
"https://identifiers.org/bitterdb.cpd",
- }, new Class<?>[] {}, "MIR:00000348",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000348",
+ new Class<?>[]{},
"bitterdb.cpd",
"46"),
BITTERDB_RECEPTOR("BitterDB Receptor",
"http://bitterdb.agri.huji.ac.il/dbbitter.php",
- new String[] { "urn:miriam:bitterdb.rec",
+ new String[]{"urn:miriam:bitterdb.rec",
"http://identifiers.org/bitterdb.rec/",
"http://identifiers.org/bitterdb.rec",
"https://identifiers.org/bitterdb.rec/",
"https://identifiers.org/bitterdb.rec",
- }, new Class<?>[] {}, "MIR:00000347",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000347",
+ new Class<?>[]{},
"bitterdb.rec",
"1"),
BOLD_TAXONOMY("BOLD Taxonomy",
"http://www.boldsystems.org/",
- new String[] { "urn:miriam:bold.taxonomy",
+ new String[]{"urn:miriam:bold.taxonomy",
"http://identifiers.org/bold.taxonomy/",
"http://identifiers.org/bold.taxonomy",
"https://identifiers.org/bold.taxonomy/",
"https://identifiers.org/bold.taxonomy",
- }, new Class<?>[] {}, "MIR:00000158",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000158",
+ new Class<?>[]{},
"bold.taxonomy",
"27267"),
BROAD_FUNGAL_GENOME_INITIATIVE("Broad Fungal Genome Initiative",
"https://www.broadinstitute.org/annotation/genome/magnaporthe_grisea/",
- new String[] { "urn:miriam:broad",
+ new String[]{"urn:miriam:broad",
"http://identifiers.org/broad/",
"http://identifiers.org/broad",
"https://identifiers.org/broad/",
"https://identifiers.org/broad",
- }, new Class<?>[] {}, "MIR:00000438",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000438",
+ new Class<?>[]{},
"broad",
"S7000002168151102"),
@@ -714,98 +713,98 @@ public enum MiriamType {
*/
BRENDA("BRENDA",
"http://www.brenda-enzymes.org",
- new String[] { "urn:miriam:brenda",
+ new String[]{"urn:miriam:brenda",
"http://identifiers.org/brenda/",
"http://identifiers.org/brenda",
"https://identifiers.org/brenda/",
"https://identifiers.org/brenda",
},
- new Class<?>[] {}, "MIR:00000071",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000071",
+ new Class<?>[]{},
"brenda",
"1.1.1.1"),
BRENDA_TISSUE_ONTOLOGY("Brenda Tissue Ontology",
"https://www.ebi.ac.uk/ols/ontologies/bto",
- new String[] { "urn:miriam:bto", "urn:miriam:obo.bto",
+ new String[]{"urn:miriam:bto", "urn:miriam:obo.bto",
"http://identifiers.org/bto/",
"http://identifiers.org/obo.bto/",
"http://identifiers.org/BTO",
"https://identifiers.org/bto/",
"https://identifiers.org/obo.bto/",
"https://identifiers.org/BTO",
- }, new Class<?>[] {}, "MIR:00000111",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000111",
+ new Class<?>[]{},
"",
"BTO:0000146"),
BUGBASE_EXPT("BugBase Expt",
"http://bugs.sgul.ac.uk/E-BUGS",
- new String[] { "urn:miriam:bugbase.expt",
+ new String[]{"urn:miriam:bugbase.expt",
"http://identifiers.org/bugbase.expt/",
"http://identifiers.org/bugbase.expt",
"https://identifiers.org/bugbase.expt/",
"https://identifiers.org/bugbase.expt",
- }, new Class<?>[] {}, "MIR:00000404",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000404",
+ new Class<?>[]{},
"bugbase.expt",
"288"),
BUGBASE_PROTOCOL("BugBase Protocol",
"http://bugs.sgul.ac.uk/E-BUGS",
- new String[] { "urn:miriam:bugbase.protocol",
+ new String[]{"urn:miriam:bugbase.protocol",
"http://identifiers.org/bugbase.protocol/",
"http://identifiers.org/bugbase.protocol",
"https://identifiers.org/bugbase.protocol/",
"https://identifiers.org/bugbase.protocol",
- }, new Class<?>[] {}, "MIR:00000403",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000403",
+ new Class<?>[]{},
"bugbase.protocol",
"67"),
BYKDB("BYKdb",
"https://bykdb.ibcp.fr/BYKdb/",
- new String[] { "urn:miriam:bykdb",
+ new String[]{"urn:miriam:bykdb",
"http://identifiers.org/bykdb/",
"http://identifiers.org/bykdb",
"https://identifiers.org/bykdb/",
"https://identifiers.org/bykdb",
- }, new Class<?>[] {}, "MIR:00000253",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000253",
+ new Class<?>[]{},
"bykdb",
"A0A009E7X8"),
CANADIAN_DRUG_PRODUCT_DATABASE("Canadian Drug Product Database",
"http://webprod3.hc-sc.gc.ca/dpd-bdpp/index-eng.jsp",
- new String[] { "urn:miriam:cdpd",
+ new String[]{"urn:miriam:cdpd",
"http://identifiers.org/cdpd/",
"http://identifiers.org/cdpd",
"https://identifiers.org/cdpd/",
"https://identifiers.org/cdpd",
- }, new Class<?>[] {}, "MIR:00000272",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000272",
+ new Class<?>[]{},
"cdpd",
"63250"),
CANDIDA_GENOME_DATABASE("Candida Genome Database",
"http://www.candidagenome.org/",
- new String[] { "urn:miriam:cgd",
+ new String[]{"urn:miriam:cgd",
"http://identifiers.org/cgd/",
"http://identifiers.org/cgd",
"https://identifiers.org/cgd/",
"https://identifiers.org/cgd",
- }, new Class<?>[] {}, "MIR:00000145",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000145",
+ new Class<?>[]{},
"cgd",
"CAL0003079"),
CAPS_DB("CAPS-DB",
"http://www.bioinsilico.org/cgi-bin/CAPSDB/staticHTML/home",
- new String[] { "urn:miriam:caps",
+ new String[]{"urn:miriam:caps",
"http://identifiers.org/caps/",
"http://identifiers.org/caps",
"https://identifiers.org/caps/",
"https://identifiers.org/caps",
- }, new Class<?>[] {}, "MIR:00000396",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000396",
+ new Class<?>[]{},
"caps",
"434"),
@@ -814,37 +813,37 @@ public enum MiriamType {
*/
CAS("Chemical Abstracts Service",
"http://commonchemistry.org",
- new String[] { "urn:miriam:cas",
+ new String[]{"urn:miriam:cas",
"http://identifiers.org/cas/",
"http://identifiers.org/cas",
"https://identifiers.org/cas/",
"https://identifiers.org/cas",
},
- new Class<?>[] {}, "MIR:00000237",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000237",
+ new Class<?>[]{},
"cas",
"50-00-0"),
CATH_DOMAIN("CATH domain",
"http://www.cathdb.info/",
- new String[] { "urn:miriam:cath.domain",
+ new String[]{"urn:miriam:cath.domain",
"http://identifiers.org/cath.domain/",
"http://identifiers.org/cath.domain",
"https://identifiers.org/cath.domain/",
"https://identifiers.org/cath.domain",
- }, new Class<?>[] {}, "MIR:00000210",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000210",
+ new Class<?>[]{},
"cath.domain",
"1cukA01"),
CATH_SUPERFAMILY("CATH superfamily",
"http://www.cathdb.info/",
- new String[] { "urn:miriam:cath.superfamily",
+ new String[]{"urn:miriam:cath.superfamily",
"http://identifiers.org/cath.superfamily/",
"http://identifiers.org/cath.superfamily",
"https://identifiers.org/cath.superfamily/",
"https://identifiers.org/cath.superfamily",
- }, new Class<?>[] {}, "MIR:00000209",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000209",
+ new Class<?>[]{},
"cath.superfamily",
"1.10.10.200"),
@@ -853,14 +852,14 @@ public enum MiriamType {
*/
CAZY("CAZy",
"http://commonchemistry.org",
- new String[] { "urn:miriam:cazy",
+ new String[]{"urn:miriam:cazy",
"http://identifiers.org/cazy/",
"http://identifiers.org/cazy",
"https://identifiers.org/cazy/",
"https://identifiers.org/cazy",
},
- new Class<?>[] {}, "MIR:00000195",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000195",
+ new Class<?>[]{},
"cazy",
"GT10"),
@@ -869,97 +868,97 @@ public enum MiriamType {
*/
CCDS("Consensus CDS",
"http://www.ncbi.nlm.nih.gov/CCDS/",
- new String[] { "urn:miriam:ccds",
+ new String[]{"urn:miriam:ccds",
"http://identifiers.org/ccds/",
"http://identifiers.org/ccds",
"https://identifiers.org/ccds/",
"https://identifiers.org/ccds",
},
- new Class<?>[] {}, "MIR:00000375",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000375",
+ new Class<?>[]{},
"ccds",
"CCDS13573.1"),
CELL_CYCLE_ONTOLOGY("Cell Cycle Ontology",
"https://www.ebi.ac.uk/ontology-lookup/browse.do?ontName=CCO",
- new String[] { "urn:miriam:cco",
+ new String[]{"urn:miriam:cco",
"http://identifiers.org/cco/",
"http://identifiers.org/CCO",
"https://identifiers.org/cco/",
"https://identifiers.org/CCO",
- }, new Class<?>[] {}, "MIR:00000234",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000234",
+ new Class<?>[]{},
"",
"CCO:0000003"),
CELL_IMAGE_LIBRARY("Cell Image Library",
"http://cellimagelibrary.org/",
- new String[] { "urn:miriam:cellimage",
+ new String[]{"urn:miriam:cellimage",
"http://identifiers.org/cellimage/",
"http://identifiers.org/cellimage",
"https://identifiers.org/cellimage/",
"https://identifiers.org/cellimage",
- }, new Class<?>[] {}, "MIR:00000257",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000257",
+ new Class<?>[]{},
"cellimage",
"24801"),
CELL_SIGNALING_TECHNOLOGY_PATHWAYS("Cell Signaling Technology Pathways",
"http://www.cellsignal.com/pathways/index.html",
- new String[] { "urn:miriam:cst",
+ new String[]{"urn:miriam:cst",
"http://identifiers.org/cst/",
"http://identifiers.org/cst",
"https://identifiers.org/cst/",
"https://identifiers.org/cst",
- }, new Class<?>[] {}, "MIR:00000429",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000429",
+ new Class<?>[]{},
"cst",
"Akt_PKB"),
CELL_SIGNALING_TECHNOLOGY_ANTIBODY("Cell Signaling Technology Antibody",
"http://www.cellsignal.com/catalog/index.html",
- new String[] { "urn:miriam:cst.ab",
+ new String[]{"urn:miriam:cst.ab",
"http://identifiers.org/cst.ab/",
"http://identifiers.org/cst.ab",
"https://identifiers.org/cst.ab/",
"https://identifiers.org/cst.ab",
- }, new Class<?>[] {}, "MIR:00000430",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000430",
+ new Class<?>[]{},
"cst.ab",
"3305"),
CELL_TYPE_ONTOLOGY("Cell Type Ontology",
"https://www.ebi.ac.uk/ols/ontologies/cl",
- new String[] { "urn:miriam:cl", "urn:miriam:obo.clo",
+ new String[]{"urn:miriam:cl", "urn:miriam:obo.clo",
"http://identifiers.org/cl/",
"http://identifiers.org/CL",
"https://identifiers.org/cl/",
"https://identifiers.org/CL",
- }, new Class<?>[] {}, "MIR:00000110",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000110",
+ new Class<?>[]{},
"",
"CL:0000232"),
CGSC_STRAIN("CGSC Strain",
"http://cgsc.biology.yale.edu/index.php",
- new String[] { "urn:miriam:cgsc",
+ new String[]{"urn:miriam:cgsc",
"http://identifiers.org/cgsc/",
"http://identifiers.org/cgsc",
"https://identifiers.org/cgsc/",
"https://identifiers.org/cgsc",
- }, new Class<?>[] {}, "MIR:00000295",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000295",
+ new Class<?>[]{},
"cgsc",
"74"),
CHARPROT("CharProt",
"http://www.jcvi.org/charprotdb",
- new String[] { "urn:miriam:charprot",
+ new String[]{"urn:miriam:charprot",
"http://identifiers.org/charprot/",
"http://identifiers.org/charprot",
"https://identifiers.org/charprot/",
"https://identifiers.org/charprot",
- }, new Class<?>[] {}, "MIR:00000341",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000341",
+ new Class<?>[]{},
"charprot",
"CH_001923"),
@@ -969,7 +968,7 @@ public enum MiriamType {
*/
CHEBI("Chebi",
"http://www.ebi.ac.uk/chebi/",
- new String[] { "urn:miriam:obo.chebi", "urn:miriam:chebi",
+ new String[]{"urn:miriam:obo.chebi", "urn:miriam:chebi",
"http://identifiers.org/chebi/",
"http://identifiers.org/obo.chebi/",
"http://identifiers.org/CHEBI",
@@ -977,33 +976,33 @@ public enum MiriamType {
"https://identifiers.org/obo.chebi/",
"https://identifiers.org/CHEBI",
},
- new Class<?>[] { Chemical.class, Drug.class, }, "MIR:00000002",
- new Class<?>[] { Chemical.class },
+ new Class<?>[]{Chemical.class, Drug.class,}, "MIR:00000002",
+ new Class<?>[]{Chemical.class},
"",
"CHEBI:36927"),
CHEMDB("ChemDB",
"http://cdb.ics.uci.edu/",
- new String[] { "urn:miriam:chemdb",
+ new String[]{"urn:miriam:chemdb",
"http://identifiers.org/chemdb/",
"http://identifiers.org/chemdb",
"https://identifiers.org/chemdb/",
"https://identifiers.org/chemdb",
- }, new Class<?>[] {}, "MIR:00000279",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000279",
+ new Class<?>[]{},
"chemdb",
"3966782"),
CHEM_ID_PLUS("ChemIDplus",
"https://chem.nlm.nih.gov/chemidplus/",
- new String[] { "urn:miriam:chemidplus",
+ new String[]{"urn:miriam:chemidplus",
"http://identifiers.org/chemidplus/",
"http://identifiers.org/chemidplus",
"https://identifiers.org/chemidplus/",
"https://identifiers.org/chemidplus",
},
- new Class<?>[] { Chemical.class, Drug.class, }, "MIR:00000096",
- new Class<?>[] { Chemical.class },
+ new Class<?>[]{Chemical.class, Drug.class,}, "MIR:00000096",
+ new Class<?>[]{Chemical.class},
"chemidplus",
"57-27-2"),
@@ -1013,14 +1012,14 @@ public enum MiriamType {
*/
CHEMSPIDER("ChemSpider",
"http://www.chemspider.com/",
- new String[] { "urn:miriam:chemspider",
+ new String[]{"urn:miriam:chemspider",
"http://identifiers.org/chemspider/",
"http://identifiers.org/chemspider",
"https://identifiers.org/chemspider/",
"https://identifiers.org/chemspider",
},
- new Class<?>[] {}, "MIR:00000138",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000138",
+ new Class<?>[]{},
"chemspider",
"56586"),
@@ -1029,14 +1028,14 @@ public enum MiriamType {
*/
CHEMBL_COMPOUND("ChEMBL",
"https://www.ebi.ac.uk/chembldb/",
- new String[] { "urn:miriam:chembl.compound",
+ new String[]{"urn:miriam:chembl.compound",
"http://identifiers.org/chembl.compound/",
"http://identifiers.org/chembl.compound",
"https://identifiers.org/chembl.compound/",
"https://identifiers.org/chembl.compound",
},
- new Class<?>[] { Drug.class }, "MIR:00000084",
- new Class<?>[] {},
+ new Class<?>[]{Drug.class}, "MIR:00000084",
+ new Class<?>[]{},
"chembl.compound",
"CHEMBL308052"),
@@ -1045,51 +1044,51 @@ public enum MiriamType {
*/
CHEMBL_TARGET("ChEMBL target",
"https://www.ebi.ac.uk/chembldb/",
- new String[] { "urn:miriam:chembl.target",
+ new String[]{"urn:miriam:chembl.target",
"http://identifiers.org/chembl.target/",
"http://identifiers.org/chembl.target",
"https://identifiers.org/chembl.target/",
"https://identifiers.org/chembl.target",
},
- new Class<?>[] { Protein.class, Complex.class }, "MIR:00000085",
- new Class<?>[] {},
+ new Class<?>[]{Protein.class, Complex.class}, "MIR:00000085",
+ new Class<?>[]{},
"chembl.target",
"CHEMBL3467"),
CLDB("CLDB",
"http://bioinformatics.hsanmartino.it/hypercldb/indexes.html",
- new String[] { "urn:miriam:cldb",
+ new String[]{"urn:miriam:cldb",
"http://identifiers.org/cldb/",
"http://identifiers.org/cldb",
"https://identifiers.org/cldb/",
"https://identifiers.org/cldb",
- }, new Class<?>[] {}, "MIR:00000390",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000390",
+ new Class<?>[]{},
"cldb",
"cl3603"),
CLINICAL_TRIALS_GOV("ClinicalTrials.gov",
"https://clinicaltrials.gov/",
- new String[] { "urn:miriam:clinicaltrials",
+ new String[]{"urn:miriam:clinicaltrials",
"http://identifiers.org/clinicaltrials/",
"http://identifiers.org/clinicaltrials",
"https://identifiers.org/clinicaltrials/",
"https://identifiers.org/clinicaltrials",
},
- new Class<?>[] {}, "MIR:00000137",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000137",
+ new Class<?>[]{},
"clinicaltrials",
"NCT00222573"),
CLINVAR_RECORD("ClinVar Record",
"http://www.ncbi.nlm.nih.gov/clinvar/",
- new String[] { "urn:miriam:clinvar.record",
+ new String[]{"urn:miriam:clinvar.record",
"http://identifiers.org/clinvar.record/",
"http://identifiers.org/clinvar.record",
"https://identifiers.org/clinvar.record/",
"https://identifiers.org/clinvar.record",
- }, new Class<?>[] {}, "MIR:00000534",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000534",
+ new Class<?>[]{},
"clinvar.record",
"RCV000033555.3"),
@@ -1099,292 +1098,292 @@ public enum MiriamType {
@Deprecated
COG("Clusters of Orthologous Groups",
"https://www.ncbi.nlm.nih.gov/COG/",
- new String[] { "urn:miriam:cogs" },
- new Class<?>[] { Reaction.class }, "MIR:00000296",
- new Class<?>[] {},
+ new String[]{"urn:miriam:cogs"},
+ new Class<?>[]{Reaction.class}, "MIR:00000296",
+ new Class<?>[]{},
"cogs",
"COG0001"),
COMBINE_SPECIFICATIONS("COMBINE specifications",
"https://co.mbine.org/standards/",
- new String[] { "urn:miriam:combine.specifications",
+ new String[]{"urn:miriam:combine.specifications",
"http://identifiers.org/combine.specifications/",
"http://identifiers.org/combine.specifications",
"https://identifiers.org/combine.specifications/",
"https://identifiers.org/combine.specifications",
- }, new Class<?>[] {}, "MIR:00000258",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000258",
+ new Class<?>[]{},
"combine.specifications",
"sbgn.er.level-1.version-1.2"),
@NoMiriamUrn
COMPLEX_PORTAL("Complex Portal",
"https://www.ebi.ac.uk/complexportal",
- new String[] {
+ new String[]{
"https://identifiers.org/complexportal",
"https://identifiers.org/complexportal/",
"http://identifiers.org/complexportal",
"http://identifiers.org/complexportal/",
},
- new Class<?>[] {}, "MIR:00000657",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000657",
+ new Class<?>[]{},
"complexportal",
"CPX-2158"),
COMPULYEAST("Compulyeast",
"http://compluyeast2dpage.dacya.ucm.es/",
- new String[] { "urn:miriam:compulyeast",
+ new String[]{"urn:miriam:compulyeast",
"http://identifiers.org/compulyeast/",
"http://identifiers.org/compulyeast",
"https://identifiers.org/compulyeast/",
"https://identifiers.org/compulyeast",
- }, new Class<?>[] {}, "MIR:00000198",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000198",
+ new Class<?>[]{},
"compulyeast",
"O08709"),
CONSERVED_DOMAIN_DATABASE("Conserved Domain Database",
"https://www.ncbi.nlm.nih.gov/sites/entrez?db=cdd",
- new String[] { "urn:miriam:cdd",
+ new String[]{"urn:miriam:cdd",
"http://identifiers.org/cdd/",
"http://identifiers.org/cdd",
"https://identifiers.org/cdd/",
"https://identifiers.org/cdd",
- }, new Class<?>[] {}, "MIR:00000119",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000119",
+ new Class<?>[]{},
"cdd",
"cd00400"),
CONOSERVER("Conoserver",
"http://www.conoserver.org/",
- new String[] { "urn:miriam:conoserver",
+ new String[]{"urn:miriam:conoserver",
"http://identifiers.org/conoserver/",
"http://identifiers.org/conoserver",
"https://identifiers.org/conoserver/",
"https://identifiers.org/conoserver",
- }, new Class<?>[] {}, "MIR:00000254",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000254",
+ new Class<?>[]{},
"conoserver",
"2639"),
CORIELL_CELL_REPOSITORIES("Coriell Cell Repositories",
"http://ccr.coriell.org/",
- new String[] { "urn:miriam:coriell",
+ new String[]{"urn:miriam:coriell",
"http://identifiers.org/coriell/",
"http://identifiers.org/coriell",
"https://identifiers.org/coriell/",
"https://identifiers.org/coriell",
- }, new Class<?>[] {}, "MIR:00000439",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000439",
+ new Class<?>[]{},
"coriell",
"GM17027"),
CORUM("CORUM",
"https://mips.helmholtz-muenchen.de/genre/proj/corum/",
- new String[] { "urn:miriam:corum",
+ new String[]{"urn:miriam:corum",
"http://identifiers.org/corum/",
"http://identifiers.org/corum",
"https://identifiers.org/corum/",
"https://identifiers.org/corum",
- }, new Class<?>[] {}, "MIR:00000440",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000440",
+ new Class<?>[]{},
"corum",
"100"),
CPC("Cooperative Patent Classification",
"https://worldwide.espacenet.com/classification",
- new String[] { "urn:miriam:cpc",
+ new String[]{"urn:miriam:cpc",
"https://identifiers.org/cpc",
"https://identifiers.org/cpc/",
"http://identifiers.org/cpc",
"http://identifiers.org/cpc/",
},
- new Class<?>[] {}, "MIR:00000539",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000539",
+ new Class<?>[]{},
"cpc",
"A01M1/026"),
CRYPTODB("CryptoDB",
"https://cryptodb.org/cryptodb/",
- new String[] { "urn:miriam:cryptodb",
+ new String[]{"urn:miriam:cryptodb",
"http://identifiers.org/cryptodb/",
"http://identifiers.org/cryptodb",
"https://identifiers.org/cryptodb/",
"https://identifiers.org/cryptodb",
- }, new Class<?>[] {}, "MIR:00000149",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000149",
+ new Class<?>[]{},
"cryptodb",
"cgd7_230"),
CSA("CSA",
"https://www.ebi.ac.uk/thornton-srv/databases/CSA/",
- new String[] { "urn:miriam:csa",
+ new String[]{"urn:miriam:csa",
"http://identifiers.org/csa/",
"http://identifiers.org/csa",
"https://identifiers.org/csa/",
"https://identifiers.org/csa",
- }, new Class<?>[] {}, "MIR:00000144",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000144",
+ new Class<?>[]{},
"csa",
"1a05"),
CTD_GENE("CTD Gene",
"http://ctdbase.org/",
- new String[] { "urn:miriam:ctd.gene",
+ new String[]{"urn:miriam:ctd.gene",
"http://identifiers.org/ctd.gene/",
"http://identifiers.org/ctd.gene",
"https://identifiers.org/ctd.gene/",
"https://identifiers.org/ctd.gene",
- }, new Class<?>[] {}, "MIR:00000100",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000100",
+ new Class<?>[]{},
"ctd.gene",
"101"),
CTD_DISEASE("CTD Disease",
"http://ctdbase.org/",
- new String[] { "urn:miriam:ctd.disease",
+ new String[]{"urn:miriam:ctd.disease",
"http://identifiers.org/ctd.disease/",
"http://identifiers.org/ctd.disease",
"https://identifiers.org/ctd.disease/",
"https://identifiers.org/ctd.disease",
- }, new Class<?>[] {}, "MIR:00000099",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000099",
+ new Class<?>[]{},
"ctd.disease",
"D053716"),
CUTDB("CutDB",
"http://cutdb.burnham.org",
- new String[] { "urn:miriam:pmap.cutdb",
+ new String[]{"urn:miriam:pmap.cutdb",
"http://identifiers.org/pmap.cutdb/",
"http://identifiers.org/pmap.cutdb",
"https://identifiers.org/pmap.cutdb/",
"https://identifiers.org/pmap.cutdb",
- }, new Class<?>[] {}, "MIR:00000225",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000225",
+ new Class<?>[]{},
"pmap.cutdb",
"25782"),
CUBE_DB("Cube db",
"http://epsf.bmad.bii.a-star.edu.sg/cube/db/html/home.html",
- new String[] { "urn:miriam:cubedb",
+ new String[]{"urn:miriam:cubedb",
"http://identifiers.org/cubedb/",
"http://identifiers.org/cubedb",
"https://identifiers.org/cubedb/",
"https://identifiers.org/cubedb",
- }, new Class<?>[] {}, "MIR:00000397",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000397",
+ new Class<?>[]{},
"cubedb",
"AKR"),
DAILYMED("DailyMed",
"https://dailymed.nlm.nih.gov/dailymed/",
- new String[] { "urn:miriam:dailymed",
+ new String[]{"urn:miriam:dailymed",
"http://identifiers.org/dailymed/",
"http://identifiers.org/dailymed",
"https://identifiers.org/dailymed/",
"https://identifiers.org/dailymed",
- }, new Class<?>[] {}, "MIR:00000434",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000434",
+ new Class<?>[]{},
"dailymed",
"973a9333-fec7-46dd-8eb5-25738f06ee54"),
DARC("DARC",
"http://darcsite.genzentrum.lmu.de/darc/index.php",
- new String[] { "urn:miriam:darc",
+ new String[]{"urn:miriam:darc",
"http://identifiers.org/darc/",
"http://identifiers.org/darc",
"https://identifiers.org/darc/",
"https://identifiers.org/darc",
- }, new Class<?>[] {}, "MIR:00000366",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000366",
+ new Class<?>[]{},
"darc",
"1250"),
DATABASE_OF_INTERACTING_PROTEINS("Database of Interacting Proteins",
"https://dip.doe-mbi.ucla.edu/",
- new String[] { "urn:miriam:dip",
+ new String[]{"urn:miriam:dip",
"http://identifiers.org/dip/",
"http://identifiers.org/dip",
"https://identifiers.org/dip/",
"https://identifiers.org/dip",
- }, new Class<?>[] {}, "MIR:00000044",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000044",
+ new Class<?>[]{},
"dip",
"DIP-743N"),
DATABASE_OF_QUANTITATIVE_CELLULAR_SIGNALING_MODEL("Database of Quantitative Cellular Signaling: Model",
"http://doqcs.ncbs.res.in/",
- new String[] { "urn:miriam:doqcs.model",
+ new String[]{"urn:miriam:doqcs.model",
"http://identifiers.org/doqcs.model/",
"http://identifiers.org/doqcs.model",
"https://identifiers.org/doqcs.model/",
"https://identifiers.org/doqcs.model",
- }, new Class<?>[] {}, "MIR:00000134",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000134",
+ new Class<?>[]{},
"doqcs.model",
"57"),
DATABASE_OF_QUANTITATIVE_CELLULAR_SIGNALING_PATHWAY("Database of Quantitative Cellular Signaling: Pathway",
"http://doqcs.ncbs.res.in/",
- new String[] { "urn:miriam:doqcs.pathway",
+ new String[]{"urn:miriam:doqcs.pathway",
"http://identifiers.org/doqcs.pathway/",
"http://identifiers.org/doqcs.pathway",
"https://identifiers.org/doqcs.pathway/",
"https://identifiers.org/doqcs.pathway",
- }, new Class<?>[] {}, "MIR:00000135",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000135",
+ new Class<?>[]{},
"doqcs.pathway",
"131"),
DATF("DATF",
"http://datf.cbi.pku.edu.cn/",
- new String[] { "urn:miriam:datf",
+ new String[]{"urn:miriam:datf",
"http://identifiers.org/datf/",
"http://identifiers.org/datf",
"https://identifiers.org/datf/",
"https://identifiers.org/datf",
- }, new Class<?>[] {}, "MIR:00000456",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000456",
+ new Class<?>[]{},
"datf",
"AT1G01030.1"),
DBD("DBD",
"http://www.transcriptionfactor.org/",
- new String[] { "urn:miriam:dbd",
+ new String[]{"urn:miriam:dbd",
"http://identifiers.org/dbd/",
"http://identifiers.org/dbd",
"https://identifiers.org/dbd/",
"https://identifiers.org/dbd",
- }, new Class<?>[] {}, "MIR:00000455",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000455",
+ new Class<?>[]{},
"dbd",
"0045310"),
DBEST("dbEST",
"https://www.ncbi.nlm.nih.gov/nucest",
- new String[] { "urn:miriam:dbest",
+ new String[]{"urn:miriam:dbest",
"http://identifiers.org/dbest/",
"http://identifiers.org/dbest",
"https://identifiers.org/dbest/",
"https://identifiers.org/dbest",
- }, new Class<?>[] {}, "MIR:00000159",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000159",
+ new Class<?>[]{},
"dbest",
"BP100000"),
DBG2_INTRONS("DBG2 Introns",
"http://webapps2.ucalgary.ca/~groupii/",
- new String[] { "urn:miriam:dbg2introns",
+ new String[]{"urn:miriam:dbg2introns",
"http://identifiers.org/dbg2introns/",
"http://identifiers.org/dbg2introns",
"https://identifiers.org/dbg2introns/",
"https://identifiers.org/dbg2introns",
- }, new Class<?>[] {}, "MIR:00000318",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000318",
+ new Class<?>[]{},
"dbg2introns",
"Cu.me.I1"),
DBPROBE("dbProbe",
"https://www.ncbi.nlm.nih.gov/sites/entrez?db=probe",
- new String[] { "urn:miriam:dbprobe",
+ new String[]{"urn:miriam:dbprobe",
"http://identifiers.org/dbprobe/",
"http://identifiers.org/dbprobe",
"https://identifiers.org/dbprobe/",
"https://identifiers.org/dbprobe",
- }, new Class<?>[] {}, "MIR:00000160",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000160",
+ new Class<?>[]{},
"dbprobe",
"1000000"),
@@ -1393,70 +1392,70 @@ public enum MiriamType {
*/
DB_SNP("dbSNP at NCBI",
"https://www.ncbi.nlm.nih.gov/snp/",
- new String[] { "urn:miriam:dbsnp",
+ new String[]{"urn:miriam:dbsnp",
"http://identifiers.org/dbsnp/",
"http://identifiers.org/dbsnp",
"https://identifiers.org/dbsnp/",
"https://identifiers.org/dbsnp",
},
- new Class<?>[] {}, "MIR:00000161",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000161",
+ new Class<?>[]{},
"dbsnp",
"rs121909098"),
DEGRADOME_DATABASE("Degradome Database",
"http://degradome.uniovi.es/",
- new String[] { "urn:miriam:degradome",
+ new String[]{"urn:miriam:degradome",
"http://identifiers.org/degradome/",
"http://identifiers.org/degradome",
"https://identifiers.org/degradome/",
"https://identifiers.org/degradome",
- }, new Class<?>[] {}, "MIR:00000454",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000454",
+ new Class<?>[]{},
"degradome",
"Ax1"),
DEPOD("DEPOD",
"http://www.depod.bioss.uni-freiburg.de",
- new String[] { "urn:miriam:depod",
+ new String[]{"urn:miriam:depod",
"http://identifiers.org/depod/",
"http://identifiers.org/depod",
"https://identifiers.org/depod/",
"https://identifiers.org/depod",
- }, new Class<?>[] {}, "MIR:00000428",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000428",
+ new Class<?>[]{},
"depod",
"PTPN1"),
DICTYBASE_EST("Dictybase EST",
"http://dictybase.org/",
- new String[] { "urn:miriam:dictybase.est",
+ new String[]{"urn:miriam:dictybase.est",
"http://identifiers.org/dictybase.est/",
"http://identifiers.org/dictybase.est",
"https://identifiers.org/dictybase.est/",
"https://identifiers.org/dictybase.est",
- }, new Class<?>[] {}, "MIR:00000330",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000330",
+ new Class<?>[]{},
"dictybase.est",
"DDB0016567"),
DICTYBASE_GENE("Dictybase Gene",
"http://dictybase.org/",
- new String[] { "urn:miriam:dictybase.gene",
+ new String[]{"urn:miriam:dictybase.gene",
"http://identifiers.org/dictybase.gene/",
"http://identifiers.org/dictybase.gene",
"https://identifiers.org/dictybase.gene/",
"https://identifiers.org/dictybase.gene",
- }, new Class<?>[] {}, "MIR:00000286",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000286",
+ new Class<?>[]{},
"dictybase.gene",
"DDB_G0267522"),
DISPROT("DisProt",
"https://disprot.org/",
- new String[] { "urn:miriam:disprot",
+ new String[]{"urn:miriam:disprot",
"http://identifiers.org/disprot/",
"http://identifiers.org/disprot",
"https://identifiers.org/disprot/",
"https://identifiers.org/disprot",
- }, new Class<?>[] {}, "MIR:00000199",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000199",
+ new Class<?>[]{},
"disprot",
"DP00003"),
@@ -1465,105 +1464,105 @@ public enum MiriamType {
*/
DOI("Digital Object Identifier",
"http://www.doi.org/",
- new String[] { "urn:miriam:doi",
+ new String[]{"urn:miriam:doi",
"http://identifiers.org/doi/",
"http://identifiers.org/doi",
"https://identifiers.org/doi/",
"https://identifiers.org/doi",
},
- new Class<?>[] { Reaction.class }, "MIR:00000019",
- new Class<?>[] {},
+ new Class<?>[]{Reaction.class}, "MIR:00000019",
+ new Class<?>[]{},
"doi",
"10.1038/nbt1156"),
DOMMINO("DOMMINO",
"http://dommino.org/",
- new String[] { "urn:miriam:dommino",
+ new String[]{"urn:miriam:dommino",
"http://identifiers.org/dommino/",
"http://identifiers.org/dommino",
"https://identifiers.org/dommino/",
"https://identifiers.org/dommino",
- }, new Class<?>[] {}, "MIR:00000373",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000373",
+ new Class<?>[]{},
"dommino",
"2GC4"),
DOOR("DOOR",
"http://csbl.bmb.uga.edu/DOOR/operon.php",
- new String[] { "urn:miriam:door",
+ new String[]{"urn:miriam:door",
"http://identifiers.org/door/",
"http://identifiers.org/door",
"https://identifiers.org/door/",
"https://identifiers.org/door",
- }, new Class<?>[] {}, "MIR:00000453",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000453",
+ new Class<?>[]{},
"door",
"1398574"),
DPV("DPV",
"http://www.dpvweb.net/",
- new String[] { "urn:miriam:dpv",
+ new String[]{"urn:miriam:dpv",
"http://identifiers.org/dpv/",
"http://identifiers.org/dpv",
"https://identifiers.org/dpv/",
"https://identifiers.org/dpv",
- }, new Class<?>[] {}, "MIR:00000280",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000280",
+ new Class<?>[]{},
"dpv",
"229"),
DRAGONDB_ALLELE("DragonDB Allele",
"http://www.antirrhinum.net/",
- new String[] { "urn:miriam:dragondb.allele",
+ new String[]{"urn:miriam:dragondb.allele",
"http://identifiers.org/dragondb.allele/",
"http://identifiers.org/dragondb.allele",
"https://identifiers.org/dragondb.allele/",
"https://identifiers.org/dragondb.allele",
- }, new Class<?>[] {}, "MIR:00000300",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000300",
+ new Class<?>[]{},
"dragondb.allele",
"cho"),
DRAGONDB_DNA("DragonDB DNA",
"http://www.antirrhinum.net/",
- new String[] { "urn:miriam:dragondb.dna",
+ new String[]{"urn:miriam:dragondb.dna",
"http://identifiers.org/dragondb.dna/",
"http://identifiers.org/dragondb.dna",
"https://identifiers.org/dragondb.dna/",
"https://identifiers.org/dragondb.dna",
- }, new Class<?>[] {}, "MIR:00000297",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000297",
+ new Class<?>[]{},
"dragondb.dna",
"3hB06"),
DRAGONDB_LOCUS("DragonDB Locus",
"http://www.antirrhinum.net/",
- new String[] { "urn:miriam:dragondb.locus",
+ new String[]{"urn:miriam:dragondb.locus",
"http://identifiers.org/dragondb.locus/",
"http://identifiers.org/dragondb.locus",
"https://identifiers.org/dragondb.locus/",
"https://identifiers.org/dragondb.locus",
- }, new Class<?>[] {}, "MIR:00000299",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000299",
+ new Class<?>[]{},
"dragondb.locus",
"DEF"),
DRAGONDB_PROTEIN("DragonDB Protein",
"http://www.antirrhinum.net/",
- new String[] { "urn:miriam:dragondb.protein",
+ new String[]{"urn:miriam:dragondb.protein",
"http://identifiers.org/dragondb.protein/",
"http://identifiers.org/dragondb.protein",
"https://identifiers.org/dragondb.protein/",
"https://identifiers.org/dragondb.protein",
- }, new Class<?>[] {}, "MIR:00000298",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000298",
+ new Class<?>[]{},
"dragondb.protein",
"AMDEFA"),
DRSC("DRSC",
"http://flyrnai.org/",
- new String[] { "urn:miriam:drsc",
+ new String[]{"urn:miriam:drsc",
"http://identifiers.org/drsc/",
"http://identifiers.org/drsc",
"https://identifiers.org/drsc/",
"https://identifiers.org/drsc",
- }, new Class<?>[] {}, "MIR:00000367",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000367",
+ new Class<?>[]{},
"drsc",
"DRSC05221"),
@@ -1572,14 +1571,14 @@ public enum MiriamType {
*/
DRUGBANK("DrugBank",
"http://www.drugbank.ca/",
- new String[] { "urn:miriam:drugbank",
+ new String[]{"urn:miriam:drugbank",
"http://identifiers.org/drugbank/",
"http://identifiers.org/drugbank",
"https://identifiers.org/drugbank/",
"https://identifiers.org/drugbank",
},
- new Class<?>[] { Drug.class }, "MIR:00000102",
- new Class<?>[] {},
+ new Class<?>[]{Drug.class}, "MIR:00000102",
+ new Class<?>[]{},
"drugbank",
"DB00001"),
@@ -1588,14 +1587,14 @@ public enum MiriamType {
*/
DRUGBANK_TARGET_V4("DrugBank Target v4",
"http://www.drugbank.ca/targets",
- new String[] { "urn:miriam:drugbankv4.target", "urn:miriam:drugbank.target",
+ new String[]{"urn:miriam:drugbankv4.target", "urn:miriam:drugbank.target",
"http://identifiers.org/drugbankv4.target/",
"http://identifiers.org/drugbankv4.target",
"https://identifiers.org/drugbankv4.target/",
"https://identifiers.org/drugbankv4.target",
},
- new Class<?>[] {}, "MIR:00000528",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000528",
+ new Class<?>[]{},
"drugbankv4.target",
"BE0000048"),
@@ -1604,32 +1603,32 @@ public enum MiriamType {
*/
EC("Enzyme Nomenclature",
"http://www.enzyme-database.org/",
- new String[] { "urn:miriam:ec-code", "urn:lsid:ec-code.org",
+ new String[]{"urn:miriam:ec-code", "urn:lsid:ec-code.org",
"http://identifiers.org/ec-code/",
"http://identifiers.org/ec-code",
"https://identifiers.org/ec-code/",
"https://identifiers.org/ec-code",
},
- new Class<?>[] { Protein.class, Complex.class }, "MIR:00000004",
- new Class<?>[] {},
+ new Class<?>[]{Protein.class, Complex.class}, "MIR:00000004",
+ new Class<?>[]{},
"ec-code",
"1.1.1.2"),
ECHOBASE("EchoBASE",
"http://www.york.ac.uk/",
- new String[] { "urn:miriam:echobase",
+ new String[]{"urn:miriam:echobase",
"http://identifiers.org/echobase/",
"http://identifiers.org/echobase",
"https://identifiers.org/echobase/",
"https://identifiers.org/echobase",
- }, new Class<?>[] {}, "MIR:00000200",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000200",
+ new Class<?>[]{},
"echobase",
"EB0170"),
ECO("Evidence Code Ontology",
"https://www.ebi.ac.uk/ols/ontologies/eco",
- new String[] { "urn:miriam:obo.eco", "urn:miriam:eco",
+ new String[]{"urn:miriam:obo.eco", "urn:miriam:eco",
"http://identifiers.org/eco/",
"http://identifiers.org/obo.eco/",
"http://identifiers.org/ECO",
@@ -1637,79 +1636,79 @@ public enum MiriamType {
"https://identifiers.org/obo.eco/",
"https://identifiers.org/ECO",
},
- new Class<?>[] { Protein.class, Gene.class, Rna.class }, "MIR:00000055",
- new Class<?>[] {},
+ new Class<?>[]{Protein.class, Gene.class, Rna.class}, "MIR:00000055",
+ new Class<?>[]{},
"",
"ECO:0000006"),
ECOGENE("EcoGene",
"http://ecogene.org/",
- new String[] { "urn:miriam:ecogene",
+ new String[]{"urn:miriam:ecogene",
"http://identifiers.org/ecogene/",
"http://identifiers.org/ecogene",
"https://identifiers.org/ecogene/",
"https://identifiers.org/ecogene",
},
- new Class<?>[] {}, "MIR:00000163",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000163",
+ new Class<?>[]{},
"ecogene",
"EG10173"),
ECOLIWIKI("EcoliWiki",
"http://ecoliwiki.net/colipedia/",
- new String[] { "urn:miriam:ecoliwiki",
+ new String[]{"urn:miriam:ecoliwiki",
"http://identifiers.org/ecoliwiki/",
"http://identifiers.org/ecoliwiki",
"https://identifiers.org/ecoliwiki/",
"https://identifiers.org/ecoliwiki",
- }, new Class<?>[] {}, "MIR:00000442",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000442",
+ new Class<?>[]{},
"ecoliwiki",
"aaeA"),
EDAM_ONTOLOGY("EDAM Ontology",
"http://bioportal.bioontology.org/ontologies/EDAM",
- new String[] { "urn:miriam:edam",
+ new String[]{"urn:miriam:edam",
"http://identifiers.org/edam/",
"http://identifiers.org/edam",
"https://identifiers.org/edam/",
"https://identifiers.org/edam",
- }, new Class<?>[] {}, "MIR:00000189",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000189",
+ new Class<?>[]{},
"edam",
"data_1664"),
EGGNOG("eggNOG",
"http://eggnog.embl.de/version_3.0/",
- new String[] { "urn:miriam:eggnog",
+ new String[]{"urn:miriam:eggnog",
"http://identifiers.org/eggnog/",
"http://identifiers.org/eggnog",
"https://identifiers.org/eggnog/",
"https://identifiers.org/eggnog",
- }, new Class<?>[] {}, "MIR:00000201",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000201",
+ new Class<?>[]{},
"eggnog",
"veNOG12876"),
ELM("ELM",
"http://elm.eu.org/",
- new String[] { "urn:miriam:elm",
+ new String[]{"urn:miriam:elm",
"http://identifiers.org/elm/",
"http://identifiers.org/elm",
"https://identifiers.org/elm/",
"https://identifiers.org/elm",
- }, new Class<?>[] {}, "MIR:00000250",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000250",
+ new Class<?>[]{},
"elm",
"CLV_MEL_PAP_1"),
ENA("ENA",
"https://www.ncbi.nlm.nih.gov/Genbank/",
- new String[] { "urn:miriam:ena.embl",
+ new String[]{"urn:miriam:ena.embl",
"http://identifiers.org/ena.embl/",
"http://identifiers.org/ena.embl",
"https://identifiers.org/ena.embl/",
"https://identifiers.org/ena.embl",
- }, new Class<?>[] {}, "MIR:00000372",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000372",
+ new Class<?>[]{},
"ena.embl",
"BN000065"),
@@ -1718,7 +1717,7 @@ public enum MiriamType {
*/
ENSEMBL("Ensembl",
"https://www.ensembl.org/",
- new String[] { "urn:miriam:ensembl",
+ new String[]{"urn:miriam:ensembl",
"http://identifiers.org/ensembl/",
"http://identifiers.org/ensembl.gene/",
"http://identifiers.org/ensembl",
@@ -1726,44 +1725,44 @@ public enum MiriamType {
"https://identifiers.org/ensembl.gene/",
"https://identifiers.org/ensembl",
},
- new Class<?>[] { Protein.class, Gene.class, Rna.class }, "MIR:00000003",
- new Class<?>[] {},
+ new Class<?>[]{Protein.class, Gene.class, Rna.class}, "MIR:00000003",
+ new Class<?>[]{},
"ensembl",
"ENSG00000139618"),
ENSEMBL_BACTERIA("Ensembl Bacteria",
"https://bacteria.ensembl.org/",
- new String[] { "urn:miriam:ensembl.bacteria",
+ new String[]{"urn:miriam:ensembl.bacteria",
"http://identifiers.org/ensembl.bacteria/",
"http://identifiers.org/ensembl.bacteria",
"https://identifiers.org/ensembl.bacteria/",
"https://identifiers.org/ensembl.bacteria",
- }, new Class<?>[] {}, "MIR:00000202",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000202",
+ new Class<?>[]{},
"ensembl.bacteria",
"MU9_3181"),
ENSEMBL_FUNGI("Ensembl Fungi",
"https://fungi.ensembl.org/",
- new String[] { "urn:miriam:ensembl.fungi",
+ new String[]{"urn:miriam:ensembl.fungi",
"http://identifiers.org/ensembl.fungi/",
"http://identifiers.org/ensembl.fungi",
"https://identifiers.org/ensembl.fungi/",
"https://identifiers.org/ensembl.fungi",
- }, new Class<?>[] {}, "MIR:00000206",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000206",
+ new Class<?>[]{},
"ensembl.fungi",
"CADAFLAT00006211"),
ENSEMBL_METAZOA("Ensembl Metazoa",
"https://metazoa.ensembl.org/",
- new String[] { "urn:miriam:ensembl.metazoa",
+ new String[]{"urn:miriam:ensembl.metazoa",
"http://identifiers.org/ensembl.metazoa/",
"http://identifiers.org/ensembl.metazoa",
"https://identifiers.org/ensembl.metazoa/",
"https://identifiers.org/ensembl.metazoa",
- }, new Class<?>[] {}, "MIR:00000204",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000204",
+ new Class<?>[]{},
"ensembl.metazoa",
"FBtr0084214"),
@@ -1772,26 +1771,26 @@ public enum MiriamType {
*/
ENSEMBL_PLANTS("Ensembl Plants",
"http://plants.ensembl.org/",
- new String[] { "urn:miriam:ensembl.plant",
+ new String[]{"urn:miriam:ensembl.plant",
"http://identifiers.org/ensembl.plant/",
"http://identifiers.org/ensembl.plant",
"https://identifiers.org/ensembl.plant/",
"https://identifiers.org/ensembl.plant",
},
- new Class<?>[] {}, "MIR:00000205",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000205",
+ new Class<?>[]{},
"ensembl.plant",
"AT1G73965"),
ENSEMBL_PROTISTS("Ensembl Protists",
"https://protists.ensembl.org",
- new String[] { "urn:miriam:ensembl.protist",
+ new String[]{"urn:miriam:ensembl.protist",
"http://identifiers.org/ensembl.protist/",
"http://identifiers.org/ensembl.protist",
"https://identifiers.org/ensembl.protist/",
"https://identifiers.org/ensembl.protist",
- }, new Class<?>[] {}, "MIR:00000203",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000203",
+ new Class<?>[]{},
"ensembl.protist",
"PF3D7_1328700"),
@@ -1800,419 +1799,419 @@ public enum MiriamType {
*/
ENTREZ("Entrez Gene",
"http://www.ncbi.nlm.nih.gov/gene",
- new String[] { "urn:miriam:ncbigene", "urn:miriam:ncbi.gene",
+ new String[]{"urn:miriam:ncbigene", "urn:miriam:ncbi.gene",
"urn:miriam:entrez.gene",
"http://identifiers.org/ncbigene/",
"http://identifiers.org/ncbigene",
"https://identifiers.org/ncbigene/",
"https://identifiers.org/ncbigene",
},
- new Class<?>[] { Protein.class, Gene.class, Rna.class }, "MIR:00000069",
- new Class<?>[] {},
+ new Class<?>[]{Protein.class, Gene.class, Rna.class}, "MIR:00000069",
+ new Class<?>[]{},
"ncbigene",
"100010"),
@NoMiriamUrn
ENVIPATH("enviPath",
"https://envipath.org/",
- new String[] {
+ new String[]{
"http://identifiers.org/envipath/",
"http://identifiers.org/envipath",
"https://identifiers.org/envipath/",
"https://identifiers.org/envipath",
},
- new Class<?>[] {}, "MIR:00000727",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000727",
+ new Class<?>[]{},
"envipath",
"32de3cf4-e3e6-4168-956e-32fa5ddb0ce1/compound/b545cabc-8c9e-4b20-8848-efa015b481ea"),
EPD("EPD",
"http://epd.vital-it.ch/",
- new String[] { "urn:miriam:epd",
+ new String[]{"urn:miriam:epd",
"http://identifiers.org/epd/",
"http://identifiers.org/epd",
"https://identifiers.org/epd/",
"https://identifiers.org/epd",
- }, new Class<?>[] {}, "MIR:00000408",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000408",
+ new Class<?>[]{},
"epd",
"TA_H3"),
EU_CLINICAL_TRIALS("EU Clinical Trials",
"https://www.clinicaltrialsregister.eu/",
- new String[] { "urn:miriam:euclinicaltrials",
+ new String[]{"urn:miriam:euclinicaltrials",
"http://identifiers.org/euclinicaltrials/",
"http://identifiers.org/euclinicaltrials",
"https://identifiers.org/euclinicaltrials/",
"https://identifiers.org/euclinicaltrials",
},
- new Class<?>[] {}, "MIR:00000536",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000536",
+ new Class<?>[]{},
"euclinicaltrials",
"2008-005144-16"),
EXAC_GENE("ExAC Gene",
"http://exac.broadinstitute.org/",
- new String[] { "urn:miriam:exac.gene",
+ new String[]{"urn:miriam:exac.gene",
"http://identifiers.org/exac.gene/",
"http://identifiers.org/exac.gene",
"https://identifiers.org/exac.gene/",
"https://identifiers.org/exac.gene",
},
- new Class<?>[] {}, "MIR:00000548",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000548",
+ new Class<?>[]{},
"exac.gene",
"ENSG00000169174"),
EXAC_TRANSCRIPT("ExAC Transcript",
"http://exac.broadinstitute.org/",
- new String[] { "urn:miriam:exac.transcript",
+ new String[]{"urn:miriam:exac.transcript",
"http://identifiers.org/exac.transcript/",
"http://identifiers.org/exac.transcript",
"https://identifiers.org/exac.transcript/",
"https://identifiers.org/exac.transcript",
},
- new Class<?>[] {}, "MIR:00000547",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000547",
+ new Class<?>[]{},
"exac.transcript",
"ENST00000407236"),
EXAC_VARIANT("ExAC Variant",
"http://exac.broadinstitute.org/",
- new String[] { "urn:miriam:exac.variant",
+ new String[]{"urn:miriam:exac.variant",
"http://identifiers.org/exac.variant/",
"http://identifiers.org/exac.variant",
"https://identifiers.org/exac.variant/",
"https://identifiers.org/exac.variant",
},
- new Class<?>[] {}, "MIR:00000541",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000541",
+ new Class<?>[]{},
"exac.variant",
"22-46615880-T-C"),
EXPERIMENTAL_FACTOR_ONTOLOGY("Experimental Factor Ontology",
"https://www.ebi.ac.uk/ols/ontologies/efo",
- new String[] { "urn:miriam:efo",
+ new String[]{"urn:miriam:efo",
"http://identifiers.org/efo/",
"http://identifiers.org/efo",
"https://identifiers.org/efo/",
"https://identifiers.org/efo",
- }, new Class<?>[] {}, "MIR:00000391",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000391",
+ new Class<?>[]{},
"efo",
"0004859"),
EUROPEAN_GENOME_PHENOME_ARCHIVE_DATASET("European Genome-phenome Archive Dataset",
"https://www.ebi.ac.uk/ega/dataset",
- new String[] { "urn:miriam:ega.dataset",
+ new String[]{"urn:miriam:ega.dataset",
"http://identifiers.org/ega.dataset/",
"http://identifiers.org/ega.dataset",
"https://identifiers.org/ega.dataset/",
"https://identifiers.org/ega.dataset",
- }, new Class<?>[] {}, "MIR:00000512",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000512",
+ new Class<?>[]{},
"ega.dataset",
"EGAD00000000001"),
EUROPEAN_GENOME_PHENOME_ARCHIVE_STUDY("European Genome-phenome Archive Study",
"https://www.ebi.ac.uk/ega/studies",
- new String[] { "urn:miriam:ega.study",
+ new String[]{"urn:miriam:ega.study",
"http://identifiers.org/ega.study/",
"http://identifiers.org/ega.study",
"https://identifiers.org/ega.study/",
"https://identifiers.org/ega.study",
- }, new Class<?>[] {}, "MIR:00000511",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000511",
+ new Class<?>[]{},
"ega.study",
"EGAS00000000001"),
FMA("FMA",
"https://www.ebi.ac.uk/ols/ontologies/fma/",
- new String[] { "urn:miriam:fma", "urn:miriam:obo.fma",
+ new String[]{"urn:miriam:fma", "urn:miriam:obo.fma",
"http://identifiers.org/fma/",
"http://identifiers.org/FMA",
"https://identifiers.org/fma/",
"https://identifiers.org/FMA",
- }, new Class<?>[] {}, "MIR:00000067",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000067",
+ new Class<?>[]{},
"",
"FMA:67112"),
FOODB_COMPOUND("FooDB Compound",
"http://foodb.ca/foods",
- new String[] { "urn:miriam:foodb.compound",
+ new String[]{"urn:miriam:foodb.compound",
"http://identifiers.org/foodb.compound/",
"http://identifiers.org/foodb.compound",
"https://identifiers.org/foodb.compound/",
"https://identifiers.org/foodb.compound",
- }, new Class<?>[] {}, "MIR:00000530",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000530",
+ new Class<?>[]{},
"foodb.compound",
"FDB002100"),
F_SNP("F-SNP",
"http://compbio.cs.queensu.ca/F-SNP/",
- new String[] { "urn:miriam:fsnp",
+ new String[]{"urn:miriam:fsnp",
"http://identifiers.org/fsnp/",
"http://identifiers.org/fsnp",
"https://identifiers.org/fsnp/",
"https://identifiers.org/fsnp",
- }, new Class<?>[] {}, "MIR:00000496",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000496",
+ new Class<?>[]{},
"fsnp",
"rs17852708"),
FUNCBASE_FLY("FuncBase Fly",
"http://func.mshri.on.ca/fly",
- new String[] { "urn:miriam:funcbase.fly",
+ new String[]{"urn:miriam:funcbase.fly",
"http://identifiers.org/funcbase.fly/",
"http://identifiers.org/funcbase.fly",
"https://identifiers.org/funcbase.fly/",
"https://identifiers.org/funcbase.fly",
- }, new Class<?>[] {}, "MIR:00000461",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000461",
+ new Class<?>[]{},
"funcbase.fly",
"10194"),
FUNCBASE_HUMAN("FuncBase Human",
"http://func.mshri.on.ca/human/",
- new String[] { "urn:miriam:funcbase.human",
+ new String[]{"urn:miriam:funcbase.human",
"http://identifiers.org/funcbase.human/",
"http://identifiers.org/funcbase.human",
"https://identifiers.org/funcbase.human/",
"https://identifiers.org/funcbase.human",
- }, new Class<?>[] {}, "MIR:00000462",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000462",
+ new Class<?>[]{},
"funcbase.human",
"119514"),
FUNCBASE_MOUSE("FuncBase Mouse",
"http://func.mshri.on.ca/mouse/",
- new String[] { "urn:miriam:funcbase.mouse",
+ new String[]{"urn:miriam:funcbase.mouse",
"http://identifiers.org/funcbase.mouse/",
"http://identifiers.org/funcbase.mouse",
"https://identifiers.org/funcbase.mouse/",
"https://identifiers.org/funcbase.mouse",
- }, new Class<?>[] {}, "MIR:00000463",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000463",
+ new Class<?>[]{},
"funcbase.mouse",
"1351341"),
FUNCBASE_YEAST("FuncBase Yeast",
"http://func.mshri.on.ca/yeast",
- new String[] { "urn:miriam:funcbase.yeast",
+ new String[]{"urn:miriam:funcbase.yeast",
"http://identifiers.org/funcbase.yeast/",
"http://identifiers.org/funcbase.yeast",
"https://identifiers.org/funcbase.yeast/",
"https://identifiers.org/funcbase.yeast",
- }, new Class<?>[] {}, "MIR:00000464",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000464",
+ new Class<?>[]{},
"funcbase.yeast",
"2701"),
FUNGIDB("FungiDB",
"https://fungidb.org/fungidb",
- new String[] { "urn:miriam:fungidb",
+ new String[]{"urn:miriam:fungidb",
"http://identifiers.org/fungidb/",
"http://identifiers.org/fungidb",
"https://identifiers.org/fungidb/",
"https://identifiers.org/fungidb",
- }, new Class<?>[] {}, "MIR:00000365",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000365",
+ new Class<?>[]{},
"fungidb",
"CNBG_0001"),
FLYBASE("FlyBase",
"https://www.alliancegenome.org",
- new String[] { "urn:miriam:fb", "urn:miriam:flybase",
+ new String[]{"urn:miriam:fb", "urn:miriam:flybase",
"http://identifiers.org/fb/",
"http://identifiers.org/fb",
"https://identifiers.org/fb/",
"https://identifiers.org/fb",
},
- new Class<?>[] {}, "MIR:00000030",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000030",
+ new Class<?>[]{},
"fb",
"FBgn0011293"),
GABI("GABI",
"http://www.gabipd.org/",
- new String[] { "urn:miriam:gabi",
+ new String[]{"urn:miriam:gabi",
"http://identifiers.org/gabi/",
"http://identifiers.org/gabi",
"https://identifiers.org/gabi/",
"https://identifiers.org/gabi",
- }, new Class<?>[] {}, "MIR:00000164",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000164",
+ new Class<?>[]{},
"gabi",
"2679240"),
GENATLAS("Genatlas",
"http://genatlas.medecine.univ-paris5.fr/",
- new String[] { "urn:miriam:genatlas",
+ new String[]{"urn:miriam:genatlas",
"http://identifiers.org/genatlas/",
"http://identifiers.org/genatlas",
"https://identifiers.org/genatlas/",
"https://identifiers.org/genatlas",
- }, new Class<?>[] {}, "MIR:00000208",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000208",
+ new Class<?>[]{},
"genatlas",
"HBB"),
GENECARDS("GeneCards",
"http://www.genecards.org/",
- new String[] { "urn:miriam:genecards",
+ new String[]{"urn:miriam:genecards",
"http://identifiers.org/genecards/",
"http://identifiers.org/genecards",
"https://identifiers.org/genecards/",
"https://identifiers.org/genecards",
- }, new Class<?>[] {}, "MIR:00000323",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000323",
+ new Class<?>[]{},
"genecards",
"ABL1"),
GENE_DB("GeneDB",
"https://www.genedb.org/",
- new String[] { "urn:miriam:genedb",
+ new String[]{"urn:miriam:genedb",
"http://identifiers.org/genedb/",
"http://identifiers.org/genedb",
"https://identifiers.org/genedb/",
"https://identifiers.org/genedb",
},
- new Class<?>[] {}, "MIR:00000106",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000106",
+ new Class<?>[]{},
"genedb",
"LinJ.20.0070"),
GENEFARM("GeneFarm",
"http://urgi.versailles.inra.fr/Genefarm/",
- new String[] { "urn:miriam:genefarm",
+ new String[]{"urn:miriam:genefarm",
"http://identifiers.org/genefarm/",
"http://identifiers.org/genefarm",
"https://identifiers.org/genefarm/",
"https://identifiers.org/genefarm",
- }, new Class<?>[] {}, "MIR:00000211",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000211",
+ new Class<?>[]{},
"genefarm",
"4892"),
GENETREE("GeneTree",
"http://www.ensembl.org/",
- new String[] { "urn:miriam:genetree",
+ new String[]{"urn:miriam:genetree",
"http://identifiers.org/genetree/",
"http://identifiers.org/genetree",
"https://identifiers.org/genetree/",
"https://identifiers.org/genetree",
- }, new Class<?>[] {}, "MIR:00000214",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000214",
+ new Class<?>[]{},
"genetree",
"ENSGT00550000074763"),
GENE_WIKI("Gene Wiki",
"http://en.wikipedia.org/wiki/Gene_Wiki",
- new String[] { "urn:miriam:genewiki",
+ new String[]{"urn:miriam:genewiki",
"http://identifiers.org/genewiki/",
"http://identifiers.org/genewiki",
"https://identifiers.org/genewiki/",
"https://identifiers.org/genewiki",
- }, new Class<?>[] {}, "MIR:00000487",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000487",
+ new Class<?>[]{},
"genewiki",
"1017"),
GENPEPT("GenPept",
"https://www.ncbi.nlm.nih.gov/protein",
- new String[] { "urn:miriam:genpept",
+ new String[]{"urn:miriam:genpept",
"http://identifiers.org/genpept/",
"http://identifiers.org/genpept",
"https://identifiers.org/genpept/",
"https://identifiers.org/genpept",
- }, new Class<?>[] {}, "MIR:00000345",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000345",
+ new Class<?>[]{},
"genpept",
"CAA71118.1"),
GENOME_PROPERTIES("Genome Properties",
"https://www.ebi.ac.uk/interpro/genomeproperties/",
- new String[] { "urn:miriam:genprop",
+ new String[]{"urn:miriam:genprop",
"http://identifiers.org/genprop/",
"http://identifiers.org/genprop",
"https://identifiers.org/genprop/",
"https://identifiers.org/genprop",
- }, new Class<?>[] {}, "MIR:00000443",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000443",
+ new Class<?>[]{},
"genprop",
"GenProp0699"),
@NoMiriamUrn
GENOMIC_DATA_COMMONS_DATA_PORTAL("Genomic Data Commons Data Portal",
"https://gdc.cancer.gov/",
- new String[] {
+ new String[]{
"http://identifiers.org/gdc/",
"http://identifiers.org/gdc",
"https://identifiers.org/gdc/",
"https://identifiers.org/gdc",
- }, new Class<?>[] {}, "MIR:00000604",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000604",
+ new Class<?>[]{},
"gdc",
"ae8c77fe-e6c8-44d5-8265-4a38c637bbef"),
GEO("GEO",
"https://www.ncbi.nlm.nih.gov/geo/",
- new String[] { "urn:miriam:geo",
+ new String[]{"urn:miriam:geo",
"http://identifiers.org/geo/",
"http://identifiers.org/geo",
"https://identifiers.org/geo/",
"https://identifiers.org/geo",
- }, new Class<?>[] {}, "MIR:00000054",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000054",
+ new Class<?>[]{},
"geo",
"GDS1234"),
GIARDIADB("GiardiaDB",
"https://giardiadb.org/giardiadb/",
- new String[] { "urn:miriam:giardiadb",
+ new String[]{"urn:miriam:giardiadb",
"http://identifiers.org/giardiadb/",
"http://identifiers.org/giardiadb",
"https://identifiers.org/giardiadb/",
"https://identifiers.org/giardiadb",
- }, new Class<?>[] {}, "MIR:00000151",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000151",
+ new Class<?>[]{},
"giardiadb",
"GL50803_102438"),
GLIDA_GPCR("GLIDA GPCR",
"http://pharminfo.pharm.kyoto-u.ac.jp/services/glida/",
- new String[] { "urn:miriam:glida.gpcr",
+ new String[]{"urn:miriam:glida.gpcr",
"http://identifiers.org/glida.gpcr/",
"http://identifiers.org/glida.gpcr",
"https://identifiers.org/glida.gpcr/",
"https://identifiers.org/glida.gpcr",
- }, new Class<?>[] {}, "MIR:00000493",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000493",
+ new Class<?>[]{},
"glida.gpcr",
"ACM1_HUMAN"),
GLIDA_LIGAND("GLIDA Ligand",
"http://pharminfo.pharm.kyoto-u.ac.jp/services/glida/",
- new String[] { "urn:miriam:glida.ligand",
+ new String[]{"urn:miriam:glida.ligand",
"http://identifiers.org/glida.ligand/",
"http://identifiers.org/glida.ligand",
"https://identifiers.org/glida.ligand/",
"https://identifiers.org/glida.ligand",
- }, new Class<?>[] {}, "MIR:00000494",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000494",
+ new Class<?>[]{},
"glida.ligand",
"L000001"),
GLYCOEPITOPE("GlycoEpitope",
"https://www.glycoepitope.jp/epitopes/",
- new String[] { "urn:miriam:glycoepitope",
+ new String[]{"urn:miriam:glycoepitope",
"http://identifiers.org/glycoepitope/",
"http://identifiers.org/glycoepitope",
"https://identifiers.org/glycoepitope/",
"https://identifiers.org/glycoepitope",
- }, new Class<?>[] {}, "MIR:00000478",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000478",
+ new Class<?>[]{},
"glycoepitope",
"EP0311"),
GLYCOMEDB("GlycomeDB",
"https://glytoucan.org/",
- new String[] { "urn:miriam:glycomedb",
+ new String[]{"urn:miriam:glycomedb",
"http://identifiers.org/glycomedb/",
"http://identifiers.org/glycomedb",
"https://identifiers.org/glycomedb/",
"https://identifiers.org/glycomedb",
- }, new Class<?>[] {}, "MIR:00000114",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000114",
+ new Class<?>[]{},
"glycomedb",
"G77500AY"),
@@ -2221,7 +2220,7 @@ public enum MiriamType {
*/
GO("Gene Ontology",
"http://amigo.geneontology.org/amigo",
- new String[] { "urn:miriam:obo.go", "urn:miriam:go",
+ new String[]{"urn:miriam:obo.go", "urn:miriam:go",
"http://identifiers.org/go/",
"http://identifiers.org/obo.go/",
"http://identifiers.org/GO",
@@ -2229,312 +2228,312 @@ public enum MiriamType {
"https://identifiers.org/obo.go/",
"https://identifiers.org/GO",
},
- new Class<?>[] { Phenotype.class, Compartment.class, Complex.class }, "MIR:00000022",
- new Class<?>[] {},
+ new Class<?>[]{Phenotype.class, Compartment.class, Complex.class}, "MIR:00000022",
+ new Class<?>[]{},
"",
"GO:0006915"),
GO_REF("Gene Ontology Reference",
"http://www.geneontology.org/cgi-bin/references.cgi",
- new String[] { "urn:miriam:go.ref",
+ new String[]{"urn:miriam:go.ref",
"http://identifiers.org/GO_REF/",
"http://identifiers.org/GO_REF",
"https://identifiers.org/GO_REF/",
"https://identifiers.org/GO_REF",
},
- new Class<?>[] {}, "MIR:00000450",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000450",
+ new Class<?>[]{},
"",
"GO_REF:0000041"),
GOA("GOA",
"https://www.ebi.ac.uk/GOA/",
- new String[] { "urn:miriam:goa",
+ new String[]{"urn:miriam:goa",
"http://identifiers.org/goa/",
"http://identifiers.org/goa",
"https://identifiers.org/goa/",
"https://identifiers.org/goa",
- }, new Class<?>[] {}, "MIR:00000196",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000196",
+ new Class<?>[]{},
"goa",
"P12345"),
GOLD_GENOME("GOLD genome",
"http://www.genomesonline.org/cgi-bin/GOLD/index.cgi",
- new String[] { "urn:miriam:gold.genome",
+ new String[]{"urn:miriam:gold.genome",
"http://identifiers.org/gold.genome/",
"http://identifiers.org/gold.genome",
"https://identifiers.org/gold.genome/",
"https://identifiers.org/gold.genome",
- }, new Class<?>[] {}, "MIR:00000401",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000401",
+ new Class<?>[]{},
"gold.genome",
"Gi07796"),
GOLD_METADATA("GOLD metadata",
"http://www.genomesonline.org/cgi-bin/GOLD/index.cgi",
- new String[] { "urn:miriam:gold.meta",
+ new String[]{"urn:miriam:gold.meta",
"http://identifiers.org/gold.meta/",
"http://identifiers.org/gold.meta",
"https://identifiers.org/gold.meta/",
"https://identifiers.org/gold.meta",
- }, new Class<?>[] {}, "MIR:00000402",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000402",
+ new Class<?>[]{},
"gold.meta",
"Gm00047"),
GOOGLE_PATENTS("Google Patents",
"https://www.google.com/patents/",
- new String[] { "urn:miriam:google.patent",
+ new String[]{"urn:miriam:google.patent",
"http://identifiers.org/google.patent/",
"http://identifiers.org/google.patent",
"https://identifiers.org/google.patent/",
"https://identifiers.org/google.patent",
},
- new Class<?>[] {}, "MIR:00000537",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000537",
+ new Class<?>[]{},
"google.patent",
"US4145692"),
GOLM_METABOLOME_DATABASE("Golm Metabolome Database",
"http://gmd.mpimp-golm.mpg.de/",
- new String[] { "urn:miriam:gmd",
+ new String[]{"urn:miriam:gmd",
"http://identifiers.org/gmd/",
"http://identifiers.org/gmd",
"https://identifiers.org/gmd/",
"https://identifiers.org/gmd",
- }, new Class<?>[] {}, "MIR:00000274",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000274",
+ new Class<?>[]{},
"gmd",
"68513255-fc44-4041-bc4b-4fd2fae7541d"),
GOLM_METABOLOME_DATABASE_ANALYTE("Golm Metabolome Database Analyte",
"http://gmd.mpimp-golm.mpg.de/",
- new String[] { "urn:miriam:gmd.analyte",
+ new String[]{"urn:miriam:gmd.analyte",
"http://identifiers.org/gmd.analyte/",
"http://identifiers.org/gmd.analyte",
"https://identifiers.org/gmd.analyte/",
"https://identifiers.org/gmd.analyte",
- }, new Class<?>[] {}, "MIR:00000426",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000426",
+ new Class<?>[]{},
"gmd.analyte",
"4f0fa9b6-514f-4ff4-98cc-0009bc08eb80"),
GOLM_METABOLOME_DATABASE_GC_MS_SPECTRA("Golm Metabolome Database GC-MS spectra",
"http://gmd.mpimp-golm.mpg.de/",
- new String[] { "urn:miriam:gmd.gcms",
+ new String[]{"urn:miriam:gmd.gcms",
"http://identifiers.org/gmd.gcms/",
"http://identifiers.org/gmd.gcms",
"https://identifiers.org/gmd.gcms/",
"https://identifiers.org/gmd.gcms",
- }, new Class<?>[] {}, "MIR:00000424",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000424",
+ new Class<?>[]{},
"gmd.gcms",
"53d583d8-40c6-40e1-9296-23f821cd77a5"),
GOLM_METABOLOME_DATABASE_PROFILE("Golm Metabolome Database Profile",
"http://gmd.mpimp-golm.mpg.de/",
- new String[] { "urn:miriam:gmd.profile",
+ new String[]{"urn:miriam:gmd.profile",
"http://identifiers.org/gmd.profile/",
"http://identifiers.org/gmd.profile",
"https://identifiers.org/gmd.profile/",
"https://identifiers.org/gmd.profile",
- }, new Class<?>[] {}, "MIR:00000423",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000423",
+ new Class<?>[]{},
"gmd.profile",
"10b38aaf-b977-4950-85b8-f4775f66658d"),
GOLM_METABOLOME_DATABASE_REFERENCE_SUBSTANCE("Golm Metabolome Database Reference Substance",
"http://gmd.mpimp-golm.mpg.de/",
- new String[] { "urn:miriam:gmd.ref",
+ new String[]{"urn:miriam:gmd.ref",
"http://identifiers.org/gmd.ref/",
"http://identifiers.org/gmd.ref",
"https://identifiers.org/gmd.ref/",
"https://identifiers.org/gmd.ref",
- }, new Class<?>[] {}, "MIR:00000425",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000425",
+ new Class<?>[]{},
"gmd.ref",
"8cf84adb-b4db-4807-ac98-0004247c35df"),
GPCRDB("GPCRDB",
"http://www.gpcrdb.org/",
- new String[] { "urn:miriam:gpcrdb",
+ new String[]{"urn:miriam:gpcrdb",
"http://identifiers.org/gpcrdb/",
"http://identifiers.org/gpcrdb",
"https://identifiers.org/gpcrdb/",
"https://identifiers.org/gpcrdb",
- }, new Class<?>[] {}, "MIR:00000212",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000212",
+ new Class<?>[]{},
"gpcrdb",
"RL3R1_HUMAN"),
GRAMENE_GENES("Gramene genes",
"http://www.gramene.org/",
- new String[] { "urn:miriam:gramene.gene",
+ new String[]{"urn:miriam:gramene.gene",
"http://identifiers.org/gramene.gene/",
"http://identifiers.org/gramene.gene",
"https://identifiers.org/gramene.gene/",
"https://identifiers.org/gramene.gene",
- }, new Class<?>[] {}, "MIR:00000182",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000182",
+ new Class<?>[]{},
"gramene.gene",
"GR:0080039"),
GRAMENE_PROTEIN("Gramene protein",
"http://www.gramene.org/",
- new String[] { "urn:miriam:gramene.protein",
+ new String[]{"urn:miriam:gramene.protein",
"http://identifiers.org/gramene.protein/",
"http://identifiers.org/gramene.protein",
"https://identifiers.org/gramene.protein/",
"https://identifiers.org/gramene.protein",
- }, new Class<?>[] {}, "MIR:00000181",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000181",
+ new Class<?>[]{},
"gramene.protein",
"78073"),
GRAMENE_QTL("Gramene QTL",
"http://www.gramene.org/",
- new String[] { "urn:miriam:gramene.qtl",
+ new String[]{"urn:miriam:gramene.qtl",
"http://identifiers.org/gramene.qtl/",
"http://identifiers.org/gramene.qtl",
"https://identifiers.org/gramene.qtl/",
"https://identifiers.org/gramene.qtl",
- }, new Class<?>[] {}, "MIR:00000184",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000184",
+ new Class<?>[]{},
"gramene.qtl",
"CQG5"),
GRAMENE_TAXONOMY("Gramene Taxonomy",
"http://www.gramene.org/",
- new String[] { "urn:miriam:gramene.taxonomy",
+ new String[]{"urn:miriam:gramene.taxonomy",
"http://identifiers.org/gramene.taxonomy/",
"http://identifiers.org/gramene.taxonomy",
"https://identifiers.org/gramene.taxonomy/",
"https://identifiers.org/gramene.taxonomy",
- }, new Class<?>[] {}, "MIR:00000183",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000183",
+ new Class<?>[]{},
"gramene.taxonomy",
"GR_tax:013681"),
GREENGENES("GreenGenes",
"http://greengenes.lbl.gov/",
- new String[] { "urn:miriam:greengenes",
+ new String[]{"urn:miriam:greengenes",
"http://identifiers.org/greengenes/",
"http://identifiers.org/greengenes",
"https://identifiers.org/greengenes/",
"https://identifiers.org/greengenes",
- }, new Class<?>[] {}, "MIR:00000165",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000165",
+ new Class<?>[]{},
"greengenes",
"100000"),
GRIN_PLANT_TAXONOMY("GRIN Plant Taxonomy",
"http://www.ars-grin.gov/cgi-bin/npgs/html/index.pl?language=en",
- new String[] { "urn:miriam:grin.taxonomy",
+ new String[]{"urn:miriam:grin.taxonomy",
"http://identifiers.org/grin.taxonomy/",
"http://identifiers.org/grin.taxonomy",
"https://identifiers.org/grin.taxonomy/",
"https://identifiers.org/grin.taxonomy",
- }, new Class<?>[] {}, "MIR:00000166",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000166",
+ new Class<?>[]{},
"grin.taxonomy",
"19333"),
GRSDB("GRSDB",
"http://bioinformatics.ramapo.edu/GRSDB2/",
- new String[] { "urn:miriam:grsdb",
+ new String[]{"urn:miriam:grsdb",
"http://identifiers.org/grsdb/",
"http://identifiers.org/grsdb",
"https://identifiers.org/grsdb/",
"https://identifiers.org/grsdb",
- }, new Class<?>[] {}, "MIR:00000495",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000495",
+ new Class<?>[]{},
"grsdb",
"10142"),
GWAS_CENRAL_MARKER("GWAS Central Marker",
"https://www.gwascentral.org/markers/",
- new String[] { "urn:miriam:gwascentral.marker",
+ new String[]{"urn:miriam:gwascentral.marker",
"http://identifiers.org/gwascentral.marker/",
"http://identifiers.org/gwascentral.marker",
"https://identifiers.org/gwascentral.marker/",
"https://identifiers.org/gwascentral.marker",
},
- new Class<?>[] {}, "MIR:00000542",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000542",
+ new Class<?>[]{},
"gwascentral.marker",
"HGVM15354"),
GWAS_CENRAL_PHENOTYPE("GWAS Central Phenotype",
"https://www.gwascentral.org/phenotypes",
- new String[] { "urn:miriam:gwascentral.phenotype",
+ new String[]{"urn:miriam:gwascentral.phenotype",
"http://identifiers.org/gwascentral.phenotype/",
"http://identifiers.org/gwascentral.phenotype",
"https://identifiers.org/gwascentral.phenotype/",
"https://identifiers.org/gwascentral.phenotype",
},
- new Class<?>[] {}, "MIR:00000543",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000543",
+ new Class<?>[]{},
"gwascentral.phenotype",
"HGVPM623"),
GWAS_CENRAL_STUDY("GWAS Central Study",
"https://www.gwascentral.org/studies",
- new String[] { "urn:miriam:gwascentral.study",
+ new String[]{"urn:miriam:gwascentral.study",
"http://identifiers.org/gwascentral.study/",
"http://identifiers.org/gwascentral.study",
"https://identifiers.org/gwascentral.study/",
"https://identifiers.org/gwascentral.study",
},
- new Class<?>[] {}, "MIR:00000540",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000540",
+ new Class<?>[]{},
"gwascentral.study",
"HGVST1828"),
GXA_EXPT("GXA Expt",
"https://www.ebi.ac.uk/gxa/",
- new String[] { "urn:miriam:gxa.expt",
+ new String[]{"urn:miriam:gxa.expt",
"http://identifiers.org/gxa.expt/",
"http://identifiers.org/gxa.expt",
"https://identifiers.org/gxa.expt/",
"https://identifiers.org/gxa.expt",
- }, new Class<?>[] {}, "MIR:00000379",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000379",
+ new Class<?>[]{},
"gxa.expt",
"E-MTAB-2037"),
GXA_GENE("GXA Gene",
"https://www.ebi.ac.uk/gxa/",
- new String[] { "urn:miriam:gxa.gene",
+ new String[]{"urn:miriam:gxa.gene",
"http://identifiers.org/gxa.gene/",
"http://identifiers.org/gxa.gene",
"https://identifiers.org/gxa.gene/",
"https://identifiers.org/gxa.gene",
- }, new Class<?>[] {}, "MIR:00000378",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000378",
+ new Class<?>[]{},
"gxa.gene",
"AT4G01080"),
HAMAP("HAMAP",
"https://hamap.expasy.org/",
- new String[] { "urn:miriam:hamap",
+ new String[]{"urn:miriam:hamap",
"http://identifiers.org/hamap/",
"http://identifiers.org/hamap",
"https://identifiers.org/hamap/",
"https://identifiers.org/hamap",
- }, new Class<?>[] {}, "MIR:00000292",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000292",
+ new Class<?>[]{},
"hamap",
"MF_01400"),
HCVDB("HCVDB",
"http://euhcvdb.ibcp.fr/euHCVdb/",
- new String[] { "urn:miriam:hcvdb",
+ new String[]{"urn:miriam:hcvdb",
"http://identifiers.org/hcvdb/",
"http://identifiers.org/hcvdb",
"https://identifiers.org/hcvdb/",
"https://identifiers.org/hcvdb",
- }, new Class<?>[] {}, "MIR:00000207",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000207",
+ new Class<?>[]{},
"hcvdb",
"M58335"),
HGMD("HGMD",
"http://www.hgmd.cf.ac.uk/ac/index.php",
- new String[] { "urn:miriam:hgmd",
+ new String[]{"urn:miriam:hgmd",
"http://identifiers.org/hgmd/",
"http://identifiers.org/hgmd",
"https://identifiers.org/hgmd/",
"https://identifiers.org/hgmd",
- }, new Class<?>[] {}, "MIR:00000392",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000392",
+ new Class<?>[]{},
"hgmd",
"CALM1"),
@@ -2543,26 +2542,26 @@ public enum MiriamType {
*/
HGNC("HGNC",
"http://www.genenames.org",
- new String[] { "urn:miriam:hgnc",
+ new String[]{"urn:miriam:hgnc",
"http://identifiers.org/hgnc/",
"http://identifiers.org/hgnc",
"https://identifiers.org/hgnc/",
"https://identifiers.org/hgnc",
},
- new Class<?>[] { Protein.class, Gene.class, Rna.class }, "MIR:00000080",
- new Class<?>[] { Protein.class, Gene.class, Rna.class },
+ new Class<?>[]{Protein.class, Gene.class, Rna.class}, "MIR:00000080",
+ new Class<?>[]{Protein.class, Gene.class, Rna.class},
"hgnc",
"2674"),
HGNC_FAMILY("HGNC Family",
"https://www.genenames.org/",
- new String[] { "urn:miriam:hgnc.family",
+ new String[]{"urn:miriam:hgnc.family",
"http://identifiers.org/hgnc.family/",
"http://identifiers.org/hgnc.family",
"https://identifiers.org/hgnc.family/",
"https://identifiers.org/hgnc.family",
- }, new Class<?>[] {}, "MIR:00000520",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000520",
+ new Class<?>[]{},
"hgnc.family",
"PADI"),
@@ -2571,48 +2570,48 @@ public enum MiriamType {
*/
HGNC_SYMBOL("HGNC Symbol",
"http://www.genenames.org",
- new String[] { "urn:miriam:hgnc.symbol",
+ new String[]{"urn:miriam:hgnc.symbol",
"http://identifiers.org/hgnc.symbol/",
"http://identifiers.org/hgnc.symbol",
"https://identifiers.org/hgnc.symbol/",
"https://identifiers.org/hgnc.symbol",
},
- new Class<?>[] { Protein.class, Gene.class, Rna.class }, "MIR:00000362",
- new Class<?>[] { Protein.class, Gene.class, Rna.class },
+ new Class<?>[]{Protein.class, Gene.class, Rna.class}, "MIR:00000362",
+ new Class<?>[]{Protein.class, Gene.class, Rna.class},
"hgnc.symbol",
"DAPK1"),
H_INVDB_LOCUS("H-InvDb Locus",
"http://h-invitational.jp/hinv/ahg-db/index.jsp",
- new String[] { "urn:miriam:hinv.locus",
+ new String[]{"urn:miriam:hinv.locus",
"http://identifiers.org/hinv.locus/",
"http://identifiers.org/hinv.locus",
"https://identifiers.org/hinv.locus/",
"https://identifiers.org/hinv.locus",
- }, new Class<?>[] {}, "MIR:00000167",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000167",
+ new Class<?>[]{},
"hinv.locus",
"HIX0004394"),
H_INVDB_PROTEIN("H-InvDb Protein",
"http://h-invitational.jp/hinv/ahg-db/index.jsp",
- new String[] { "urn:miriam:hinv.protein",
+ new String[]{"urn:miriam:hinv.protein",
"http://identifiers.org/hinv.protein/",
"http://identifiers.org/hinv.protein",
"https://identifiers.org/hinv.protein/",
"https://identifiers.org/hinv.protein",
- }, new Class<?>[] {}, "MIR:00000169",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000169",
+ new Class<?>[]{},
"hinv.protein",
"HIP000030660"),
H_INVDB_TRANSCRIPT("H-InvDb Transcript",
"http://h-invitational.jp/hinv/ahg-db/index.jsp",
- new String[] { "urn:miriam:hinv.transcript",
+ new String[]{"urn:miriam:hinv.transcript",
"http://identifiers.org/hinv.transcript/",
"http://identifiers.org/hinv.transcript",
"https://identifiers.org/hinv.transcript/",
"https://identifiers.org/hinv.transcript",
- }, new Class<?>[] {}, "MIR:00000168",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000168",
+ new Class<?>[]{},
"hinv.transcript",
"HIT000195363"),
@@ -2621,351 +2620,351 @@ public enum MiriamType {
*/
HMDB("HMDB",
"http://www.hmdb.ca/",
- new String[] { "urn:miriam:hmdb",
+ new String[]{"urn:miriam:hmdb",
"http://identifiers.org/hmdb/",
"http://identifiers.org/hmdb",
"https://identifiers.org/hmdb/",
"https://identifiers.org/hmdb",
},
- new Class<?>[] { Chemical.class, Drug.class, }, "MIR:00000051",
- new Class<?>[] {},
+ new Class<?>[]{Chemical.class, Drug.class,}, "MIR:00000051",
+ new Class<?>[]{},
"hmdb",
"HMDB00001"),
HOGENOM("HOGENOM",
"http://pbil.univ-lyon1.fr/databases/hogenom/",
- new String[] { "urn:miriam:hogenom",
+ new String[]{"urn:miriam:hogenom",
"http://identifiers.org/hogenom/",
"http://identifiers.org/hogenom",
"https://identifiers.org/hogenom/",
"https://identifiers.org/hogenom",
- }, new Class<?>[] {}, "MIR:00000213",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000213",
+ new Class<?>[]{},
"hogenom",
"HBG284870"),
HOMD_SEQUENCE_METAINFORMATION("HOMD Sequence Metainformation",
"http://www.homd.org/index.php",
- new String[] { "urn:miriam:homd.seq",
+ new String[]{"urn:miriam:homd.seq",
"http://identifiers.org/homd.seq/",
"http://identifiers.org/homd.seq",
"https://identifiers.org/homd.seq/",
"https://identifiers.org/homd.seq",
- }, new Class<?>[] {}, "MIR:00000170",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000170",
+ new Class<?>[]{},
"homd.seq",
"SEQF1003"),
HOMD_TAXONOMY("HOMD Taxonomy",
"http://www.homd.org/index.php",
- new String[] { "urn:miriam:homd.taxon",
+ new String[]{"urn:miriam:homd.taxon",
"http://identifiers.org/homd.taxon/",
"http://identifiers.org/homd.taxon",
"https://identifiers.org/homd.taxon/",
"https://identifiers.org/homd.taxon",
- }, new Class<?>[] {}, "MIR:00000171",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000171",
+ new Class<?>[]{},
"homd.taxon",
"811"),
HOMEODOMAIN_RESEARCH("Homeodomain Research",
"http://research.nhgri.nih.gov/apps/homeodomain/web/",
- new String[] { "urn:miriam:hdr",
+ new String[]{"urn:miriam:hdr",
"http://identifiers.org/hdr/",
"http://identifiers.org/hdr",
"https://identifiers.org/hdr/",
"https://identifiers.org/hdr",
- }, new Class<?>[] {}, "MIR:00000497",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000497",
+ new Class<?>[]{},
"hdr",
"63"),
HOMOLOGENE("HomoloGene",
"https://www.ncbi.nlm.nih.gov/homologene/",
- new String[] { "urn:miriam:homologene",
+ new String[]{"urn:miriam:homologene",
"http://identifiers.org/homologene/",
"http://identifiers.org/homologene",
"https://identifiers.org/homologene/",
"https://identifiers.org/homologene",
- }, new Class<?>[] {}, "MIR:00000275",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000275",
+ new Class<?>[]{},
"homologene",
"1002"),
HOVERGEN("HOVERGEN",
"http://pbil.univ-lyon1.fr/databases/hovergen.php",
- new String[] { "urn:miriam:hovergen",
+ new String[]{"urn:miriam:hovergen",
"http://identifiers.org/hovergen/",
"http://identifiers.org/hovergen",
"https://identifiers.org/hovergen/",
"https://identifiers.org/hovergen",
- }, new Class<?>[] {}, "MIR:00000074",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000074",
+ new Class<?>[]{},
"hovergen",
"HBG004341"),
HPA("HPA",
"http://www.proteinatlas.org/",
- new String[] { "urn:miriam:hpa",
+ new String[]{"urn:miriam:hpa",
"http://identifiers.org/hpa/",
"http://identifiers.org/hpa",
"https://identifiers.org/hpa/",
"https://identifiers.org/hpa",
- }, new Class<?>[] {}, "MIR:00000336",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000336",
+ new Class<?>[]{},
"hpa",
"ENSG00000026508"),
HPRD("HPRD",
"http://www.hprd.org/",
- new String[] { "urn:miriam:hprd",
+ new String[]{"urn:miriam:hprd",
"http://identifiers.org/hprd/",
"http://identifiers.org/hprd",
"https://identifiers.org/hprd/",
"https://identifiers.org/hprd",
- }, new Class<?>[] {}, "MIR:00000377",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000377",
+ new Class<?>[]{},
"hprd",
"00001"),
HSSP("HSSP",
"http://swift.cmbi.kun.nl/swift/hssp/",
- new String[] { "urn:miriam:hssp",
+ new String[]{"urn:miriam:hssp",
"http://identifiers.org/hssp/",
"http://identifiers.org/hssp",
"https://identifiers.org/hssp/",
"https://identifiers.org/hssp",
- }, new Class<?>[] {}, "MIR:00000215",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000215",
+ new Class<?>[]{},
"hssp",
"102l"),
HUGE("HUGE",
"http://www.kazusa.or.jp/huge/",
- new String[] { "urn:miriam:huge",
+ new String[]{"urn:miriam:huge",
"http://identifiers.org/huge/",
"http://identifiers.org/huge",
"https://identifiers.org/huge/",
"https://identifiers.org/huge",
- }, new Class<?>[] {}, "MIR:00000263",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000263",
+ new Class<?>[]{},
"huge",
"KIAA0001"),
HUMAN_DISEASE_ONTOLOGY("Human Disease Ontology",
"http://bioportal.bioontology.org/ontologies/DOID",
- new String[] { "urn:miriam:obo.do", "urn:miriam:doid",
+ new String[]{"urn:miriam:obo.do", "urn:miriam:doid",
"http://identifiers.org/doid/",
"http://identifiers.org/DOID",
"https://identifiers.org/doid/",
"https://identifiers.org/DOID",
- }, new Class<?>[] {}, "MIR:00000233",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000233",
+ new Class<?>[]{},
"",
"DOID:11337"),
@NoMiriamUrn
HUMAN_PHENOTYPE_ONTOLOGY("Human Phenotype Ontology",
"https://www.ebi.ac.uk/ols/ontologies/hp",
- new String[] {
+ new String[]{
"http://identifiers.org/hp/",
"http://identifiers.org/HP",
"https://identifiers.org/hp/",
"https://identifiers.org/HP",
- }, new Class<?>[] {}, "MIR:00000571",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000571",
+ new Class<?>[]{},
"",
"HP:0000118"),
HUMAN_PROTEOME_MAP_PEPTIDE("Human Proteome Map Peptide",
"http://www.humanproteomemap.org/index.php",
- new String[] { "urn:miriam:hpm.peptide",
+ new String[]{"urn:miriam:hpm.peptide",
"http://identifiers.org/hpm.peptide/",
"http://identifiers.org/hpm.peptide",
"https://identifiers.org/hpm.peptide/",
"https://identifiers.org/hpm.peptide",
- }, new Class<?>[] {}, "MIR:00000527",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000527",
+ new Class<?>[]{},
"hpm.peptide",
"9606117"),
HUMAN_PROTEOME_MAP_PROTEIN("Human Proteome Map Protein",
"http://www.humanproteomemap.org/index.php",
- new String[] { "urn:miriam:hpm.protein",
+ new String[]{"urn:miriam:hpm.protein",
"http://identifiers.org/hpm.protein/",
"http://identifiers.org/hpm.protein",
"https://identifiers.org/hpm.protein/",
"https://identifiers.org/hpm.protein",
- }, new Class<?>[] {}, "MIR:00000526",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000526",
+ new Class<?>[]{},
"hpm.protein",
"1968"),
ICD("ICD",
"http://www.who.int/classifications/icd/en/",
- new String[] { "urn:miriam:icd",
+ new String[]{"urn:miriam:icd",
"http://identifiers.org/icd/",
"http://identifiers.org/icd",
"https://identifiers.org/icd/",
"https://identifiers.org/icd",
- }, new Class<?>[] {}, "MIR:00000009",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000009",
+ new Class<?>[]{},
"icd",
"C34"),
ICEBERG_ELEMENT("ICEberg element",
"http://db-mml.sjtu.edu.cn/ICEberg/",
- new String[] { "urn:miriam:iceberg.element",
+ new String[]{"urn:miriam:iceberg.element",
"http://identifiers.org/iceberg.element/",
"http://identifiers.org/iceberg.element",
"https://identifiers.org/iceberg.element/",
"https://identifiers.org/iceberg.element",
- }, new Class<?>[] {}, "MIR:00000469",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000469",
+ new Class<?>[]{},
"iceberg.element",
"99"),
ICEBERG_FAMILY("ICEberg family",
"http://db-mml.sjtu.edu.cn/ICEberg/",
- new String[] { "urn:miriam:iceberg.family",
+ new String[]{"urn:miriam:iceberg.family",
"http://identifiers.org/iceberg.family/",
"http://identifiers.org/iceberg.family",
"https://identifiers.org/iceberg.family/",
"https://identifiers.org/iceberg.family",
- }, new Class<?>[] {}, "MIR:00000470",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000470",
+ new Class<?>[]{},
"iceberg.family",
"7"),
IDEAL("IDEAL",
"http://www.ideal.force.cs.is.nagoya-u.ac.jp/IDEAL/",
- new String[] { "urn:miriam:ideal",
+ new String[]{"urn:miriam:ideal",
"http://identifiers.org/ideal/",
"http://identifiers.org/ideal",
"https://identifiers.org/ideal/",
"https://identifiers.org/ideal",
- }, new Class<?>[] {}, "MIR:00000398",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000398",
+ new Class<?>[]{},
"ideal",
"IID00001"),
IDENTIFIERS_ORG_TERMS("Identifiers.org Terms",
"https://identifiers.org/",
- new String[] { "urn:miriam:idot",
+ new String[]{"urn:miriam:idot",
"http://identifiers.org/idot/",
"http://identifiers.org/idot",
"https://identifiers.org/idot/",
"https://identifiers.org/idot",
- }, new Class<?>[] {}, "MIR:00000519",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000519",
+ new Class<?>[]{},
"idot",
"identifierPattern"),
IMEX("IMEx",
"https://www.imexconsortium.org/",
- new String[] { "urn:miriam:imex",
+ new String[]{"urn:miriam:imex",
"http://identifiers.org/imex/",
"http://identifiers.org/imex",
"https://identifiers.org/imex/",
"https://identifiers.org/imex",
- }, new Class<?>[] {}, "MIR:00000122",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000122",
+ new Class<?>[]{},
"imex",
"IM-19210-3"),
IMGT_LIGM("IMGT LIGM",
"http://genius.embnet.dkfz-heidelberg.de/",
- new String[] { "urn:miriam:imgt.ligm",
+ new String[]{"urn:miriam:imgt.ligm",
"http://identifiers.org/imgt.ligm/",
"http://identifiers.org/imgt.ligm",
"https://identifiers.org/imgt.ligm/",
"https://identifiers.org/imgt.ligm",
- }, new Class<?>[] {}, "MIR:00000287",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000287",
+ new Class<?>[]{},
"imgt.ligm",
"M94112"),
IMGT_HLA("IMGT HLA",
"https://www.ebi.ac.uk/imgt/hla/allele.html",
- new String[] { "urn:miriam:imgt.hla",
+ new String[]{"urn:miriam:imgt.hla",
"http://identifiers.org/imgt.hla/",
"http://identifiers.org/imgt.hla",
"https://identifiers.org/imgt.hla/",
"https://identifiers.org/imgt.hla",
},
- new Class<?>[] {}, "MIR:00000331",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000331",
+ new Class<?>[]{},
"imgt.hla",
"A*01:01:01:01"),
INCHI("InChI",
"http://www.chemspider.com/",
- new String[] { "urn:miriam:inchi",
+ new String[]{"urn:miriam:inchi",
"http://identifiers.org/inchi/",
"http://identifiers.org/inchi",
"https://identifiers.org/inchi/",
"https://identifiers.org/inchi",
- }, new Class<?>[] {}, "MIR:00000383",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000383",
+ new Class<?>[]{},
"inchi",
"InChI=1S/C2H6O/c1-2-3/h3H,2H2,1H3"),
INCHIKEY("InChIKey",
"http://www.chemspider.com/",
- new String[] { "urn:miriam:inchikey",
+ new String[]{"urn:miriam:inchikey",
"http://identifiers.org/inchikey/",
"http://identifiers.org/inchi_key/",
"http://identifiers.org/inchikey",
"https://identifiers.org/inchikey/",
"https://identifiers.org/inchi_key/",
"https://identifiers.org/inchikey",
- }, new Class<?>[] {}, "MIR:00000387",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000387",
+ new Class<?>[]{},
"inchikey",
"RYYVLZVUVIJVGH-UHFFFAOYSA-N"),
INTACT("IntAct",
"https://www.ebi.ac.uk/intact/",
- new String[] { "urn:miriam:intact",
+ new String[]{"urn:miriam:intact",
"http://identifiers.org/intact/",
"http://identifiers.org/intact",
"https://identifiers.org/intact/",
"https://identifiers.org/intact",
},
- new Class<?>[] {}, "MIR:00000010",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000010",
+ new Class<?>[]{},
"intact",
"EBI-2307691"),
INTACT_MOLECULE("IntAct Molecule",
"https://www.ebi.ac.uk/intact/",
- new String[] { "urn:miriam:intact.molecule",
+ new String[]{"urn:miriam:intact.molecule",
"http://identifiers.org/intact.molecule/",
"http://identifiers.org/intact.molecule",
"https://identifiers.org/intact.molecule/",
"https://identifiers.org/intact.molecule",
- }, new Class<?>[] {}, "MIR:00000427",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000427",
+ new Class<?>[]{},
"intact.molecule",
"EBI-366083"),
INTEGRATED_MICROBIAL_GENOMES_GENE("Integrated Microbial Genomes Gene",
"http://img.jgi.doe.gov/",
- new String[] { "urn:miriam:img.gene",
+ new String[]{"urn:miriam:img.gene",
"http://identifiers.org/img.gene/",
"http://identifiers.org/img.gene",
"https://identifiers.org/img.gene/",
"https://identifiers.org/img.gene",
- }, new Class<?>[] {}, "MIR:00000176",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000176",
+ new Class<?>[]{},
"img.gene",
"638309541"),
INTEGRATED_MICROBIAL_GENOMES_TAXON("Integrated Microbial Genomes Taxon",
"http://img.jgi.doe.gov/",
- new String[] { "urn:miriam:img.taxon",
+ new String[]{"urn:miriam:img.taxon",
"http://identifiers.org/img.taxon/",
"http://identifiers.org/img.taxon",
"https://identifiers.org/img.taxon/",
"https://identifiers.org/img.taxon",
- }, new Class<?>[] {}, "MIR:00000175",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000175",
+ new Class<?>[]{},
"img.taxon",
"648028003"),
@@ -2974,180 +2973,180 @@ public enum MiriamType {
*/
INTERPRO("InterPro",
"http://www.ebi.ac.uk/interpro/",
- new String[] { "urn:miriam:interpro",
+ new String[]{"urn:miriam:interpro",
"http://identifiers.org/interpro/",
"http://identifiers.org/interpro",
"https://identifiers.org/interpro/",
"https://identifiers.org/interpro",
},
- new Class<?>[] { Protein.class, Complex.class }, "MIR:00000011",
- new Class<?>[] {},
+ new Class<?>[]{Protein.class, Complex.class}, "MIR:00000011",
+ new Class<?>[]{},
"interpro",
"IPR000100"),
IRD_SEGMENT_SEQUENCE("IRD Segment Sequence",
"http://www.fludb.org/",
- new String[] { "urn:miriam:ird.segment",
+ new String[]{"urn:miriam:ird.segment",
"http://identifiers.org/ird.segment/",
"http://identifiers.org/ird.segment",
"https://identifiers.org/ird.segment/",
"https://identifiers.org/ird.segment",
- }, new Class<?>[] {}, "MIR:00000172",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000172",
+ new Class<?>[]{},
"ird.segment",
"CY077097"),
IREFWEB("iRefWeb",
"http://wodaklab.org/iRefWeb/",
- new String[] { "urn:miriam:irefweb",
+ new String[]{"urn:miriam:irefweb",
"http://identifiers.org/irefweb/",
"http://identifiers.org/irefweb",
"https://identifiers.org/irefweb/",
"https://identifiers.org/irefweb",
- }, new Class<?>[] {}, "MIR:00000123",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000123",
+ new Class<?>[]{},
"irefweb",
"617102"),
ISBN("ISBN",
"http://isbndb.com/",
- new String[] { "urn:miriam:isbn",
+ new String[]{"urn:miriam:isbn",
"http://identifiers.org/isbn/",
"http://identifiers.org/isbn",
"https://identifiers.org/isbn/",
"https://identifiers.org/isbn",
- }, new Class<?>[] {}, "MIR:00000064",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000064",
+ new Class<?>[]{},
"isbn",
"9781584885658"),
ISFINDER("ISFinder",
"http://www-is.biotoul.fr/i",
- new String[] { "urn:miriam:isfinder",
+ new String[]{"urn:miriam:isfinder",
"http://identifiers.org/isfinder/",
"http://identifiers.org/isfinder",
"https://identifiers.org/isfinder/",
"https://identifiers.org/isfinder",
- }, new Class<?>[] {}, "MIR:00000173",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000173",
+ new Class<?>[]{},
"isfinder",
"ISA1083-2"),
ISSN("ISSN",
"http://catalog.loc.gov/webvoy.htm",
- new String[] { "urn:miriam:issn",
+ new String[]{"urn:miriam:issn",
"http://identifiers.org/issn/",
"http://identifiers.org/issn",
"https://identifiers.org/issn/",
"https://identifiers.org/issn",
- }, new Class<?>[] {}, "MIR:00000301",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000301",
+ new Class<?>[]{},
"issn",
"0745-4570"),
IUPHAR_FAMILY("IUPHAR family",
"http://www.guidetopharmacology.org/",
- new String[] { "urn:miriam:iuphar.family",
+ new String[]{"urn:miriam:iuphar.family",
"http://identifiers.org/iuphar.family/",
"http://identifiers.org/iuphar.family",
"https://identifiers.org/iuphar.family/",
"https://identifiers.org/iuphar.family",
- }, new Class<?>[] {}, "MIR:00000317",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000317",
+ new Class<?>[]{},
"iuphar.family",
"78"),
IUPHAR_LIGAND("IUPHAR ligand",
"https://www.guidetopharmacology.org/GRAC/LigandListForward?database=all",
- new String[] { "urn:miriam:iuphar.ligand",
+ new String[]{"urn:miriam:iuphar.ligand",
"http://identifiers.org/iuphar.ligand/",
"http://identifiers.org/iuphar.ligand",
"https://identifiers.org/iuphar.ligand/",
"https://identifiers.org/iuphar.ligand",
},
- new Class<?>[] {}, "MIR:00000457",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000457",
+ new Class<?>[]{},
"iuphar.ligand",
"1755"),
IUPHAR_RECEPTOR("IUPHAR receptor",
"http://www.guidetopharmacology.org/targets.jsp",
- new String[] { "urn:miriam:iuphar.receptor",
+ new String[]{"urn:miriam:iuphar.receptor",
"http://identifiers.org/iuphar.receptor/",
"http://identifiers.org/iuphar.receptor",
"https://identifiers.org/iuphar.receptor/",
"https://identifiers.org/iuphar.receptor",
- }, new Class<?>[] {}, "MIR:00000281",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000281",
+ new Class<?>[]{},
"iuphar.receptor",
"107"),
JAPAN_COLLECTION_OF_MICROORGANISMS("Japan Collection of Microorganisms",
"http://www.jcm.riken.go.jp/",
- new String[] { "urn:miriam:jcm",
+ new String[]{"urn:miriam:jcm",
"http://identifiers.org/jcm/",
"http://identifiers.org/jcm",
"https://identifiers.org/jcm/",
"https://identifiers.org/jcm",
- }, new Class<?>[] {}, "MIR:00000174",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000174",
+ new Class<?>[]{},
"jcm",
"17254"),
JAPAN_CHEMICAL_SUBSTANCE_DICTIONARY("Japan Chemical Substance Dictionary",
"http://jglobal.jst.go.jp/en/",
- new String[] { "urn:miriam:jcsd",
+ new String[]{"urn:miriam:jcsd",
"http://identifiers.org/jcsd/",
"http://identifiers.org/jcsd",
"https://identifiers.org/jcsd/",
"https://identifiers.org/jcsd",
- }, new Class<?>[] {}, "MIR:00000241",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000241",
+ new Class<?>[]{},
"jcsd",
"J55.713G"),
JAX_MICE("JAX Mice",
"http://jaxmice.jax.org/",
- new String[] { "urn:miriam:jaxmice",
+ new String[]{"urn:miriam:jaxmice",
"http://identifiers.org/jaxmice/",
"http://identifiers.org/jaxmice",
"https://identifiers.org/jaxmice/",
"https://identifiers.org/jaxmice",
- }, new Class<?>[] {}, "MIR:00000337",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000337",
+ new Class<?>[]{},
"jaxmice",
"005012"),
JCGGDB("JCGGDB",
"http://jcggdb.jp/index_en.html",
- new String[] { "urn:miriam:jcggdb",
+ new String[]{"urn:miriam:jcggdb",
"http://identifiers.org/jcggdb/",
"http://identifiers.org/jcggdb",
"https://identifiers.org/jcggdb/",
"https://identifiers.org/jcggdb",
- }, new Class<?>[] {}, "MIR:00000479",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000479",
+ new Class<?>[]{},
"jcggdb",
"JCGG-STR008690"),
JSTOR("JSTOR",
"http://www.jstor.org/",
- new String[] { "urn:miriam:jstor",
+ new String[]{"urn:miriam:jstor",
"http://identifiers.org/jstor/",
"http://identifiers.org/jstor",
"https://identifiers.org/jstor/",
"https://identifiers.org/jstor",
- }, new Class<?>[] {}, "MIR:00000444",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000444",
+ new Class<?>[]{},
"jstor",
"3075966"),
JWS_ONLINE("JWS Online",
"http://jjj.biochem.sun.ac.za/models/",
- new String[] { "urn:miriam:jws",
+ new String[]{"urn:miriam:jws",
"http://identifiers.org/jws/",
"http://identifiers.org/jws",
"https://identifiers.org/jws/",
"https://identifiers.org/jws",
- }, new Class<?>[] {}, "MIR:00000130",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000130",
+ new Class<?>[]{},
"jws",
"curien"),
@@ -3156,51 +3155,51 @@ public enum MiriamType {
*/
KEGG_COMPOUND("Kegg Compound",
"http://www.genome.jp/kegg/ligand.html",
- new String[] { "urn:miriam:kegg.compound",
+ new String[]{"urn:miriam:kegg.compound",
"http://identifiers.org/kegg.compound/",
"http://identifiers.org/kegg.compound",
"https://identifiers.org/kegg.compound/",
"https://identifiers.org/kegg.compound",
},
- new Class<?>[] { Chemical.class }, "MIR:00000013",
- new Class<?>[] {},
+ new Class<?>[]{Chemical.class}, "MIR:00000013",
+ new Class<?>[]{},
"kegg.compound",
"C12345"),
KEGG_DISEASE("KEGG Disease",
"http://www.genome.jp/kegg/disease/",
- new String[] { "urn:miriam:kegg.disease",
+ new String[]{"urn:miriam:kegg.disease",
"http://identifiers.org/kegg.disease/",
"http://identifiers.org/kegg.disease",
"https://identifiers.org/kegg.disease/",
"https://identifiers.org/kegg.disease",
- }, new Class<?>[] {}, "MIR:00000475",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000475",
+ new Class<?>[]{},
"kegg.disease",
"H00076"),
KEGG_DRUG("KEGG Drug",
"https://www.genome.jp/kegg/drug/",
- new String[] { "urn:miriam:kegg.drug",
+ new String[]{"urn:miriam:kegg.drug",
"http://identifiers.org/kegg.drug/",
"http://identifiers.org/kegg.drug",
"https://identifiers.org/kegg.drug/",
"https://identifiers.org/kegg.drug",
},
- new Class<?>[] {}, "MIR:00000025",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000025",
+ new Class<?>[]{},
"kegg.drug",
"D00123"),
KEGG_ENVIRON("KEGG Environ",
"http://www.genome.jp/kegg/drug/environ.html",
- new String[] { "urn:miriam:kegg.environ",
+ new String[]{"urn:miriam:kegg.environ",
"http://identifiers.org/kegg.environ/",
"http://identifiers.org/kegg.environ",
"https://identifiers.org/kegg.environ/",
"https://identifiers.org/kegg.environ",
- }, new Class<?>[] {}, "MIR:00000389",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000389",
+ new Class<?>[]{},
"kegg.environ",
"ev:E00032"),
@@ -3209,63 +3208,63 @@ public enum MiriamType {
*/
KEGG_GENES("Kegg Genes",
"http://www.genome.jp/kegg/genes.html",
- new String[] { "urn:miriam:kegg.genes",
+ new String[]{"urn:miriam:kegg.genes",
"http://identifiers.org/kegg.genes/",
"http://identifiers.org/kegg.genes",
"https://identifiers.org/kegg.genes/",
"https://identifiers.org/kegg.genes",
},
- new Class<?>[] { Protein.class, Gene.class, Rna.class }, "MIR:00000070",
- new Class<?>[] {},
+ new Class<?>[]{Protein.class, Gene.class, Rna.class}, "MIR:00000070",
+ new Class<?>[]{},
"kegg.genes",
"syn:ssr3451"),
KEGG_GENOME("KEGG Genome",
"http://www.genome.jp/kegg/catalog/org_list.html",
- new String[] { "urn:miriam:kegg.genome",
+ new String[]{"urn:miriam:kegg.genome",
"http://identifiers.org/kegg.genome/",
"http://identifiers.org/kegg.genome",
"https://identifiers.org/kegg.genome/",
"https://identifiers.org/kegg.genome",
- }, new Class<?>[] {}, "MIR:00000238",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000238",
+ new Class<?>[]{},
"kegg.genome",
"eco"),
KEGG_GLYCAN("Kegg Glycan",
"https://www.genome.jp/kegg/glycan/",
- new String[] { "urn:miriam:kegg.glycan",
+ new String[]{"urn:miriam:kegg.glycan",
"http://identifiers.org/kegg.glycan/",
"http://identifiers.org/kegg.glycan",
"https://identifiers.org/kegg.glycan/",
"https://identifiers.org/kegg.glycan",
},
- new Class<?>[] {}, "MIR:00000026",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000026",
+ new Class<?>[]{},
"kegg.glycan",
"G00123"),
KEGG_METAGENOME("KEGG Metagenome",
"http://www.genome.jp/kegg/catalog/org_list3.html",
- new String[] { "urn:miriam:kegg.metagenome",
+ new String[]{"urn:miriam:kegg.metagenome",
"http://identifiers.org/kegg.metagenome/",
"http://identifiers.org/kegg.metagenome",
"https://identifiers.org/kegg.metagenome/",
"https://identifiers.org/kegg.metagenome",
- }, new Class<?>[] {}, "MIR:00000239",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000239",
+ new Class<?>[]{},
"kegg.metagenome",
"T30002"),
KEGG_MODULE("KEGG Module",
"http://www.kegg.jp/kegg/module.html",
- new String[] { "urn:miriam:kegg.module",
+ new String[]{"urn:miriam:kegg.module",
"http://identifiers.org/kegg.module/",
"http://identifiers.org/kegg.module",
"https://identifiers.org/kegg.module/",
"https://identifiers.org/kegg.module",
- }, new Class<?>[] {}, "MIR:00000474",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000474",
+ new Class<?>[]{},
"kegg.module",
"M00002"),
@@ -3274,14 +3273,14 @@ public enum MiriamType {
*/
KEGG_ORTHOLOGY("KEGG Orthology",
"http://www.genome.jp/kegg/ko.html",
- new String[] { "urn:miriam:kegg.orthology",
+ new String[]{"urn:miriam:kegg.orthology",
"http://identifiers.org/kegg.orthology/",
"http://identifiers.org/kegg.orthology",
"https://identifiers.org/kegg.orthology/",
"https://identifiers.org/kegg.orthology",
},
- new Class<?>[] {}, "MIR:00000116",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000116",
+ new Class<?>[]{},
"kegg.orthology",
"K00001"),
@@ -3290,14 +3289,14 @@ public enum MiriamType {
*/
KEGG_PATHWAY("Kegg Pathway",
"http://www.genome.jp/kegg/pathway.html",
- new String[] { "urn:miriam:kegg.pathway",
+ new String[]{"urn:miriam:kegg.pathway",
"http://identifiers.org/kegg.pathway/",
"http://identifiers.org/kegg.pathway",
"https://identifiers.org/kegg.pathway/",
"https://identifiers.org/kegg.pathway",
},
- new Class<?>[] { Reaction.class }, "MIR:00000012",
- new Class<?>[] {},
+ new Class<?>[]{Reaction.class}, "MIR:00000012",
+ new Class<?>[]{},
"kegg.pathway",
"hsa00620"),
@@ -3306,244 +3305,244 @@ public enum MiriamType {
*/
KEGG_REACTION("Kegg Reaction",
"http://www.genome.jp/kegg/reaction/",
- new String[] { "urn:miriam:kegg.reaction",
+ new String[]{"urn:miriam:kegg.reaction",
"http://identifiers.org/kegg.reaction/",
"http://identifiers.org/kegg.reaction",
"https://identifiers.org/kegg.reaction/",
"https://identifiers.org/kegg.reaction",
},
- new Class<?>[] { Reaction.class }, "MIR:00000014",
- new Class<?>[] {},
+ new Class<?>[]{Reaction.class}, "MIR:00000014",
+ new Class<?>[]{},
"kegg.reaction",
"R00100"),
KISAO("KiSAO",
"http://bioportal.bioontology.org/ontologies/KISAO",
- new String[] { "urn:miriam:biomodels.kisao",
+ new String[]{"urn:miriam:biomodels.kisao",
"http://identifiers.org/biomodels.kisao/",
"http://identifiers.org/biomodels.kisao",
"https://identifiers.org/biomodels.kisao/",
"https://identifiers.org/biomodels.kisao",
- }, new Class<?>[] {}, "MIR:00000108",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000108",
+ new Class<?>[]{},
"biomodels.kisao",
"KISAO_0000057"),
KNAPSACK("KnapSack",
"http://kanaya.aist-nara.ac.jp/KNApSAcK/",
- new String[] { "urn:miriam:knapsack",
+ new String[]{"urn:miriam:knapsack",
"http://identifiers.org/knapsack/",
"http://identifiers.org/knapsack",
"https://identifiers.org/knapsack/",
"https://identifiers.org/knapsack",
},
- new Class<?>[] {}, "MIR:00000271",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000271",
+ new Class<?>[]{},
"knapsack",
"C00000001"),
LIGANDBOX("LigandBox",
"http://www.mypresto5.com/ligandbox/cgi-bin/index.cgi?LANG=en",
- new String[] { "urn:miriam:ligandbox",
+ new String[]{"urn:miriam:ligandbox",
"http://identifiers.org/ligandbox/",
"http://identifiers.org/ligandbox",
"https://identifiers.org/ligandbox/",
"https://identifiers.org/ligandbox",
- }, new Class<?>[] {}, "MIR:00000477",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000477",
+ new Class<?>[]{},
"ligandbox",
"D00001"),
LIGAND_EXPO("Ligand Expo",
"http://ligand-depot.rutgers.edu/index.html",
- new String[] { "urn:miriam:ligandexpo",
+ new String[]{"urn:miriam:ligandexpo",
"http://identifiers.org/ligandexpo/",
"http://identifiers.org/ligandexpo",
"https://identifiers.org/ligandexpo/",
"https://identifiers.org/ligandexpo",
- }, new Class<?>[] {}, "MIR:00000062",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000062",
+ new Class<?>[]{},
"ligandexpo",
"ABC"),
LIGAND_GATED_ION_CHANNEL_DATABASE("Ligand-Gated Ion Channel database",
"https://www.ebi.ac.uk/compneur-srv/LGICdb/LGICdb.php",
- new String[] { "urn:miriam:lgic",
+ new String[]{"urn:miriam:lgic",
"http://identifiers.org/lgic/",
"http://identifiers.org/lgic",
"https://identifiers.org/lgic/",
"https://identifiers.org/lgic",
- }, new Class<?>[] {}, "MIR:00000087",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000087",
+ new Class<?>[]{},
"lgic",
"5HT3Arano"),
LIPID_BANK("LipidBank",
"http://lipidbank.jp/index.html",
- new String[] { "urn:miriam:lipidbank",
+ new String[]{"urn:miriam:lipidbank",
"http://identifiers.org/lipidbank/",
"http://identifiers.org/lipidbank",
"https://identifiers.org/lipidbank/",
"https://identifiers.org/lipidbank",
},
- new Class<?>[] {}, "MIR:00000115",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000115",
+ new Class<?>[]{},
"lipidbank",
"BBA0001"),
LINCS_PROTEIN("LINCS Protein",
"http://lincs.hms.harvard.edu/db/proteins/",
- new String[] { "urn:miriam:lincs.protein",
+ new String[]{"urn:miriam:lincs.protein",
"http://identifiers.org/lincs.protein/",
"http://identifiers.org/lincs.protein",
"https://identifiers.org/lincs.protein/",
"https://identifiers.org/lincs.protein",
},
- new Class<?>[] {}, "MIR:00000545",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000545",
+ new Class<?>[]{},
"lincs.protein",
"200282"),
LINCS_CELL("LINCS Cell",
"http://lincsportal.ccs.miami.edu/cells/",
- new String[] { "urn:miriam:lincs.cell",
+ new String[]{"urn:miriam:lincs.cell",
"http://identifiers.org/lincs.cell/",
"http://identifiers.org/lincs.cell",
"https://identifiers.org/lincs.cell/",
"https://identifiers.org/lincs.cell",
},
- new Class<?>[] {}, "MIR:00000544",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000544",
+ new Class<?>[]{},
"lincs.cell",
"LCL-2085"),
LIPID_MAPS("LIPID MAPS",
"http://www.lipidmaps.org",
- new String[] { "urn:miriam:lipidmaps",
+ new String[]{"urn:miriam:lipidmaps",
"http://identifiers.org/lipidmaps/",
"http://identifiers.org/lipidmaps",
"https://identifiers.org/lipidmaps/",
"https://identifiers.org/lipidmaps",
},
- new Class<?>[] {}, "MIR:00000052",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000052",
+ new Class<?>[]{},
"lipidmaps",
"LMPR0102010012"),
LOCUS_REFERENCE_GENOMIC("Locus Reference Genomic",
"http://www.ensembl.org/",
- new String[] { "urn:miriam:lrg",
+ new String[]{"urn:miriam:lrg",
"http://identifiers.org/lrg/",
"http://identifiers.org/lrg",
"https://identifiers.org/lrg/",
"https://identifiers.org/lrg",
- }, new Class<?>[] {}, "MIR:00000376",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000376",
+ new Class<?>[]{},
"lrg",
"LRG_1"),
MACIE("MACiE",
"https://www.ebi.ac.uk/thornton-srv/databases/MACiE/index.html",
- new String[] { "urn:miriam:macie",
+ new String[]{"urn:miriam:macie",
"http://identifiers.org/macie/",
"http://identifiers.org/macie",
"https://identifiers.org/macie/",
"https://identifiers.org/macie",
- }, new Class<?>[] {}, "MIR:00000077",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000077",
+ new Class<?>[]{},
"macie",
"M0001"),
MAIZEGDB_LOCUS("MaizeGDB Locus",
"http://www.maizegdb.org/",
- new String[] { "urn:miriam:maizegdb.locus",
+ new String[]{"urn:miriam:maizegdb.locus",
"http://identifiers.org/maizegdb.locus/",
"http://identifiers.org/maizegdb.locus",
"https://identifiers.org/maizegdb.locus/",
"https://identifiers.org/maizegdb.locus",
- }, new Class<?>[] {}, "MIR:00000177",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000177",
+ new Class<?>[]{},
"maizegdb.locus",
"25011"),
MASSBANK("MassBank",
"http://www.massbank.jp",
- new String[] { "urn:miriam:massbank",
+ new String[]{"urn:miriam:massbank",
"http://identifiers.org/massbank/",
"http://identifiers.org/massbank",
"https://identifiers.org/massbank/",
"https://identifiers.org/massbank",
- }, new Class<?>[] {}, "MIR:00000273",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000273",
+ new Class<?>[]{},
"massbank",
"MSBNK-IPB_Halle-PB000166"),
MATHEMATICAL_MODELLING_ONTOLOGY("Mathematical Modelling Ontology",
"http://bioportal.bioontology.org/ontologies/MAMO",
- new String[] { "urn:miriam:mamo",
+ new String[]{"urn:miriam:mamo",
"http://identifiers.org/mamo/",
"http://identifiers.org/mamo",
"https://identifiers.org/mamo/",
"https://identifiers.org/mamo",
- }, new Class<?>[] {}, "MIR:00000517",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000517",
+ new Class<?>[]{},
"mamo",
"MAMO_0000026"),
MATRIXDB("MatrixDB",
"http://matrixdb.univ-lyon1.fr/",
- new String[] { "urn:miriam:matrixdb.association",
+ new String[]{"urn:miriam:matrixdb.association",
"http://identifiers.org/matrixdb.association/",
"http://identifiers.org/matrixdb.association",
"https://identifiers.org/matrixdb.association/",
"https://identifiers.org/matrixdb.association",
- }, new Class<?>[] {}, "MIR:00000068",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000068",
+ new Class<?>[]{},
"matrixdb.association",
"P00747__P07355"),
MEDLINEPLUS("MedlinePlus",
"http://www.nlm.nih.gov/medlineplus/",
- new String[] { "urn:miriam:medlineplus",
+ new String[]{"urn:miriam:medlineplus",
"http://identifiers.org/medlineplus/",
"http://identifiers.org/medlineplus",
"https://identifiers.org/medlineplus/",
"https://identifiers.org/medlineplus",
- }, new Class<?>[] {}, "MIR:00000476",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000476",
+ new Class<?>[]{},
"medlineplus",
"002804"),
MEROPS_FAMILY("MEROPS Family",
"http://merops.sanger.ac.uk/index.htm",
- new String[] { "urn:miriam:merops.family",
+ new String[]{"urn:miriam:merops.family",
"http://identifiers.org/merops.family/",
"http://identifiers.org/merops.family",
"https://identifiers.org/merops.family/",
"https://identifiers.org/merops.family",
- }, new Class<?>[] {}, "MIR:00000302",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000302",
+ new Class<?>[]{},
"merops.family",
"S1"),
MEROPS_INHIBITOR("MEROPS Inhibitor",
"http://merops.sanger.ac.uk/index.htm",
- new String[] { "urn:miriam:merops.inhibitor",
+ new String[]{"urn:miriam:merops.inhibitor",
"http://identifiers.org/merops.inhibitor/",
"http://identifiers.org/merops.inhibitor",
"https://identifiers.org/merops.inhibitor/",
"https://identifiers.org/merops.inhibitor",
- }, new Class<?>[] {}, "MIR:00000491",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000491",
+ new Class<?>[]{},
"merops.inhibitor",
"I31.952"),
MEROPS("MEROPS",
"http://merops.sanger.ac.uk/index.htm",
- new String[] { "urn:miriam:merops",
+ new String[]{"urn:miriam:merops",
"http://identifiers.org/merops/",
"http://identifiers.org/merops",
"https://identifiers.org/merops/",
"https://identifiers.org/merops",
- }, new Class<?>[] {}, "MIR:00000059",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000059",
+ new Class<?>[]{},
"merops",
"S01.001"),
@@ -3552,139 +3551,139 @@ public enum MiriamType {
*/
MESH_2012("MeSH",
"http://www.nlm.nih.gov/mesh/",
- new String[] { "urn:miriam:mesh", "urn:miriam:mesh.2012", "urn:miriam:mesh.2013",
+ new String[]{"urn:miriam:mesh", "urn:miriam:mesh.2012", "urn:miriam:mesh.2013",
"http://identifiers.org/mesh/",
"http://identifiers.org/mesh",
"https://identifiers.org/mesh/",
"https://identifiers.org/mesh",
},
- new Class<?>[] { Phenotype.class, Compartment.class, Complex.class }, "MIR:00000560",
- new Class<?>[] {},
+ new Class<?>[]{Phenotype.class, Compartment.class, Complex.class}, "MIR:00000560",
+ new Class<?>[]{},
"mesh",
"D010300"),
@NoMiriamUrn
METANETX_CHEMICAL("MetaNetX chemical",
"https://www.metanetx.org/",
- new String[] {
+ new String[]{
"http://identifiers.org/metanetx.chemical/",
"http://identifiers.org/metanetx.chemical",
"https://identifiers.org/metanetx.chemical/",
"https://identifiers.org/metanetx.chemical",
},
- new Class<?>[] {}, "MIR:00000567",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000567",
+ new Class<?>[]{},
"metanetx.chemical",
"MNXM1723"),
@NoMiriamUrn
METANETX_COMPARTMENT("MetaNetX compartment",
"https://www.metanetx.org/",
- new String[] {
+ new String[]{
"http://identifiers.org/metanetx.compartment/",
"http://identifiers.org/metanetx.compartment",
"https://identifiers.org/metanetx.compartment/",
"https://identifiers.org/metanetx.compartment",
},
- new Class<?>[] {}, "MIR:00000569",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000569",
+ new Class<?>[]{},
"metanetx.compartment",
"MNXC15"),
@NoMiriamUrn
METANETX_REACTION("MetaNetX reaction",
"https://www.metanetx.org/",
- new String[] {
+ new String[]{
"http://identifiers.org/metanetx.reaction/",
"http://identifiers.org/metanetx.reaction",
"https://identifiers.org/metanetx.reaction/",
"https://identifiers.org/metanetx.reaction",
},
- new Class<?>[] {}, "MIR:00000568",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000568",
+ new Class<?>[]{},
"metanetx.reaction",
"MNXR101574"),
METABOLIGHTS("MetaboLights",
"https://www.ebi.ac.uk/metabolights/",
- new String[] { "urn:miriam:metabolights",
+ new String[]{"urn:miriam:metabolights",
"http://identifiers.org/metabolights/",
"http://identifiers.org/metabolights",
"https://identifiers.org/metabolights/",
"https://identifiers.org/metabolights",
- }, new Class<?>[] {}, "MIR:00000380",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000380",
+ new Class<?>[]{},
"metabolights",
"MTBLS1"),
METLIN("METLIN",
"http://masspec.scripps.edu/",
- new String[] { "urn:miriam:metlin",
+ new String[]{"urn:miriam:metlin",
"http://identifiers.org/metlin/",
"http://identifiers.org/metlin",
"https://identifiers.org/metlin/",
"https://identifiers.org/metlin",
- }, new Class<?>[] {}, "MIR:00000322",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000322",
+ new Class<?>[]{},
"metlin",
"1455"),
MI("Molecular Interactions Ontology",
"https://www.ebi.ac.uk/ols/ontologies/mi",
- new String[] { "urn:miriam:psimi", "urn:miriam:obo.mi",
+ new String[]{"urn:miriam:psimi", "urn:miriam:obo.mi",
"http://identifiers.org/MI/",
"http://identifiers.org/MI",
"https://identifiers.org/MI/",
"https://identifiers.org/MI",
- }, new Class<?>[] {}, "MIR:00000109",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000109",
+ new Class<?>[]{},
"",
"MI:0308"),
MICROSPORIDIADB("MicrosporidiaDB",
"http://microsporidiadb.org/micro/",
- new String[] { "urn:miriam:microsporidia",
+ new String[]{"urn:miriam:microsporidia",
"http://identifiers.org/microsporidia/",
"http://identifiers.org/microsporidia",
"https://identifiers.org/microsporidia/",
"https://identifiers.org/microsporidia",
- }, new Class<?>[] {}, "MIR:00000152",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000152",
+ new Class<?>[]{},
"microsporidia",
"ECU03_0820i"),
MICROBIAL_PROTEIN_INTERACTION_DATABASE("Microbial Protein Interaction Database",
"http://www.jcvi.org/mpidb/about.php",
- new String[] { "urn:miriam:mpid",
+ new String[]{"urn:miriam:mpid",
"http://identifiers.org/mpid/",
"http://identifiers.org/mpid",
"https://identifiers.org/mpid/",
"https://identifiers.org/mpid",
- }, new Class<?>[] {}, "MIR:00000124",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000124",
+ new Class<?>[]{},
"mpid",
"172"),
MIMODB("MimoDB",
"http://immunet.cn/bdb/",
- new String[] { "urn:miriam:mimodb",
+ new String[]{"urn:miriam:mimodb",
"http://identifiers.org/mimodb/",
"http://identifiers.org/mimodb",
"https://identifiers.org/mimodb/",
"https://identifiers.org/mimodb",
- }, new Class<?>[] {}, "MIR:00000251",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000251",
+ new Class<?>[]{},
"mimodb",
"2"),
MIPMODDB("MIPModDB",
"http://bioinfo.iitk.ac.in/MIPModDB",
- new String[] { "urn:miriam:mipmod",
+ new String[]{"urn:miriam:mipmod",
"http://identifiers.org/mipmod/",
"http://identifiers.org/mipmod",
"https://identifiers.org/mipmod/",
"https://identifiers.org/mipmod",
- }, new Class<?>[] {}, "MIR:00000256",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000256",
+ new Class<?>[]{},
"mipmod",
"HOSAPI0399"),
@@ -3693,14 +3692,14 @@ public enum MiriamType {
*/
MI_R_BASE_SEQUENCE("miRBase Sequence Database",
"http://www.mirbase.org/",
- new String[] { "urn:miriam:mirbase",
+ new String[]{"urn:miriam:mirbase",
"http://identifiers.org/mirbase/",
"http://identifiers.org/mirbase",
"https://identifiers.org/mirbase/",
"https://identifiers.org/mirbase",
},
- new Class<?>[] {}, "MIR:00000078",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000078",
+ new Class<?>[]{},
"mirbase",
"MI0000001"),
@@ -3709,62 +3708,62 @@ public enum MiriamType {
*/
MI_R_BASE_MATURE_SEQUENCE("miRBase Mature Sequence Database",
"http://www.mirbase.org/",
- new String[] { "urn:miriam:mirbase.mature",
+ new String[]{"urn:miriam:mirbase.mature",
"http://identifiers.org/mirbase.mature/",
"http://identifiers.org/mirbase.mature",
"https://identifiers.org/mirbase.mature/",
"https://identifiers.org/mirbase.mature",
},
- new Class<?>[] {}, "MIR:00000235",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000235",
+ new Class<?>[]{},
"mirbase.mature",
"MIMAT0000001"),
MIREX("mirEX",
"http://comgen.pl/mirex/?page=home",
- new String[] { "urn:miriam:mirex",
+ new String[]{"urn:miriam:mirex",
"http://identifiers.org/mirex/",
"http://identifiers.org/mirex",
"https://identifiers.org/mirex/",
"https://identifiers.org/mirex",
- }, new Class<?>[] {}, "MIR:00000329",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000329",
+ new Class<?>[]{},
"mirex",
"165a"),
MIRIAM_REGISTRY_COLLECTION("MIRIAM Registry collection",
"https://www.ebi.ac.uk/miriam/",
- new String[] { "urn:miriam:miriam.collection", "urn:miriam:miriam", "urn:miriam:miriam.datatype",
+ new String[]{"urn:miriam:miriam.collection", "urn:miriam:miriam", "urn:miriam:miriam.datatype",
"http://identifiers.org/miriam.collection/",
"http://identifiers.org/miriam.collection",
"https://identifiers.org/miriam.collection/",
"https://identifiers.org/miriam.collection",
- }, new Class<?>[] {}, "MIR:00000008",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000008",
+ new Class<?>[]{},
"miriam.collection",
"MIR:00000008"),
MIRIAM_REGISTRY_RESOURCE("MIRIAM Registry resource",
"https://www.ebi.ac.uk/miriam/",
- new String[] { "urn:miriam:miriam.resource",
+ new String[]{"urn:miriam:miriam.resource",
"http://identifiers.org/miriam.resource/",
"http://identifiers.org/miriam.resource",
"https://identifiers.org/miriam.resource/",
"https://identifiers.org/miriam.resource",
- }, new Class<?>[] {}, "MIR:00000188",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000188",
+ new Class<?>[]{},
"miriam.resource",
"MIR:00100005"),
MIRNEST("miRNEST",
"http://rhesus.amu.edu.pl/mirnest/copy/",
- new String[] { "urn:miriam:mirnest",
+ new String[]{"urn:miriam:mirnest",
"http://identifiers.org/mirnest/",
"http://identifiers.org/mirnest",
"https://identifiers.org/mirnest/",
"https://identifiers.org/mirnest",
- }, new Class<?>[] {}, "MIR:00000246",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000246",
+ new Class<?>[]{},
"mirnest",
"MNEST029358"),
@@ -3773,14 +3772,14 @@ public enum MiriamType {
*/
MIR_TAR_BASE_MATURE_SEQUENCE("miRTarBase Mature Sequence Database",
"http://mirtarbase.mbc.nctu.edu.tw/",
- new String[] { "urn:miriam:mirtarbase",
+ new String[]{"urn:miriam:mirtarbase",
"http://identifiers.org/mirtarbase/",
"http://identifiers.org/mirtarbase",
"https://identifiers.org/mirtarbase/",
"https://identifiers.org/mirtarbase",
},
- new Class<?>[] {}, "MIR:00000562",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000562",
+ new Class<?>[]{},
"mirtarbase",
"MIRT000002"),
@@ -3789,80 +3788,80 @@ public enum MiriamType {
*/
MGD("Mouse Genome Database",
"http://www.informatics.jax.org/",
- new String[] { "urn:miriam:mgd",
+ new String[]{"urn:miriam:mgd",
"http://identifiers.org/mgi/",
"http://identifiers.org/MGI",
"https://identifiers.org/mgi/",
"https://identifiers.org/MGI",
},
- new Class<?>[] { Protein.class, Gene.class, Rna.class }, "MIR:00000037",
- new Class<?>[] {},
+ new Class<?>[]{Protein.class, Gene.class, Rna.class}, "MIR:00000037",
+ new Class<?>[]{},
"",
"MGI:2442292"),
MGED_ONTOLOGY("MGED Ontology",
"http://bioportal.bioontology.org/",
- new String[] { "urn:miriam:mo",
+ new String[]{"urn:miriam:mo",
"http://identifiers.org/mo/",
"http://identifiers.org/mo",
"https://identifiers.org/mo/",
"https://identifiers.org/mo",
- }, new Class<?>[] {}, "MIR:00000303",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000303",
+ new Class<?>[]{},
"mo",
"ArrayGroup"),
MGNIFY_PROJECT("MGnify Project",
"https://www.ebi.ac.uk/metagenomics",
- new String[] { "urn:miriam:ebimetagenomics.proj",
+ new String[]{"urn:miriam:ebimetagenomics.proj",
"http://identifiers.org/mgnify.proj/",
"http://identifiers.org/mgnify.proj",
"https://identifiers.org/mgnify.proj/",
"https://identifiers.org/mgnify.proj",
- }, new Class<?>[] {}, "MIR:00000535",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000535",
+ new Class<?>[]{},
"mgnify.proj",
"ERP004492"),
MGNIFY_SAMPLE("MGnify Sample",
"https://www.ebi.ac.uk/metagenomics",
- new String[] { "urn:miriam:ebimetagenomics.samp", "urn:miriam:ebimetagenomics",
+ new String[]{"urn:miriam:ebimetagenomics.samp", "urn:miriam:ebimetagenomics",
"http://identifiers.org/mgnify.samp/",
"http://identifiers.org/mgnify.samp",
"https://identifiers.org/mgnify.samp/",
"https://identifiers.org/mgnify.samp",
- }, new Class<?>[] {}, "MIR:00000510",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000510",
+ new Class<?>[]{},
"mgnify.samp",
"SRS086444"),
MINT("MINT",
"http://mint.bio.uniroma2.it/mint/",
- new String[] { "urn:miriam:mint",
+ new String[]{"urn:miriam:mint",
"http://identifiers.org/mint/",
"http://identifiers.org/mint",
"https://identifiers.org/mint/",
"https://identifiers.org/mint",
- }, new Class<?>[] {}, "MIR:00000042",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000042",
+ new Class<?>[]{},
"mint",
"MINT-10000"),
MMRRC("MMRRC",
"http://www.mmrrc.org/",
- new String[] { "urn:miriam:mmrrc",
+ new String[]{"urn:miriam:mmrrc",
"http://identifiers.org/mmrrc/",
"http://identifiers.org/mmrrc",
"https://identifiers.org/mmrrc/",
"https://identifiers.org/mmrrc",
- }, new Class<?>[] {}, "MIR:00000324",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000324",
+ new Class<?>[]{},
"mmrrc",
"71"),
MOD("Protein Modification Ontology",
"https://bioportal.bioontology.org/ontologies/PSIMOD",
- new String[] { "urn:miriam:obo.psi-mod", "urn:miriam:psimod", "urn:miriam:mod",
+ new String[]{"urn:miriam:obo.psi-mod", "urn:miriam:psimod", "urn:miriam:mod",
"http://identifiers.org/mod/",
"http://identifiers.org/psimod/",
"http://identifiers.org/obo.psi-mod/",
@@ -3872,440 +3871,440 @@ public enum MiriamType {
"https://identifiers.org/psimod/",
"https://identifiers.org/MOD",
},
- new Class<?>[] {}, "MIR:00000056",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000056",
+ new Class<?>[]{},
"",
"MOD:00001"),
MODELDB("ModelDB",
"http://senselab.med.yale.edu/ModelDB/",
- new String[] { "urn:miriam:modeldb",
+ new String[]{"urn:miriam:modeldb",
"http://identifiers.org/modeldb/",
"http://identifiers.org/modeldb",
"https://identifiers.org/modeldb/",
"https://identifiers.org/modeldb",
- }, new Class<?>[] {}, "MIR:00000131",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000131",
+ new Class<?>[]{},
"modeldb",
"45539"),
MOLBASE("Molbase",
"http://www.molbase.com/",
- new String[] { "urn:miriam:molbase",
+ new String[]{"urn:miriam:molbase",
"http://identifiers.org/molbase/",
"http://identifiers.org/molbase",
"https://identifiers.org/molbase/",
"https://identifiers.org/molbase",
- }, new Class<?>[] {}, "MIR:00000458",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000458",
+ new Class<?>[]{},
"molbase",
"128796-39-4"),
MOLECULAR_MODELING_DATABASE("Molecular Modeling Database",
"http://www.ncbi.nlm.nih.gov/sites/entrez?db=structure",
- new String[] { "urn:miriam:mmdb",
+ new String[]{"urn:miriam:mmdb",
"http://identifiers.org/mmdb/",
"http://identifiers.org/mmdb",
"https://identifiers.org/mmdb/",
"https://identifiers.org/mmdb",
- }, new Class<?>[] {}, "MIR:00000121",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000121",
+ new Class<?>[]{},
"mmdb",
"50885"),
MOUSE_ADULT_GROSS_ANATOMY("Mouse Adult Gross Anatomy",
"http://bioportal.bioontology.org/ontologies/MA",
- new String[] { "urn:miriam:ma",
+ new String[]{"urn:miriam:ma",
"http://identifiers.org/ma/",
"http://identifiers.org/MA",
"https://identifiers.org/ma/",
"https://identifiers.org/MA",
- }, new Class<?>[] {}, "MIR:00000445",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000445",
+ new Class<?>[]{},
"",
"MA:0002502"),
MYCOBANK("MycoBank",
"http://www.mycobank.org/",
- new String[] { "urn:miriam:mycobank",
+ new String[]{"urn:miriam:mycobank",
"http://identifiers.org/mycobank/",
"http://identifiers.org/mycobank",
"https://identifiers.org/mycobank/",
"https://identifiers.org/mycobank",
- }, new Class<?>[] {}, "MIR:00000178",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000178",
+ new Class<?>[]{},
"mycobank",
"349124"),
MYCOBROWSER_LEPRAE("MycoBrowser leprae",
"http://mycobrowser.epfl.ch/leprosy.html",
- new String[] { "urn:miriam:myco.lepra",
+ new String[]{"urn:miriam:myco.lepra",
"http://identifiers.org/myco.lepra/",
"http://identifiers.org/myco.lepra",
"https://identifiers.org/myco.lepra/",
"https://identifiers.org/myco.lepra",
- }, new Class<?>[] {}, "MIR:00000217",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000217",
+ new Class<?>[]{},
"myco.lepra",
"ML0224"),
MYCOBROWSER_MARINUM("MycoBrowser marinum",
"http://mycobrowser.epfl.ch/marinolist.html",
- new String[] { "urn:miriam:myco.marinum",
+ new String[]{"urn:miriam:myco.marinum",
"http://identifiers.org/myco.marinum/",
"http://identifiers.org/myco.marinum",
"https://identifiers.org/myco.marinum/",
"https://identifiers.org/myco.marinum",
- }, new Class<?>[] {}, "MIR:00000218",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000218",
+ new Class<?>[]{},
"myco.marinum",
"MMAR_2462"),
MYCOBROWSER_SMEGMATIS("MycoBrowser smegmatis",
"http://mycobrowser.epfl.ch/smegmalist.html",
- new String[] { "urn:miriam:myco.smeg",
+ new String[]{"urn:miriam:myco.smeg",
"http://identifiers.org/myco.smeg/",
"http://identifiers.org/myco.smeg",
"https://identifiers.org/myco.smeg/",
"https://identifiers.org/myco.smeg",
- }, new Class<?>[] {}, "MIR:00000219",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000219",
+ new Class<?>[]{},
"myco.smeg",
"MSMEG_3769"),
MYCOBROWSER_TUBERCULOSIS("MycoBrowser tuberculosis",
"http://tuberculist.epfl.ch/",
- new String[] { "urn:miriam:myco.tuber",
+ new String[]{"urn:miriam:myco.tuber",
"http://identifiers.org/myco.tuber/",
"http://identifiers.org/myco.tuber",
"https://identifiers.org/myco.tuber/",
"https://identifiers.org/myco.tuber",
- }, new Class<?>[] {}, "MIR:00000216",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000216",
+ new Class<?>[]{},
"myco.tuber",
"Rv1908c"),
NAPP("NAPP",
"http://napp.u-psud.fr/",
- new String[] { "urn:miriam:napp",
+ new String[]{"urn:miriam:napp",
"http://identifiers.org/napp/",
"http://identifiers.org/napp",
"https://identifiers.org/napp/",
"https://identifiers.org/napp",
- }, new Class<?>[] {}, "MIR:00000247",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000247",
+ new Class<?>[]{},
"napp",
"351"),
NARCIS("NARCIS",
"http://www.narcis.nl/?Language=en",
- new String[] { "urn:miriam:narcis",
+ new String[]{"urn:miriam:narcis",
"http://identifiers.org/narcis/",
"http://identifiers.org/narcis",
"https://identifiers.org/narcis/",
"https://identifiers.org/narcis",
- }, new Class<?>[] {}, "MIR:00000240",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000240",
+ new Class<?>[]{},
"narcis",
"oai:cwi.nl:4725"),
NASC_CODE("NASC code",
"http://arabidopsis.info/",
- new String[] { "urn:miriam:nasc",
+ new String[]{"urn:miriam:nasc",
"http://identifiers.org/nasc/",
"http://identifiers.org/nasc",
"https://identifiers.org/nasc/",
"https://identifiers.org/nasc",
- }, new Class<?>[] {}, "MIR:00000304",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000304",
+ new Class<?>[]{},
"nasc",
"N1899"),
NATIONAL_BIBLIOGRAPHY_NUMBER("National Bibliography Number",
"http://nbn-resolving.org/resolve_urn.htm",
- new String[] { "urn:miriam:nbn",
+ new String[]{"urn:miriam:nbn",
"http://identifiers.org/nbn/",
"http://identifiers.org/nbn",
"https://identifiers.org/nbn/",
"https://identifiers.org/nbn",
- }, new Class<?>[] {}, "MIR:00000381",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000381",
+ new Class<?>[]{},
"nbn",
"urn:nbn:fi:tkk-004781"),
NATIONAL_DRUG_CODE("National Drug Code",
"http://www.accessdata.fda.gov/scripts/cder/ndc/",
- new String[] { "urn:miriam:ndc",
+ new String[]{"urn:miriam:ndc",
"http://identifiers.org/ndc/",
"http://identifiers.org/ndc",
"https://identifiers.org/ndc/",
"https://identifiers.org/ndc",
- }, new Class<?>[] {}, "MIR:00000431",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000431",
+ new Class<?>[]{},
"ndc",
"0002-1975-61"),
NCBI_PROTEIN("NCBI Protein",
"https://www.ncbi.nlm.nih.gov/protein",
- new String[] { "urn:miriam:ncbiprotein",
+ new String[]{"urn:miriam:ncbiprotein",
"http://identifiers.org/ncbiprotein/",
"http://identifiers.org/ncbiprotein",
"https://identifiers.org/ncbiprotein/",
"https://identifiers.org/ncbiprotein",
},
- new Class<?>[] {}, "MIR:00000344",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000344",
+ new Class<?>[]{},
"ncbiprotein",
"CAA71117.1"),
NCIM("NCIm",
"http://ncim.nci.nih.gov/",
- new String[] { "urn:miriam:ncim",
+ new String[]{"urn:miriam:ncim",
"http://identifiers.org/ncim/",
"http://identifiers.org/ncim",
"https://identifiers.org/ncim/",
"https://identifiers.org/ncim",
- }, new Class<?>[] {}, "MIR:00000353",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000353",
+ new Class<?>[]{},
"ncim",
"C0026339"),
NCI_PATHWAY_INTERACTION_DATABASE_PATHWAY("NCI Pathway Interaction Database: Pathway",
"http://pid.nci.nih.gov/",
- new String[] { "urn:miriam:pid.pathway",
+ new String[]{"urn:miriam:pid.pathway",
"http://identifiers.org/pid.pathway/",
"http://identifiers.org/pid.pathway",
"https://identifiers.org/pid.pathway/",
"https://identifiers.org/pid.pathway",
- }, new Class<?>[] {}, "MIR:00000133",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000133",
+ new Class<?>[]{},
"pid.pathway",
"pi3kcipathway"),
NCIT("NCIt",
"http://ncit.nci.nih.gov/",
- new String[] { "urn:miriam:ncit",
+ new String[]{"urn:miriam:ncit",
"http://identifiers.org/ncit/",
"http://identifiers.org/ncit",
"https://identifiers.org/ncit/",
"https://identifiers.org/ncit",
- }, new Class<?>[] {}, "MIR:00000139",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000139",
+ new Class<?>[]{},
"ncit",
"C80519"),
NEUROLEX("NeuroLex",
"http://www.neurolex.org/wiki/Main_Page",
- new String[] { "urn:miriam:neurolex",
+ new String[]{"urn:miriam:neurolex",
"http://identifiers.org/neurolex/",
"http://identifiers.org/neurolex",
"https://identifiers.org/neurolex/",
"https://identifiers.org/neurolex",
- }, new Class<?>[] {}, "MIR:00000126",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000126",
+ new Class<?>[]{},
"neurolex",
"Birnlex_721"),
NEUROMORPHO("NeuroMorpho",
"http://neuromorpho.org/index.jsp",
- new String[] { "urn:miriam:neuromorpho",
+ new String[]{"urn:miriam:neuromorpho",
"http://identifiers.org/neuromorpho/",
"http://identifiers.org/neuromorpho",
"https://identifiers.org/neuromorpho/",
"https://identifiers.org/neuromorpho",
- }, new Class<?>[] {}, "MIR:00000095",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000095",
+ new Class<?>[]{},
"neuromorpho",
"Rosa2"),
NEURONDB("NeuronDB",
"http://senselab.med.yale.edu/NeuronDB/",
- new String[] { "urn:miriam:neurondb",
+ new String[]{"urn:miriam:neurondb",
"http://identifiers.org/neurondb/",
"http://identifiers.org/neurondb",
"https://identifiers.org/neurondb/",
"https://identifiers.org/neurondb",
- }, new Class<?>[] {}, "MIR:00000094",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000094",
+ new Class<?>[]{},
"neurondb",
"265"),
NEXTDB("NEXTDB",
"http://nematode.lab.nig.ac.jp/",
- new String[] { "urn:miriam:nextdb",
+ new String[]{"urn:miriam:nextdb",
"http://identifiers.org/nextdb/",
"http://identifiers.org/nextdb",
"https://identifiers.org/nextdb/",
"https://identifiers.org/nextdb",
- }, new Class<?>[] {}, "MIR:00000289",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000289",
+ new Class<?>[]{},
"nextdb",
"6b1"),
NEXTPROT("nextProt",
"https://www.nextprot.org/",
- new String[] { "urn:miriam:nextprot",
+ new String[]{"urn:miriam:nextprot",
"http://identifiers.org/nextprot/",
"http://identifiers.org/nextprot",
"https://identifiers.org/nextprot/",
"https://identifiers.org/nextprot",
- }, new Class<?>[] {}, "MIR:00000236",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000236",
+ new Class<?>[]{},
"nextprot",
"NX_O00165"),
NIAEST("NIAEST",
"http://lgsun.grc.nia.nih.gov/cDNA/",
- new String[] { "urn:miriam:niaest",
+ new String[]{"urn:miriam:niaest",
"http://identifiers.org/niaest/",
"http://identifiers.org/niaest",
"https://identifiers.org/niaest/",
"https://identifiers.org/niaest",
- }, new Class<?>[] {}, "MIR:00000305",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000305",
+ new Class<?>[]{},
"niaest",
"J0705A10"),
NITE_BIOLOGICAL_RESEARCH_CENTER_CATALOGUE("NITE Biological Research Center Catalogue",
"http://www.nbrc.nite.go.jp/e/index.html",
- new String[] { "urn:miriam:nbrc",
+ new String[]{"urn:miriam:nbrc",
"http://identifiers.org/nbrc/",
"http://identifiers.org/nbrc",
"https://identifiers.org/nbrc/",
"https://identifiers.org/nbrc",
- }, new Class<?>[] {}, "MIR:00000179",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000179",
+ new Class<?>[]{},
"nbrc",
"00001234"),
NONCODE_V3("NONCODE v3",
"http://www.noncode.org/",
- new String[] { "urn:miriam:noncodev3", "urn:miriam:noncode",
+ new String[]{"urn:miriam:noncodev3", "urn:miriam:noncode",
"http://identifiers.org/noncodev3/",
"http://identifiers.org/noncodev3",
"https://identifiers.org/noncodev3/",
"https://identifiers.org/noncodev3",
- }, new Class<?>[] {}, "MIR:00000248",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000248",
+ new Class<?>[]{},
"noncodev3",
"377550"),
NONCODE_V4_GENE("NONCODE v4 Gene",
"http://www.bioinfo.org/NONCODEv4/",
- new String[] { "urn:miriam:noncodev4.gene",
+ new String[]{"urn:miriam:noncodev4.gene",
"http://identifiers.org/noncodev4.gene/",
"http://identifiers.org/noncodev4.gene",
"https://identifiers.org/noncodev4.gene/",
"https://identifiers.org/noncodev4.gene",
- }, new Class<?>[] {}, "MIR:00000480",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000480",
+ new Class<?>[]{},
"noncodev4.gene",
"NONHSAG00001"),
NONCODE_V4_TRANSCRIPT("NONCODE v4 Transcript",
"http://www.bioinfo.org/NONCODEv4/",
- new String[] { "urn:miriam:noncodev4.rna",
+ new String[]{"urn:miriam:noncodev4.rna",
"http://identifiers.org/noncodev4.rna/",
"http://identifiers.org/noncodev4.rna",
"https://identifiers.org/noncodev4.rna/",
"https://identifiers.org/noncodev4.rna",
- }, new Class<?>[] {}, "MIR:00000481",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000481",
+ new Class<?>[]{},
"noncodev4.rna",
"NONHSAT000001"),
NORINE("NORINE",
"http://bioinfo.lifl.fr/norine/",
- new String[] { "urn:miriam:norine",
+ new String[]{"urn:miriam:norine",
"http://identifiers.org/norine/",
"http://identifiers.org/norine",
"https://identifiers.org/norine/",
"https://identifiers.org/norine",
- }, new Class<?>[] {}, "MIR:00000498",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000498",
+ new Class<?>[]{},
"norine",
"NOR00681"),
NUCLEARDB("NucleaRDB",
"http://www.receptors.org/nucleardb/",
- new String[] { "urn:miriam:nuclearbd",
+ new String[]{"urn:miriam:nuclearbd",
"http://identifiers.org/nuclearbd/",
"http://identifiers.org/nuclearbd",
"https://identifiers.org/nuclearbd/",
"https://identifiers.org/nuclearbd",
- }, new Class<?>[] {}, "MIR:00000356",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000356",
+ new Class<?>[]{},
"nuclearbd",
"prgr_human"),
NUCLEOTIDE_SEQUENCE_DATABASE("Nucleotide Sequence Database",
"https://www.ncbi.nlm.nih.gov/Genbank/",
- new String[] { "urn:miriam:insdc",
+ new String[]{"urn:miriam:insdc",
"http://identifiers.org/insdc/",
"http://identifiers.org/insdc",
"https://identifiers.org/insdc/",
"https://identifiers.org/insdc",
- }, new Class<?>[] {}, "MIR:00000029",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000029",
+ new Class<?>[]{},
"insdc",
"X58356"),
OBI("Ontology for Biomedical Investigations",
"https://www.ebi.ac.uk/ols/ontologies/obi/",
- new String[] { "urn:miriam:obi", "urn:miriam:obo.obi",
+ new String[]{"urn:miriam:obi", "urn:miriam:obo.obi",
"http://identifiers.org/obi/",
"http://identifiers.org/obi",
"https://identifiers.org/obi/",
"https://identifiers.org/obi",
},
- new Class<?>[] {}, "MIR:00000127",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000127",
+ new Class<?>[]{},
"obi",
"OBI:0000070"),
OMA_GROUP("OMA Group",
"https://omabrowser.org/cgi-bin/gateway.pl",
- new String[] { "urn:miriam:oma.grp",
+ new String[]{"urn:miriam:oma.grp",
"http://identifiers.org/oma.grp/",
"http://identifiers.org/oma.grp",
"https://identifiers.org/oma.grp/",
"https://identifiers.org/oma.grp",
- }, new Class<?>[] {}, "MIR:00000343",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000343",
+ new Class<?>[]{},
"oma.grp",
"LCSCCPN"),
OMA_PROTEIN("OMA Protein",
"https://omabrowser.org/cgi-bin/gateway.pl",
- new String[] { "urn:miriam:oma.protein",
+ new String[]{"urn:miriam:oma.protein",
"http://identifiers.org/oma.protein/",
"http://identifiers.org/oma.protein",
"https://identifiers.org/oma.protein/",
"https://identifiers.org/oma.protein",
- }, new Class<?>[] {}, "MIR:00000342",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000342",
+ new Class<?>[]{},
"oma.protein",
"HUMAN16963"),
ODOR_MOLECULES_DATABASE("Odor Molecules DataBase",
"http://senselab.med.yale.edu/OdorDB",
- new String[] { "urn:miriam:odor",
+ new String[]{"urn:miriam:odor",
"http://identifiers.org/odor/",
"http://identifiers.org/odor",
"https://identifiers.org/odor/",
"https://identifiers.org/odor",
- }, new Class<?>[] {}, "MIR:00000500",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000500",
+ new Class<?>[]{},
"odor",
"75"),
OLFACTORY_RECEPTOR_DATABASE("Olfactory Receptor Database",
"http://senselab.med.yale.edu/OrDB/",
- new String[] { "urn:miriam:ordb",
+ new String[]{"urn:miriam:ordb",
"http://identifiers.org/ordb/",
"http://identifiers.org/ordb",
"https://identifiers.org/ordb/",
"https://identifiers.org/ordb",
- }, new Class<?>[] {}, "MIR:00000499",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000499",
+ new Class<?>[]{},
"ordb",
"8497"),
OMIA("OMIA",
"http://omia.angis.org.au/",
- new String[] { "urn:miriam:omia",
+ new String[]{"urn:miriam:omia",
"http://identifiers.org/omia/",
"http://identifiers.org/omia",
"https://identifiers.org/omia/",
"https://identifiers.org/omia",
- }, new Class<?>[] {}, "MIR:00000142",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000142",
+ new Class<?>[]{},
"omia",
"1000"),
@@ -4314,219 +4313,219 @@ public enum MiriamType {
*/
OMIM("Online Mendelian Inheritance in Man",
"http://omim.org/",
- new String[] { "urn:miriam:omim",
+ new String[]{"urn:miriam:omim",
"http://identifiers.org/mim/",
"http://identifiers.org/mim",
"https://identifiers.org/mim/",
"https://identifiers.org/mim",
},
- new Class<?>[] { Phenotype.class }, "MIR:00000016",
- new Class<?>[] {},
+ new Class<?>[]{Phenotype.class}, "MIR:00000016",
+ new Class<?>[]{},
"mim",
"603903"),
@NoMiriamUrn
OMIT("OMIT",
"https://www.ebi.ac.uk/ols/ontologies/omit/",
- new String[] {
+ new String[]{
"http://identifiers.org/omit/",
"http://identifiers.org/omit",
"https://identifiers.org/omit/",
"https://identifiers.org/omit",
},
- new Class<?>[] {}, "MIR:00000605",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000605",
+ new Class<?>[]{},
"omit",
"0005506"),
ONTOLOGY_OF_PHYSICS_FOR_BIOLOGY("Ontology of Physics for Biology",
"http://bioportal.bioontology.org/ontologies/OPB",
- new String[] { "urn:miriam:opb",
+ new String[]{"urn:miriam:opb",
"http://identifiers.org/opb/",
"http://identifiers.org/opb",
"https://identifiers.org/opb/",
"https://identifiers.org/opb",
- }, new Class<?>[] {}, "MIR:00000129",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000129",
+ new Class<?>[]{},
"opb",
"OPB_00573"),
OPM("OPM",
"http://opm.phar.umich.edu/",
- new String[] { "urn:miriam:opm",
+ new String[]{"urn:miriam:opm",
"http://identifiers.org/opm/",
"http://identifiers.org/opm",
"https://identifiers.org/opm/",
"https://identifiers.org/opm",
- }, new Class<?>[] {}, "MIR:00000333",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000333",
+ new Class<?>[]{},
"opm",
"1h68"),
ORCID("ORCID",
"https://orcid.org",
- new String[] { "urn:miriam:orcid",
+ new String[]{"urn:miriam:orcid",
"http://identifiers.org/orcid/",
"http://identifiers.org/orcid",
"https://identifiers.org/orcid/",
"https://identifiers.org/orcid",
- }, new Class<?>[] {}, "MIR:00000382",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000382",
+ new Class<?>[]{},
"orcid",
"0000-0002-5355-2576"),
ORIDB_SACCHAROMYCES("OriDB Saccharomyces",
"http://cerevisiae.oridb.org/index.php",
- new String[] { "urn:miriam:oridb.sacch",
+ new String[]{"urn:miriam:oridb.sacch",
"http://identifiers.org/oridb.sacch/",
"http://identifiers.org/oridb.sacch",
"https://identifiers.org/oridb.sacch/",
"https://identifiers.org/oridb.sacch",
- }, new Class<?>[] {}, "MIR:00000369",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000369",
+ new Class<?>[]{},
"oridb.sacch",
"9"),
ORIDB_SCHIZOSACCHAROMYCES("OriDB Schizosaccharomyces",
"http://pombe.oridb.org/index.php",
- new String[] { "urn:miriam:oridb.schizo",
+ new String[]{"urn:miriam:oridb.schizo",
"http://identifiers.org/oridb.schizo/",
"http://identifiers.org/oridb.schizo",
"https://identifiers.org/oridb.schizo/",
"https://identifiers.org/oridb.schizo",
- }, new Class<?>[] {}, "MIR:00000368",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000368",
+ new Class<?>[]{},
"oridb.schizo",
"28"),
ORPHANET("Orphanet",
"http://www.orpha.net/consor/",
- new String[] { "urn:miriam:orphanet",
+ new String[]{"urn:miriam:orphanet",
"http://identifiers.org/orphanet/",
"http://identifiers.org/orphanet",
"https://identifiers.org/orphanet/",
"https://identifiers.org/orphanet",
- }, new Class<?>[] {}, "MIR:00000220",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000220",
+ new Class<?>[]{},
"orphanet",
"85163"),
ORPHANET_RARE_DISEASE_ONTOLOGY("Orphanet Rare Disease Ontology",
"https://www.ebi.ac.uk/ols/ontologies/ordo",
- new String[] { "urn:miriam:orphanet.ordo",
+ new String[]{"urn:miriam:orphanet.ordo",
"http://identifiers.org/orphanet.ordo/",
"http://identifiers.org/orphanet.ordo",
"https://identifiers.org/orphanet.ordo/",
"https://identifiers.org/orphanet.ordo",
- }, new Class<?>[] {}, "MIR:00000532",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000532",
+ new Class<?>[]{},
"orphanet.ordo",
"Orphanet_C023"),
ORTHODB("OrthoDB",
"http://cegg.unige.ch/orthodb4",
- new String[] { "urn:miriam:orthodb",
+ new String[]{"urn:miriam:orthodb",
"http://identifiers.org/orthodb/",
"http://identifiers.org/orthodb",
"https://identifiers.org/orthodb/",
"https://identifiers.org/orthodb",
- }, new Class<?>[] {}, "MIR:00000221",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000221",
+ new Class<?>[]{},
"orthodb",
"Q9P0K8"),
ORYZABASE_GENE("Oryzabase Gene",
"http://www.shigen.nig.ac.jp/rice/oryzabaseV4/",
- new String[] { "urn:miriam:oryzabase.gene",
+ new String[]{"urn:miriam:oryzabase.gene",
"http://identifiers.org/oryzabase.gene/",
"http://identifiers.org/oryzabase.gene",
"https://identifiers.org/oryzabase.gene/",
"https://identifiers.org/oryzabase.gene",
- }, new Class<?>[] {}, "MIR:00000482",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000482",
+ new Class<?>[]{},
"oryzabase.gene",
"117"),
ORYZABASE_MUTANT("Oryzabase Mutant",
"http://www.shigen.nig.ac.jp/rice/oryzabaseV4/",
- new String[] { "urn:miriam:oryzabase.mutant",
+ new String[]{"urn:miriam:oryzabase.mutant",
"http://identifiers.org/oryzabase.mutant/",
"http://identifiers.org/oryzabase.mutant",
"https://identifiers.org/oryzabase.mutant/",
"https://identifiers.org/oryzabase.mutant",
- }, new Class<?>[] {}, "MIR:00000483",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000483",
+ new Class<?>[]{},
"oryzabase.mutant",
"21393"),
ORYZABASE_STAGE("Oryzabase Stage",
"http://www.shigen.nig.ac.jp/rice/oryzabaseV4/",
- new String[] { "urn:miriam:oryzabase.stage",
+ new String[]{"urn:miriam:oryzabase.stage",
"http://identifiers.org/oryzabase.stage/",
"http://identifiers.org/oryzabase.stage",
"https://identifiers.org/oryzabase.stage/",
"https://identifiers.org/oryzabase.stage",
- }, new Class<?>[] {}, "MIR:00000485",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000485",
+ new Class<?>[]{},
"oryzabase.stage",
"34"),
ORYZABASE_STRAIN("Oryzabase Strain",
"http://www.shigen.nig.ac.jp/rice/oryzabaseV4/",
- new String[] { "urn:miriam:oryzabase.strain",
+ new String[]{"urn:miriam:oryzabase.strain",
"http://identifiers.org/oryzabase.strain/",
"http://identifiers.org/oryzabase.strain",
"https://identifiers.org/oryzabase.strain/",
"https://identifiers.org/oryzabase.strain",
- }, new Class<?>[] {}, "MIR:00000484",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000484",
+ new Class<?>[]{},
"oryzabase.strain",
"109"),
ORYZA_TAG_LINE("Oryza Tag Line",
"http://oryzatagline.cirad.fr/",
- new String[] { "urn:miriam:otl",
+ new String[]{"urn:miriam:otl",
"http://identifiers.org/otl/",
"http://identifiers.org/otl",
"https://identifiers.org/otl/",
"https://identifiers.org/otl",
- }, new Class<?>[] {}, "MIR:00000486",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000486",
+ new Class<?>[]{},
"otl",
"AADB12"),
P3DB_PROTEIN("P3DB Protein",
"http://www.p3db.org/",
- new String[] { "urn:miriam:p3db.protein",
+ new String[]{"urn:miriam:p3db.protein",
"http://identifiers.org/p3db.protein/",
"http://identifiers.org/p3db.protein",
"https://identifiers.org/p3db.protein/",
"https://identifiers.org/p3db.protein",
- }, new Class<?>[] {}, "MIR:00000501",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000501",
+ new Class<?>[]{},
"p3db.protein",
"70"),
P3DB_SITE("P3DB Site",
"http://www.p3db.org/",
- new String[] { "urn:miriam:p3db.site",
+ new String[]{"urn:miriam:p3db.site",
"http://identifiers.org/p3db.site/",
"http://identifiers.org/p3db.site",
"https://identifiers.org/p3db.site/",
"https://identifiers.org/p3db.site",
- }, new Class<?>[] {}, "MIR:00000502",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000502",
+ new Class<?>[]{},
"p3db.site",
"65"),
PALEODB("PaleoDB",
"http://paleodb.org/",
- new String[] { "urn:miriam:paleodb",
+ new String[]{"urn:miriam:paleodb",
"http://identifiers.org/paleodb/",
"http://identifiers.org/paleodb",
"https://identifiers.org/paleodb/",
"https://identifiers.org/paleodb",
- }, new Class<?>[] {}, "MIR:00000197",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000197",
+ new Class<?>[]{},
"paleodb",
"83088"),
@@ -4535,134 +4534,134 @@ public enum MiriamType {
*/
PANTHER("PANTHER Family",
"http://www.pantherdb.org/",
- new String[] { "urn:miriam:panther.family",
+ new String[]{"urn:miriam:panther.family",
"urn:miriam:panther",
"http://identifiers.org/panther.family/",
"http://identifiers.org/panther.family",
"https://identifiers.org/panther.family/",
"https://identifiers.org/panther.family",
},
- new Class<?>[] { Protein.class, Gene.class, Rna.class }, "MIR:00000060",
- new Class<?>[] {},
+ new Class<?>[]{Protein.class, Gene.class, Rna.class}, "MIR:00000060",
+ new Class<?>[]{},
"panther.family",
"PTHR12345"),
PANTHER_NODE("PANTHER Node",
"http://pantree.org/",
- new String[] { "urn:miriam:panther.node",
+ new String[]{"urn:miriam:panther.node",
"http://identifiers.org/panther.node/",
"http://identifiers.org/panther.node",
"https://identifiers.org/panther.node/",
"https://identifiers.org/panther.node",
- }, new Class<?>[] {}, "MIR:00000374",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000374",
+ new Class<?>[]{},
"panther.node",
"PTN000000026"),
PANTHER_PATHWAY("PANTHER Pathway",
"http://www.pantherdb.org/",
- new String[] { "urn:miriam:panther.pathway",
+ new String[]{"urn:miriam:panther.pathway",
"http://identifiers.org/panther.pathway/",
"http://identifiers.org/panther.pathway",
"https://identifiers.org/panther.pathway/",
"https://identifiers.org/panther.pathway",
- }, new Class<?>[] {}, "MIR:00000363",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000363",
+ new Class<?>[]{},
"panther.pathway",
"P00024"),
PANTHER_PATHWAY_COMPONENT("PANTHER Pathway Component",
"http://www.pantherdb.org/",
- new String[] { "urn:miriam:panther.pthcmp",
+ new String[]{"urn:miriam:panther.pthcmp",
"http://identifiers.org/panther.pthcmp/",
"http://identifiers.org/panther.pthcmp",
"https://identifiers.org/panther.pthcmp/",
"https://identifiers.org/panther.pthcmp",
- }, new Class<?>[] {}, "MIR:00000422",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000422",
+ new Class<?>[]{},
"panther.pthcmp",
"S00266"),
PASS2("PASS2",
"http://caps.ncbs.res.in/pass2/",
- new String[] { "urn:miriam:pass2",
+ new String[]{"urn:miriam:pass2",
"http://identifiers.org/pass2/",
"http://identifiers.org/pass2",
"https://identifiers.org/pass2/",
"https://identifiers.org/pass2",
- }, new Class<?>[] {}, "MIR:00000468",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000468",
+ new Class<?>[]{},
"pass2",
"46977"),
PATHWAY_ONTOLOGY("Pathway Ontology",
"http://rgd.mcw.edu/rgdweb/ontology/search.html",
- new String[] { "urn:miriam:pw", "urn:miriam:obo.pw",
+ new String[]{"urn:miriam:pw", "urn:miriam:obo.pw",
"http://identifiers.org/pw/",
"http://identifiers.org/PW",
"https://identifiers.org/pw/",
"https://identifiers.org/PW",
- }, new Class<?>[] {}, "MIR:00000242",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000242",
+ new Class<?>[]{},
"",
"PW:0000208"),
PATHWAY_COMMONS("Pathway Commons",
"http://www.pathwaycommons.org/pc/",
- new String[] { "urn:miriam:pathwaycommons",
+ new String[]{"urn:miriam:pathwaycommons",
"http://identifiers.org/pathwaycommons/",
"http://identifiers.org/pathwaycommons",
"https://identifiers.org/pathwaycommons/",
"https://identifiers.org/pathwaycommons",
- }, new Class<?>[] {}, "MIR:00000073",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000073",
+ new Class<?>[]{},
"pathwaycommons",
"485991"),
PATO("PATO",
"https://www.ebi.ac.uk/ols/ontologies/pato",
- new String[] { "urn:miriam:pato",
+ new String[]{"urn:miriam:pato",
"urn:miriam:obo.pato",
"http://identifiers.org/pato/",
"http://identifiers.org/PATO",
"https://identifiers.org/pato/",
"https://identifiers.org/PATO",
},
- new Class<?>[] {}, "MIR:00000112",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000112",
+ new Class<?>[]{},
"",
"PATO:0001998"),
PAXDB_ORGANISM("PaxDb Organism",
"http://pax-db.org/",
- new String[] { "urn:miriam:paxdb.organism",
+ new String[]{"urn:miriam:paxdb.organism",
"http://identifiers.org/paxdb.organism/",
"http://identifiers.org/paxdb.organism",
"https://identifiers.org/paxdb.organism/",
"https://identifiers.org/paxdb.organism",
- }, new Class<?>[] {}, "MIR:00000488",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000488",
+ new Class<?>[]{},
"paxdb.organism",
"9606"),
PAXDB_PROTEIN("PaxDb Protein",
"http://pax-db.org/",
- new String[] { "urn:miriam:paxdb.protein",
+ new String[]{"urn:miriam:paxdb.protein",
"http://identifiers.org/paxdb.protein/",
"http://identifiers.org/paxdb.protein",
"https://identifiers.org/paxdb.protein/",
"https://identifiers.org/paxdb.protein",
- }, new Class<?>[] {}, "MIR:00000489",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000489",
+ new Class<?>[]{},
"paxdb.protein",
"977869"),
PAZAR_TRANSCRIPTION_FACTOR("Pazar Transcription Factor",
"http://www.pazar.info/",
- new String[] { "urn:miriam:pazar",
+ new String[]{"urn:miriam:pazar",
"http://identifiers.org/pazar/",
"http://identifiers.org/pazar",
"https://identifiers.org/pazar/",
"https://identifiers.org/pazar",
- }, new Class<?>[] {}, "MIR:00000306",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000306",
+ new Class<?>[]{},
"pazar",
"TF0001053"),
@@ -4671,51 +4670,51 @@ public enum MiriamType {
*/
PDB("Protein Data Bank",
"http://www.pdbe.org/",
- new String[] { "urn:miriam:pdb",
+ new String[]{"urn:miriam:pdb",
"http://identifiers.org/pdb/",
"http://identifiers.org/pdb",
"https://identifiers.org/pdb/",
"https://identifiers.org/pdb",
},
- new Class<?>[] { Protein.class, Gene.class, Rna.class }, "MIR:00000020",
- new Class<?>[] {},
+ new Class<?>[]{Protein.class, Gene.class, Rna.class}, "MIR:00000020",
+ new Class<?>[]{},
"pdb",
"2gc4"),
PDB_CCD("Chemical Component Dictionary",
"https://www.ebi.ac.uk/pdbe-srv/pdbechem/",
- new String[] { "urn:miriam:pdb-ccd",
+ new String[]{"urn:miriam:pdb-ccd",
"http://identifiers.org/pdb-ccd/",
"http://identifiers.org/pdb-ccd",
"https://identifiers.org/pdb-ccd/",
"https://identifiers.org/pdb-ccd",
},
- new Class<?>[] {}, "MIR:00000113",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000113",
+ new Class<?>[]{},
"pdb-ccd",
"AB0"),
PEPTIDEATLAS("PeptideAtlas",
"http://www.peptideatlas.org/",
- new String[] { "urn:miriam:peptideatlas",
+ new String[]{"urn:miriam:peptideatlas",
"http://identifiers.org/peptideatlas/",
"http://identifiers.org/peptideatlas",
"https://identifiers.org/peptideatlas/",
"https://identifiers.org/peptideatlas",
- }, new Class<?>[] {}, "MIR:00000053",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000053",
+ new Class<?>[]{},
"peptideatlas",
"PAp00000009"),
PEROXIBASE("Peroxibase",
"http://peroxibase.toulouse.inra.fr/",
- new String[] { "urn:miriam:peroxibase",
+ new String[]{"urn:miriam:peroxibase",
"http://identifiers.org/peroxibase/",
"http://identifiers.org/peroxibase",
"https://identifiers.org/peroxibase/",
"https://identifiers.org/peroxibase",
- }, new Class<?>[] {}, "MIR:00000222",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000222",
+ new Class<?>[]{},
"peroxibase",
"5282"),
@@ -4724,14 +4723,14 @@ public enum MiriamType {
*/
PFAM("Protein Family Database",
"http://pfam.xfam.org/",
- new String[] { "urn:miriam:pfam",
+ new String[]{"urn:miriam:pfam",
"http://identifiers.org/pfam/",
"http://identifiers.org/pfam",
"https://identifiers.org/pfam/",
"https://identifiers.org/pfam",
},
- new Class<?>[] {}, "MIR:00000028",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000028",
+ new Class<?>[]{},
"pfam",
"PF01234"),
@@ -4740,440 +4739,440 @@ public enum MiriamType {
*/
PHARM("PharmGKB Pathways",
"http://www.pharmgkb.org/",
- new String[] { "urn:miriam:pharmgkb.pathways",
+ new String[]{"urn:miriam:pharmgkb.pathways",
"http://identifiers.org/pharmgkb.pathways/",
"http://identifiers.org/pharmgkb.pathways",
"https://identifiers.org/pharmgkb.pathways/",
"https://identifiers.org/pharmgkb.pathways",
},
- new Class<?>[] {}, "MIR:00000089",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000089",
+ new Class<?>[]{},
"pharmgkb.pathways",
"PA146123006"),
PHARMGKB_DISEASE("PharmGKB Disease",
"http://www.pharmgkb.org/",
- new String[] { "urn:miriam:pharmgkb.disease",
+ new String[]{"urn:miriam:pharmgkb.disease",
"http://identifiers.org/pharmgkb.disease/",
"http://identifiers.org/pharmgkb.disease",
"https://identifiers.org/pharmgkb.disease/",
"https://identifiers.org/pharmgkb.disease",
- }, new Class<?>[] {}, "MIR:00000090",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000090",
+ new Class<?>[]{},
"pharmgkb.disease",
"PA447218"),
PHARMGKB_DRUG("PharmGKB Drug",
"http://www.pharmgkb.org/",
- new String[] { "urn:miriam:pharmgkb.drug",
+ new String[]{"urn:miriam:pharmgkb.drug",
"http://identifiers.org/pharmgkb.drug/",
"http://identifiers.org/pharmgkb.drug",
"https://identifiers.org/pharmgkb.drug/",
"https://identifiers.org/pharmgkb.drug",
- }, new Class<?>[] {}, "MIR:00000091",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000091",
+ new Class<?>[]{},
"pharmgkb.drug",
"PA448710"),
PHARMGKB_GENE("PharmGKB Gene",
"http://www.pharmgkb.org/",
- new String[] { "urn:miriam:pharmgkb.gene",
+ new String[]{"urn:miriam:pharmgkb.gene",
"http://identifiers.org/pharmgkb.gene/",
"http://identifiers.org/pharmgkb.gene",
"https://identifiers.org/pharmgkb.gene/",
"https://identifiers.org/pharmgkb.gene",
- }, new Class<?>[] {}, "MIR:00000245",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000245",
+ new Class<?>[]{},
"pharmgkb.gene",
"PA131"),
PHENOL_EXPLORER("Phenol-Explorer",
"http://www.phenol-explorer.eu/foods/",
- new String[] { "urn:miriam:phenolexplorer",
+ new String[]{"urn:miriam:phenolexplorer",
"http://identifiers.org/phenolexplorer/",
"http://identifiers.org/phenolexplorer",
"https://identifiers.org/phenolexplorer/",
"https://identifiers.org/phenolexplorer",
- }, new Class<?>[] {}, "MIR:00000268",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000268",
+ new Class<?>[]{},
"phenolexplorer",
"76"),
PHOSPHOPOINT_KINASE("PhosphoPoint Kinase",
"http://kinase.bioinformatics.tw/",
- new String[] { "urn:miriam:phosphopoint.kinase",
+ new String[]{"urn:miriam:phosphopoint.kinase",
"http://identifiers.org/phosphopoint.kinase/",
"http://identifiers.org/phosphopoint.kinase",
"https://identifiers.org/phosphopoint.kinase/",
"https://identifiers.org/phosphopoint.kinase",
- }, new Class<?>[] {}, "MIR:00000385",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000385",
+ new Class<?>[]{},
"phosphopoint.kinase",
"AURKA"),
PHOSPHOPOINT_PHOSPHOPROTEIN("PhosphoPoint Phosphoprotein",
"http://kinase.bioinformatics.tw/",
- new String[] { "urn:miriam:phosphopoint.protein",
+ new String[]{"urn:miriam:phosphopoint.protein",
"http://identifiers.org/phosphopoint.protein/",
"http://identifiers.org/phosphopoint.protein",
"https://identifiers.org/phosphopoint.protein/",
"https://identifiers.org/phosphopoint.protein",
- }, new Class<?>[] {}, "MIR:00000386",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000386",
+ new Class<?>[]{},
"phosphopoint.protein",
"AURKA"),
PHOSPHOSITE_PROTEIN("PhosphoSite Protein",
"http://www.phosphosite.org/homeAction.do",
- new String[] { "urn:miriam:phosphosite.protein", "urn:miriam:phosphosite",
+ new String[]{"urn:miriam:phosphosite.protein", "urn:miriam:phosphosite",
"http://identifiers.org/phosphosite.protein/",
"http://identifiers.org/phosphosite.protein",
"https://identifiers.org/phosphosite.protein/",
"https://identifiers.org/phosphosite.protein",
- }, new Class<?>[] {}, "MIR:00000105",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000105",
+ new Class<?>[]{},
"phosphosite.protein",
"12300"),
PHOSPHOSITE_RESIDUE("PhosphoSite Residue",
"http://www.phosphosite.org/homeAction.do",
- new String[] { "urn:miriam:phosphosite.residue",
+ new String[]{"urn:miriam:phosphosite.residue",
"http://identifiers.org/phosphosite.residue/",
"http://identifiers.org/phosphosite.residue",
"https://identifiers.org/phosphosite.residue/",
"https://identifiers.org/phosphosite.residue",
- }, new Class<?>[] {}, "MIR:00000125",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000125",
+ new Class<?>[]{},
"phosphosite.residue",
"2842"),
PHYLOMEDB("PhylomeDB",
"http://phylomedb.org/",
- new String[] { "urn:miriam:phylomedb",
+ new String[]{"urn:miriam:phylomedb",
"http://identifiers.org/phylomedb/",
"http://identifiers.org/phylomedb",
"https://identifiers.org/phylomedb/",
"https://identifiers.org/phylomedb",
- }, new Class<?>[] {}, "MIR:00000223",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000223",
+ new Class<?>[]{},
"phylomedb",
"Phy000CLXM_RAT"),
PHYTOZOME_LOCUS("Phytozome Locus",
"http://www.phytozome.net/",
- new String[] { "urn:miriam:phytozome.locus",
+ new String[]{"urn:miriam:phytozome.locus",
"http://identifiers.org/phytozome.locus/",
"http://identifiers.org/phytozome.locus",
"https://identifiers.org/phytozome.locus/",
"https://identifiers.org/phytozome.locus",
- }, new Class<?>[] {}, "MIR:00000432",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000432",
+ new Class<?>[]{},
"phytozome.locus",
"Glyma0021s00410"),
PINA("PINA",
"http://cbg.garvan.unsw.edu.au/pina/",
- new String[] { "urn:miriam:pina",
+ new String[]{"urn:miriam:pina",
"http://identifiers.org/pina/",
"http://identifiers.org/pina",
"https://identifiers.org/pina/",
"https://identifiers.org/pina",
- }, new Class<?>[] {}, "MIR:00000359",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000359",
+ new Class<?>[]{},
"pina",
"Q13485"),
PIROPLASMADB("PiroplasmaDB",
"http://piroplasmadb.org/",
- new String[] { "urn:miriam:piroplasma",
+ new String[]{"urn:miriam:piroplasma",
"http://identifiers.org/piroplasma/",
"http://identifiers.org/piroplasma",
"https://identifiers.org/piroplasma/",
"https://identifiers.org/piroplasma",
- }, new Class<?>[] {}, "MIR:00000351",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000351",
+ new Class<?>[]{},
"piroplasma",
"TA14985"),
PIRSF("PIRSF",
"https://pir.georgetown.edu/",
- new String[] { "urn:miriam:pirsf",
+ new String[]{"urn:miriam:pirsf",
"http://identifiers.org/pirsf/",
"http://identifiers.org/pirsf",
"https://identifiers.org/pirsf/",
"https://identifiers.org/pirsf",
- }, new Class<?>[] {}, "MIR:00000017",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000017",
+ new Class<?>[]{},
"pirsf",
"PIRSF000100"),
PLANT_ONTOLOGY("Plant Ontology",
"http://www.plantontology.org/",
- new String[] { "urn:miriam:po", "urn:miriam:obo.po",
+ new String[]{"urn:miriam:po", "urn:miriam:obo.po",
"http://identifiers.org/po/",
"http://identifiers.org/PO",
"https://identifiers.org/po/",
"https://identifiers.org/PO",
- }, new Class<?>[] {}, "MIR:00000307",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000307",
+ new Class<?>[]{},
"",
"PO:0009089"),
PLASMODB("PlasmoDB",
"http://plasmodb.org/plasmo/",
- new String[] { "urn:miriam:plasmodb",
+ new String[]{"urn:miriam:plasmodb",
"http://identifiers.org/plasmodb/",
"http://identifiers.org/plasmodb",
"https://identifiers.org/plasmodb/",
"https://identifiers.org/plasmodb",
- }, new Class<?>[] {}, "MIR:00000150",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000150",
+ new Class<?>[]{},
"plasmodb",
"PF11_0344"),
PMC("PMC International",
"http://europepmc.org/",
- new String[] { "urn:miriam:pmc",
+ new String[]{"urn:miriam:pmc",
"http://identifiers.org/pmc/",
"http://identifiers.org/pmc",
"https://identifiers.org/pmc/",
"https://identifiers.org/pmc",
},
- new Class<?>[] {}, "MIR:00000147",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000147",
+ new Class<?>[]{},
"pmc",
"PMC3084216"),
POCKETOME("Pocketome",
"http://www.pocketome.org/sfSearch.cgi?act=browseall",
- new String[] { "urn:miriam:pocketome",
+ new String[]{"urn:miriam:pocketome",
"http://identifiers.org/pocketome/",
"http://identifiers.org/pocketome",
"https://identifiers.org/pocketome/",
"https://identifiers.org/pocketome",
- }, new Class<?>[] {}, "MIR:00000400",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000400",
+ new Class<?>[]{},
"pocketome",
"1433C_TOBAC_1_252"),
POLBASE("PolBase",
"http://polbase.neb.com/",
- new String[] { "urn:miriam:polbase",
+ new String[]{"urn:miriam:polbase",
"http://identifiers.org/polbase/",
"http://identifiers.org/polbase",
"https://identifiers.org/polbase/",
"https://identifiers.org/polbase",
- }, new Class<?>[] {}, "MIR:00000355",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000355",
+ new Class<?>[]{},
"polbase",
"19-T4"),
POMBASE("PomBase",
"http://www.pombase.org/",
- new String[] { "urn:miriam:pombase",
+ new String[]{"urn:miriam:pombase",
"http://identifiers.org/pombase/",
"http://identifiers.org/pombase",
"https://identifiers.org/pombase/",
"https://identifiers.org/pombase",
- }, new Class<?>[] {}, "MIR:00000335",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000335",
+ new Class<?>[]{},
"pombase",
"SPCC13B11.01"),
PRIDE("PRIDE",
"https://www.ebi.ac.uk/pride/",
- new String[] { "urn:miriam:pride",
+ new String[]{"urn:miriam:pride",
"http://identifiers.org/pride/",
"http://identifiers.org/pride",
"https://identifiers.org/pride/",
"https://identifiers.org/pride",
- }, new Class<?>[] {}, "MIR:00000065",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000065",
+ new Class<?>[]{},
"pride",
"2"),
PRIDE_PROJECT("PRIDE Project",
"https://www.ebi.ac.uk/pride/",
- new String[] { "urn:miriam:pride.project",
+ new String[]{"urn:miriam:pride.project",
"http://identifiers.org/pride.project/",
"http://identifiers.org/pride.project",
"https://identifiers.org/pride.project/",
"https://identifiers.org/pride.project",
- }, new Class<?>[] {}, "MIR:00000515",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000515",
+ new Class<?>[]{},
"pride.project",
"PXD000440"),
PRINTS("PRINTS",
"http://www.bioinf.manchester.ac.uk/dbbrowser/sprint/",
- new String[] { "urn:miriam:sprint",
+ new String[]{"urn:miriam:sprint",
"http://identifiers.org/prints/",
"http://identifiers.org/prints",
"https://identifiers.org/prints/",
"https://identifiers.org/prints",
},
- new Class<?>[] {}, "MIR:00000061",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000061",
+ new Class<?>[]{},
"prints",
"PR00001"),
PROGLYCPROT("ProGlycProt",
"http://www.proglycprot.org/",
- new String[] { "urn:miriam:proglyc",
+ new String[]{"urn:miriam:proglyc",
"http://identifiers.org/proglyc/",
"http://identifiers.org/proglyc",
"https://identifiers.org/proglyc/",
"https://identifiers.org/proglyc",
- }, new Class<?>[] {}, "MIR:00000354",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000354",
+ new Class<?>[]{},
"proglyc",
"AC119"),
PRODOM("ProDom",
"http://prodom.prabi.fr/prodom/current/html/home.php",
- new String[] { "urn:miriam:prodom",
+ new String[]{"urn:miriam:prodom",
"http://identifiers.org/prodom/",
"http://identifiers.org/prodom",
"https://identifiers.org/prodom/",
"https://identifiers.org/prodom",
- }, new Class<?>[] {}, "MIR:00000117",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000117",
+ new Class<?>[]{},
"prodom",
"PD10000"),
PROSITE("PROSITE",
"https://www.expasy.org/prosite/",
- new String[] { "urn:miriam:prosite",
+ new String[]{"urn:miriam:prosite",
"http://identifiers.org/prosite/",
"http://identifiers.org/prosite",
"https://identifiers.org/prosite/",
"https://identifiers.org/prosite",
- }, new Class<?>[] {}, "MIR:00000032",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000032",
+ new Class<?>[]{},
"prosite",
"PS00001"),
PROTCLUSTDB("ProtClustDB",
"https://www.ncbi.nlm.nih.gov/proteinclusters?db=proteinclusters",
- new String[] { "urn:miriam:protclustdb",
+ new String[]{"urn:miriam:protclustdb",
"http://identifiers.org/protclustdb/",
"http://identifiers.org/protclustdb",
"https://identifiers.org/protclustdb/",
"https://identifiers.org/protclustdb",
- }, new Class<?>[] {}, "MIR:00000226",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000226",
+ new Class<?>[]{},
"protclustdb",
"O80725"),
PROTEIN_AFFINITY_REAGENTS("Protein Affinity Reagents",
"https://www.ebi.ac.uk/ontology-lookup/browse.do?ontName=PAR",
- new String[] { "urn:miriam:psipar",
+ new String[]{"urn:miriam:psipar",
"http://identifiers.org/psipar/",
"http://identifiers.org/psipar",
"https://identifiers.org/psipar/",
"https://identifiers.org/psipar",
- }, new Class<?>[] {}, "MIR:00000533",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000533",
+ new Class<?>[]{},
"psipar",
"PAR:0116"),
PROTEIN_DATA_BANK_LIGAND("Protein Data Bank Ligand",
"http://www.pdb.org/",
- new String[] { "urn:miriam:pdb.ligand",
+ new String[]{"urn:miriam:pdb.ligand",
"http://identifiers.org/pdb.ligand/",
"http://identifiers.org/pdb.ligand",
"https://identifiers.org/pdb.ligand/",
"https://identifiers.org/pdb.ligand",
- }, new Class<?>[] {}, "MIR:00000490",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000490",
+ new Class<?>[]{},
"pdb.ligand",
"TRQ"),
PROTEIN_MODEL_DATABASE("Protein Model Database",
"https://bioinformatics.cineca.it/PMDB/",
- new String[] { "urn:miriam:pmdb",
+ new String[]{"urn:miriam:pmdb",
"http://identifiers.org/pmdb/",
"http://identifiers.org/pmdb",
"https://identifiers.org/pmdb/",
"https://identifiers.org/pmdb",
- }, new Class<?>[] {}, "MIR:00000190",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000190",
+ new Class<?>[]{},
"pmdb",
"PM0012345"),
PROTEIN_ONTOLOGY("Protein Ontology",
"https://proconsortium.org/",
- new String[] { "urn:miriam:pr", "urn:miriam:obo.pr",
+ new String[]{"urn:miriam:pr", "urn:miriam:obo.pr",
"http://identifiers.org/pr/",
"http://identifiers.org/PR",
"https://identifiers.org/pr/",
"https://identifiers.org/PR",
- }, new Class<?>[] {}, "MIR:00000141",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000141",
+ new Class<?>[]{},
"",
"PR:000000024"),
PROTEOMICSDB_PEPTIDE("ProteomicsDB Peptide",
"https://www.proteomicsdb.org/#peptideSearch",
- new String[] { "urn:miriam:proteomicsdb.peptide",
+ new String[]{"urn:miriam:proteomicsdb.peptide",
"http://identifiers.org/proteomicsdb.peptide/",
"http://identifiers.org/proteomicsdb.peptide",
"https://identifiers.org/proteomicsdb.peptide/",
"https://identifiers.org/proteomicsdb.peptide",
- }, new Class<?>[] {}, "MIR:00000525",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000525",
+ new Class<?>[]{},
"proteomicsdb.peptide",
"53504"),
PROTEOMICSDB_PROTEIN("ProteomicsDB Protein",
"https://www.proteomicsdb.org/#human",
- new String[] { "urn:miriam:proteomicsdb.protein",
+ new String[]{"urn:miriam:proteomicsdb.protein",
"http://identifiers.org/proteomicsdb.protein/",
"http://identifiers.org/proteomicsdb.protein",
"https://identifiers.org/proteomicsdb.protein/",
"https://identifiers.org/proteomicsdb.protein",
- }, new Class<?>[] {}, "MIR:00000524",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000524",
+ new Class<?>[]{},
"proteomicsdb.protein",
"53504"),
PROTONET_CLUSTER("ProtoNet Cluster",
"http://www.protonet.cs.huji.ac.il/",
- new String[] { "urn:miriam:protonet.cluster",
+ new String[]{"urn:miriam:protonet.cluster",
"http://identifiers.org/protonet.cluster/",
"http://identifiers.org/protonet.cluster",
"https://identifiers.org/protonet.cluster/",
"https://identifiers.org/protonet.cluster",
- }, new Class<?>[] {}, "MIR:00000229",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000229",
+ new Class<?>[]{},
"protonet.cluster",
"4349895"),
PROTONET_PROTEINCARD("ProtoNet ProteinCard",
"http://www.protonet.cs.huji.ac.il/",
- new String[] { "urn:miriam:protonet.proteincard",
+ new String[]{"urn:miriam:protonet.proteincard",
"http://identifiers.org/protonet.proteincard/",
"http://identifiers.org/protonet.proteincard",
"https://identifiers.org/protonet.proteincard/",
"https://identifiers.org/protonet.proteincard",
- }, new Class<?>[] {}, "MIR:00000228",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000228",
+ new Class<?>[]{},
"protonet.proteincard",
"16941567"),
PSCDB("PSCDB",
"http://idp1.force.cs.is.nagoya-u.ac.jp/pscdb/index.html",
- new String[] { "urn:miriam:pscdb",
+ new String[]{"urn:miriam:pscdb",
"http://identifiers.org/pscdb/",
"http://identifiers.org/pscdb",
"https://identifiers.org/pscdb/",
"https://identifiers.org/pscdb",
- }, new Class<?>[] {}, "MIR:00000370",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000370",
+ new Class<?>[]{},
"pscdb",
"051"),
PSEUDOMONAS_GENOME_DATABASE("Pseudomonas Genome Database",
"http://www.pseudomonas.com/",
- new String[] { "urn:miriam:pseudomonas",
+ new String[]{"urn:miriam:pseudomonas",
"http://identifiers.org/pseudomonas/",
"http://identifiers.org/pseudomonas",
"https://identifiers.org/pseudomonas/",
"https://identifiers.org/pseudomonas",
- }, new Class<?>[] {}, "MIR:00000180",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000180",
+ new Class<?>[]{},
"pseudomonas",
"PSEEN0001"),
@@ -5182,26 +5181,26 @@ public enum MiriamType {
*/
PUBCHEM("PubChem-compound",
"http://pubchem.ncbi.nlm.nih.gov/",
- new String[] { "urn:miriam:pubchem.compound",
+ new String[]{"urn:miriam:pubchem.compound",
"http://identifiers.org/pubchem.compound/",
"http://identifiers.org/pubchem.compound",
"https://identifiers.org/pubchem.compound/",
"https://identifiers.org/pubchem.compound",
},
- new Class<?>[] { Chemical.class }, "MIR:00000034",
- new Class<?>[] { Chemical.class },
+ new Class<?>[]{Chemical.class}, "MIR:00000034",
+ new Class<?>[]{Chemical.class},
"pubchem.compound",
"100101"),
PUBCHEM_BIOASSAY("PubChem-bioassay",
"https://www.ncbi.nlm.nih.gov/sites/entrez?db=pcassay",
- new String[] { "urn:miriam:pubchem.bioassay",
+ new String[]{"urn:miriam:pubchem.bioassay",
"http://identifiers.org/pubchem.bioassay/",
"http://identifiers.org/pubchem.bioassay",
"https://identifiers.org/pubchem.bioassay/",
"https://identifiers.org/pubchem.bioassay",
- }, new Class<?>[] {}, "MIR:00000072",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000072",
+ new Class<?>[]{},
"pubchem.bioassay",
"1018"),
@@ -5210,14 +5209,14 @@ public enum MiriamType {
*/
PUBCHEM_SUBSTANCE("PubChem-substance",
"http://pubchem.ncbi.nlm.nih.gov/",
- new String[] { "urn:miriam:pubchem.substance",
+ new String[]{"urn:miriam:pubchem.substance",
"http://identifiers.org/pubchem.substance/",
"http://identifiers.org/pubchem.substance",
"https://identifiers.org/pubchem.substance/",
"https://identifiers.org/pubchem.substance",
},
- new Class<?>[] { Chemical.class }, "MIR:00000033",
- new Class<?>[] { Chemical.class },
+ new Class<?>[]{Chemical.class}, "MIR:00000033",
+ new Class<?>[]{Chemical.class},
"pubchem.substance",
"100101"),
@@ -5226,38 +5225,38 @@ public enum MiriamType {
*/
PUBMED("PubMed",
"http://www.ncbi.nlm.nih.gov/PubMed/",
- new String[] { "urn:miriam:pubmed",
+ new String[]{"urn:miriam:pubmed",
"http://identifiers.org/pubmed/",
"http://identifiers.org/pubmed",
"https://identifiers.org/pubmed/",
"https://identifiers.org/pubmed",
},
- new Class<?>[] { BioEntity.class }, "MIR:00000015",
- new Class<?>[] { Reaction.class },
+ new Class<?>[]{BioEntity.class}, "MIR:00000015",
+ new Class<?>[]{Reaction.class},
"pubmed",
"28725475"),
RAT_GENOME_DATABASE_QTL("Rat Genome Database qTL",
"http://rgd.mcw.edu/",
- new String[] { "urn:miriam:rgd.qtl",
+ new String[]{"urn:miriam:rgd.qtl",
"http://identifiers.org/rgd.qtl/",
"http://identifiers.org/rgd.qtl",
"https://identifiers.org/rgd.qtl/",
"https://identifiers.org/rgd.qtl",
- }, new Class<?>[] {}, "MIR:00000451",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000451",
+ new Class<?>[]{},
"rgd.qtl",
"1354581"),
RAT_GENOME_DATABASE_STRAIN("Rat Genome Database strain",
"http://rgd.mcw.edu/",
- new String[] { "urn:miriam:rgd.strain",
+ new String[]{"urn:miriam:rgd.strain",
"http://identifiers.org/rgd.strain/",
"http://identifiers.org/rgd.strain",
"https://identifiers.org/rgd.strain/",
"https://identifiers.org/rgd.strain",
- }, new Class<?>[] {}, "MIR:00000452",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000452",
+ new Class<?>[]{},
"rgd.strain",
"5688061"),
@@ -5266,26 +5265,26 @@ public enum MiriamType {
*/
REACTOME("Reactome",
"http://www.reactome.org/",
- new String[] { "urn:miriam:reactome",
+ new String[]{"urn:miriam:reactome",
"http://identifiers.org/reactome/",
"http://identifiers.org/reactome",
"https://identifiers.org/reactome/",
"https://identifiers.org/reactome",
},
- new Class<?>[] { Reaction.class }, "MIR:00000018",
- new Class<?>[] {},
+ new Class<?>[]{Reaction.class}, "MIR:00000018",
+ new Class<?>[]{},
"reactome",
"R-HSA-201451"),
REBASE("REBASE",
"http://rebase.neb.com/rebase/",
- new String[] { "urn:miriam:rebase",
+ new String[]{"urn:miriam:rebase",
"http://identifiers.org/rebase/",
"http://identifiers.org/rebase",
"https://identifiers.org/rebase/",
"https://identifiers.org/rebase",
- }, new Class<?>[] {}, "MIR:00000230",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000230",
+ new Class<?>[]{},
"rebase",
"101"),
@@ -5294,63 +5293,63 @@ public enum MiriamType {
*/
REFSEQ("RefSeq",
"http://www.ncbi.nlm.nih.gov/projects/RefSeq/",
- new String[] { "urn:miriam:refseq",
+ new String[]{"urn:miriam:refseq",
"http://identifiers.org/refseq/",
"http://identifiers.org/refseq",
"https://identifiers.org/refseq/",
"https://identifiers.org/refseq",
},
- new Class<?>[] { Protein.class, Gene.class, Rna.class }, "MIR:00000039",
- new Class<?>[] {},
+ new Class<?>[]{Protein.class, Gene.class, Rna.class}, "MIR:00000039",
+ new Class<?>[]{},
"refseq",
"NP_012345"),
RELATION_ONTOLOGY("Relation Ontology",
"http://obofoundry.org/ontology/ro.html",
- new String[] { "urn:miriam:ro", "urn:miriam:obo.ro",
+ new String[]{"urn:miriam:ro", "urn:miriam:obo.ro",
"http://identifiers.org/ro/",
"http://identifiers.org/ro",
"https://identifiers.org/ro/",
"https://identifiers.org/ro",
- }, new Class<?>[] {}, "MIR:00000120",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000120",
+ new Class<?>[]{},
"ro",
"RO_0002533"),
RESID("RESID",
"http://pir0.georgetown.edu/resid/",
- new String[] { "urn:miriam:resid",
+ new String[]{"urn:miriam:resid",
"http://identifiers.org/resid/",
"http://identifiers.org/resid",
"https://identifiers.org/resid/",
"https://identifiers.org/resid",
- }, new Class<?>[] {}, "MIR:00000046",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000046",
+ new Class<?>[]{},
"resid",
"AA0001"),
RFAM("RFAM",
"https://rfam.xfam.org/",
- new String[] { "urn:miriam:rfam",
+ new String[]{"urn:miriam:rfam",
"http://identifiers.org/rfam/",
"http://identifiers.org/rfam",
"https://identifiers.org/rfam/",
"https://identifiers.org/rfam",
- }, new Class<?>[] {}, "MIR:00000409",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000409",
+ new Class<?>[]{},
"rfam",
"RF00230"),
RGD("Rat Genome Database",
"http://rgd.mcw.edu/",
- new String[] { "urn:miriam:rgd",
+ new String[]{"urn:miriam:rgd",
"http://identifiers.org/rgd/",
"http://identifiers.org/rgd",
"https://identifiers.org/rgd/",
"https://identifiers.org/rgd",
},
- new Class<?>[] { Reaction.class }, "MIR:00000047",
- new Class<?>[] {},
+ new Class<?>[]{Reaction.class}, "MIR:00000047",
+ new Class<?>[]{},
"rgd",
"2018"),
@@ -5359,114 +5358,114 @@ public enum MiriamType {
*/
RHEA("Rhea",
"http://www.rhea-db.org/",
- new String[] { "urn:miriam:rhea",
+ new String[]{"urn:miriam:rhea",
"http://identifiers.org/rhea/",
"http://identifiers.org/rhea",
"https://identifiers.org/rhea/",
"https://identifiers.org/rhea",
},
- new Class<?>[] { Reaction.class }, "MIR:00000082",
- new Class<?>[] {},
+ new Class<?>[]{Reaction.class}, "MIR:00000082",
+ new Class<?>[]{},
"rhea",
"12345"),
RICE_GENOME_ANNOTATION_PROJECT("Rice Genome Annotation Project",
"http://rice.plantbiology.msu.edu/annotation_pseudo_current.shtml",
- new String[] { "urn:miriam:ricegap",
+ new String[]{"urn:miriam:ricegap",
"http://identifiers.org/ricegap/",
"http://identifiers.org/ricegap",
"https://identifiers.org/ricegap/",
"https://identifiers.org/ricegap",
- }, new Class<?>[] {}, "MIR:00000358",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000358",
+ new Class<?>[]{},
"ricegap",
"LOC_Os02g13300"),
RNA_MODIFICATION_DATABASE("RNA Modification Database",
"http://rna-mdb.cas.albany.edu/RNAmods/rnaover.htm",
- new String[] { "urn:miriam:rnamods",
+ new String[]{"urn:miriam:rnamods",
"http://identifiers.org/rnamods/",
"http://identifiers.org/rnamods",
"https://identifiers.org/rnamods/",
"https://identifiers.org/rnamods",
- }, new Class<?>[] {}, "MIR:00000308",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000308",
+ new Class<?>[]{},
"rnamods",
"101"),
ROUGE("Rouge",
"http://www.kazusa.or.jp/rouge/",
- new String[] { "urn:miriam:rouge",
+ new String[]{"urn:miriam:rouge",
"http://identifiers.org/rouge/",
"http://identifiers.org/rouge",
"https://identifiers.org/rouge/",
"https://identifiers.org/rouge",
- }, new Class<?>[] {}, "MIR:00000293",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000293",
+ new Class<?>[]{},
"rouge",
"mKIAA4200"),
SABIO_RK_EC_RECORD("SABIO-RK EC Record",
"http://sabiork.h-its.org/",
- new String[] { "urn:miriam:sabiork.ec",
+ new String[]{"urn:miriam:sabiork.ec",
"http://identifiers.org/sabiork.ec/",
"http://identifiers.org/sabiork.ec",
"https://identifiers.org/sabiork.ec/",
"https://identifiers.org/sabiork.ec",
- }, new Class<?>[] {}, "MIR:00000128",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000128",
+ new Class<?>[]{},
"sabiork.ec",
"2.7.1.1"),
SABIO_RK_KINETIC_RECORD("SABIO-RK Kinetic Record",
"http://sabiork.h-its.org/",
- new String[] { "urn:miriam:sabiork.kineticrecord",
+ new String[]{"urn:miriam:sabiork.kineticrecord",
"http://identifiers.org/sabiork.kineticrecord/",
"http://identifiers.org/sabiork.kineticrecord",
"https://identifiers.org/sabiork.kineticrecord/",
"https://identifiers.org/sabiork.kineticrecord",
- }, new Class<?>[] {}, "MIR:00000086",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000086",
+ new Class<?>[]{},
"sabiork.kineticrecord",
"5046"),
SABIO_RK_REACTION("SABIO-RK Reaction",
"http://sabiork.h-its.org/",
- new String[] { "urn:miriam:sabiork.reaction",
+ new String[]{"urn:miriam:sabiork.reaction",
"http://identifiers.org/sabiork.reaction/",
"http://identifiers.org/sabiork.reaction",
"https://identifiers.org/sabiork.reaction/",
"https://identifiers.org/sabiork.reaction",
- }, new Class<?>[] {}, "MIR:00000038",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000038",
+ new Class<?>[]{},
"sabiork.reaction",
"77"),
SACCHAROMYCES_GENOME_DATABASE_PATHWAYS("Saccharomyces genome database pathways",
"http://pathway.yeastgenome.org/",
- new String[] { "urn:miriam:sgd.pathways",
+ new String[]{"urn:miriam:sgd.pathways",
"http://identifiers.org/sgd.pathways/",
"http://identifiers.org/sgd.pathways",
"https://identifiers.org/sgd.pathways/",
"https://identifiers.org/sgd.pathways",
- }, new Class<?>[] {}, "MIR:00000057",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000057",
+ new Class<?>[]{},
"sgd.pathways",
"PWY3O-214"),
SBML_RDF_VOCABULARY("SBML RDF Vocabulary",
"http://biomodels.net/rdf/vocabulary.rdf",
- new String[] { "urn:miriam:biomodels.vocabulary",
+ new String[]{"urn:miriam:biomodels.vocabulary",
"http://identifiers.org/biomodels.vocabulary/",
"http://identifiers.org/biomodels.vocabulary",
"https://identifiers.org/biomodels.vocabulary/",
"https://identifiers.org/biomodels.vocabulary",
- }, new Class<?>[] {}, "MIR:00000514",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000514",
+ new Class<?>[]{},
"biomodels.vocabulary",
"rateRule"),
SBO_TERM("Systems Biology Ontology",
"http://www.ebi.ac.uk/sbo/main/",
- new String[] { "urn:miriam:biomodels.sbo", "urn:miriam:obo.sbo", "urn:miriam:sbo",
+ new String[]{"urn:miriam:biomodels.sbo", "urn:miriam:obo.sbo", "urn:miriam:sbo",
"http://identifiers.org/biomodels.sbo/",
"http://identifiers.org/sbo/",
"http://identifiers.org/SBO",
@@ -5474,82 +5473,82 @@ public enum MiriamType {
"https://identifiers.org/sbo/",
"https://identifiers.org/SBO",
},
- new Class<?>[] {}, "MIR:00000024",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000024",
+ new Class<?>[]{},
"",
"SBO:0000262"),
SCOP("SCOP",
"http://scop.mrc-lmb.cam.ac.uk/scop/",
- new String[] { "urn:miriam:scop",
+ new String[]{"urn:miriam:scop",
"http://identifiers.org/scop/",
"http://identifiers.org/scop",
"https://identifiers.org/scop/",
"https://identifiers.org/scop",
- }, new Class<?>[] {}, "MIR:00000371",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000371",
+ new Class<?>[]{},
"scop",
"47419"),
SCERTF("ScerTF",
"http://stormo.wustl.edu/ScerTF/",
- new String[] { "urn:miriam:scretf",
+ new String[]{"urn:miriam:scretf",
"http://identifiers.org/scretf/",
"http://identifiers.org/scretf",
"https://identifiers.org/scretf/",
"https://identifiers.org/scretf",
- }, new Class<?>[] {}, "MIR:00000244",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000244",
+ new Class<?>[]{},
"scretf",
"RSC3"),
@NoMiriamUrn
SEED_COMPOUND("SEED Compound",
"http://modelseed.org/",
- new String[] {
+ new String[]{
"http://identifiers.org/seed.compound/",
"http://identifiers.org/seed.compound",
"https://identifiers.org/seed.compound/",
"https://identifiers.org/seed.compound",
- }, new Class<?>[] {}, "MIR:00000553",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000553",
+ new Class<?>[]{},
"seed.compound",
"cpd15380"),
@NoMiriamUrn
SEED_REACTIONS("SEED Reactions",
"http://modelseed.org/biochem/reactions/",
- new String[] {
+ new String[]{
"http://identifiers.org/seed.reaction/",
"http://identifiers.org/seed.reaction",
"https://identifiers.org/seed.reaction/",
"https://identifiers.org/seed.reaction",
- }, new Class<?>[] {}, "MIR:00000692",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000692",
+ new Class<?>[]{},
"seed.reaction",
"rxn00001"),
SEQUENCE_ONTOLOGY("Sequence Ontology",
"http://www.sequenceontology.org/",
- new String[] { "urn:miriam:so", "urn:miriam:obo.so",
+ new String[]{"urn:miriam:so", "urn:miriam:obo.so",
"http://identifiers.org/so/",
"http://identifiers.org/SO",
"https://identifiers.org/so/",
"https://identifiers.org/SO",
- }, new Class<?>[] {}, "MIR:00000081",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000081",
+ new Class<?>[]{},
"",
"SO:0000704"),
SEQUENCE_READ_ARCHIVE("Sequence Read Archive",
"https://www.ncbi.nlm.nih.gov/sra",
- new String[] { "urn:miriam:insdc.sra",
+ new String[]{"urn:miriam:insdc.sra",
"http://identifiers.org/insdc.sra/",
"http://identifiers.org/insdc.sra",
"https://identifiers.org/insdc.sra/",
"https://identifiers.org/insdc.sra",
- }, new Class<?>[] {}, "MIR:00000243",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000243",
+ new Class<?>[]{},
"insdc.sra",
"SRX000007"),
@@ -5558,158 +5557,158 @@ public enum MiriamType {
*/
SGD("Saccharomyces Genome Database",
"http://www.yeastgenome.org/",
- new String[] { "urn:miriam:sgd",
+ new String[]{"urn:miriam:sgd",
"http://identifiers.org/sgd/",
"http://identifiers.org/sgd",
"https://identifiers.org/sgd/",
"https://identifiers.org/sgd",
},
- new Class<?>[] {}, "MIR:00000023",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000023",
+ new Class<?>[]{},
"sgd",
"S000003909"),
SIDER_DRUG("SIDER Drug",
"http://sideeffects.embl.de/",
- new String[] { "urn:miriam:sider.drug",
+ new String[]{"urn:miriam:sider.drug",
"http://identifiers.org/sider.drug/",
"http://identifiers.org/sider.drug",
"https://identifiers.org/sider.drug/",
"https://identifiers.org/sider.drug",
- }, new Class<?>[] {}, "MIR:00000435",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000435",
+ new Class<?>[]{},
"sider.drug",
"2244"),
SIDER_SIDE_EFFECT("SIDER Side Effect",
"http://sideeffects.embl.de/",
- new String[] { "urn:miriam:sider.effect",
+ new String[]{"urn:miriam:sider.effect",
"http://identifiers.org/sider.effect/",
"http://identifiers.org/sider.effect",
"https://identifiers.org/sider.effect/",
"https://identifiers.org/sider.effect",
- }, new Class<?>[] {}, "MIR:00000436",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000436",
+ new Class<?>[]{},
"sider.effect",
"C0017565"),
SIGNALING_GATEWAY("Signaling Gateway",
"http://www.signaling-gateway.org/molecule",
- new String[] { "urn:miriam:signaling-gateway",
+ new String[]{"urn:miriam:signaling-gateway",
"http://identifiers.org/signaling-gateway/",
"http://identifiers.org/signaling-gateway",
"https://identifiers.org/signaling-gateway/",
"https://identifiers.org/signaling-gateway",
- }, new Class<?>[] {}, "MIR:00000045",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000045",
+ new Class<?>[]{},
"signaling-gateway",
"A001094"),
SITEX("SitEx",
"http://www-bionet.sscc.ru/sitex/",
- new String[] { "urn:miriam:sitex",
+ new String[]{"urn:miriam:sitex",
"http://identifiers.org/sitex/",
"http://identifiers.org/sitex",
"https://identifiers.org/sitex/",
"https://identifiers.org/sitex",
- }, new Class<?>[] {}, "MIR:00000252",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000252",
+ new Class<?>[]{},
"sitex",
"1004"),
SMALL_MOLECULE_PATHWAY_DATABASE("Small Molecule Pathway Database",
"https://smpdb.ca/",
- new String[] { "urn:miriam:smpdb",
+ new String[]{"urn:miriam:smpdb",
"http://identifiers.org/smpdb/",
"http://identifiers.org/smpdb",
"https://identifiers.org/smpdb/",
"https://identifiers.org/smpdb",
- }, new Class<?>[] {}, "MIR:00000104",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000104",
+ new Class<?>[]{},
"smpdb",
"SMP00001"),
SMART("SMART",
"http://smart.embl-heidelberg.de/",
- new String[] { "urn:miriam:smart",
+ new String[]{"urn:miriam:smart",
"http://identifiers.org/smart/",
"http://identifiers.org/smart",
"https://identifiers.org/smart/",
"https://identifiers.org/smart",
- }, new Class<?>[] {}, "MIR:00000118",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000118",
+ new Class<?>[]{},
"smart",
"SM00015"),
SNOMED_CT("SNOMED CT",
"http://www.snomedbrowser.com/",
- new String[] { "urn:miriam:snomedct",
+ new String[]{"urn:miriam:snomedct",
"http://identifiers.org/snomedct/",
"http://identifiers.org/snomedct",
"https://identifiers.org/snomedct/",
"https://identifiers.org/snomedct",
- }, new Class<?>[] {}, "MIR:00000269",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000269",
+ new Class<?>[]{},
"snomedct",
"284196006"),
SOL_GENOMICS_NETWORK("Sol Genomics Network",
"http://solgenomics.net/",
- new String[] { "urn:miriam:sgn",
+ new String[]{"urn:miriam:sgn",
"http://identifiers.org/sgn/",
"http://identifiers.org/sgn",
"https://identifiers.org/sgn/",
"https://identifiers.org/sgn",
- }, new Class<?>[] {}, "MIR:00000185",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000185",
+ new Class<?>[]{},
"sgn",
"0001"),
SOYBASE("SoyBase",
"http://soybase.org/",
- new String[] { "urn:miriam:soybase",
+ new String[]{"urn:miriam:soybase",
"http://identifiers.org/soybase/",
"http://identifiers.org/soybase",
"https://identifiers.org/soybase/",
"https://identifiers.org/soybase",
- }, new Class<?>[] {}, "MIR:00000291",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000291",
+ new Class<?>[]{},
"soybase",
"BARC-013845-01256"),
SPECTRAL_DATABASE_FOR_ORGANIC_COMPOUNDS("Spectral Database for Organic Compounds",
"http://riodb01.ibase.aist.go.jp/sdbs/cgi-bin/direct_frame_top.cgi",
- new String[] { "urn:miriam:sdbs",
+ new String[]{"urn:miriam:sdbs",
"http://identifiers.org/sdbs/",
"http://identifiers.org/sdbs",
"https://identifiers.org/sdbs/",
"https://identifiers.org/sdbs",
- }, new Class<?>[] {}, "MIR:00000319",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000319",
+ new Class<?>[]{},
"sdbs",
"4544"),
SPIKE("SPIKE Map",
"http://www.cs.tau.ac.il/~spike/",
- new String[] { "urn:miriam:spike.map",
+ new String[]{"urn:miriam:spike.map",
"http://identifiers.org/spike.map/",
"http://identifiers.org/spike.map",
"https://identifiers.org/spike.map/",
"https://identifiers.org/spike.map",
},
- new Class<?>[] {}, "MIR:00000321",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000321",
+ new Class<?>[]{},
"spike.map",
"spike00001"),
STAP("STAP",
"http://psb.kobic.re.kr/STAP/refinement/",
- new String[] { "urn:miriam:stap",
+ new String[]{"urn:miriam:stap",
"http://identifiers.org/stap/",
"http://identifiers.org/stap",
"https://identifiers.org/stap/",
"https://identifiers.org/stap",
- }, new Class<?>[] {}, "MIR:00000399",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000399",
+ new Class<?>[]{},
"stap",
"1a24"),
@@ -5718,14 +5717,14 @@ public enum MiriamType {
*/
STITCH("STITCH",
"http://stitch.embl.de/",
- new String[] { "urn:miriam:stitch",
+ new String[]{"urn:miriam:stitch",
"http://identifiers.org/stitch/",
"http://identifiers.org/stitch",
"https://identifiers.org/stitch/",
"https://identifiers.org/stitch",
},
- new Class<?>[] {}, "MIR:00000266",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000266",
+ new Class<?>[]{},
"stitch",
"BQJCRHHNABKAKU"),
@@ -5734,125 +5733,125 @@ public enum MiriamType {
*/
STRING("STRING",
"http://string-db.org/",
- new String[] { "urn:miriam:string",
+ new String[]{"urn:miriam:string",
"http://identifiers.org/string/",
"http://identifiers.org/string",
"https://identifiers.org/string/",
"https://identifiers.org/string",
},
- new Class<?>[] {}, "MIR:00000265",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000265",
+ new Class<?>[]{},
"string",
"P53350"),
SUBSTRATEDB("SubstrateDB",
"http://substrate.burnham.org/",
- new String[] { "urn:miriam:pmap.substratedb",
+ new String[]{"urn:miriam:pmap.substratedb",
"http://identifiers.org/pmap.substratedb/",
"http://identifiers.org/pmap.substratedb",
"https://identifiers.org/pmap.substratedb/",
"https://identifiers.org/pmap.substratedb",
- }, new Class<?>[] {}, "MIR:00000224",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000224",
+ new Class<?>[]{},
"pmap.substratedb",
"1915"),
SUBTILIST("SubtiList",
"http://genolist.pasteur.fr/SubtiList/",
- new String[] { "urn:miriam:subtilist",
+ new String[]{"urn:miriam:subtilist",
"http://identifiers.org/subtilist/",
"http://identifiers.org/subtilist",
"https://identifiers.org/subtilist/",
"https://identifiers.org/subtilist",
- }, new Class<?>[] {}, "MIR:00000433",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000433",
+ new Class<?>[]{},
"subtilist",
"BG11523"),
SUPFAM("SUPFAM",
"http://supfam.org/SUPERFAMILY/",
- new String[] { "urn:miriam:supfam",
+ new String[]{"urn:miriam:supfam",
"http://identifiers.org/supfam/",
"http://identifiers.org/supfam",
"https://identifiers.org/supfam/",
"https://identifiers.org/supfam",
- }, new Class<?>[] {}, "MIR:00000357",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000357",
+ new Class<?>[]{},
"supfam",
"SSF57615"),
SUBTIWIKI("SubtiWiki",
"http://www.subtiwiki.uni-goettingen.de/wiki/index.php/Main_Page",
- new String[] { "urn:miriam:subtiwiki",
+ new String[]{"urn:miriam:subtiwiki",
"http://identifiers.org/subtiwiki/",
"http://identifiers.org/subtiwiki",
"https://identifiers.org/subtiwiki/",
"https://identifiers.org/subtiwiki",
- }, new Class<?>[] {}, "MIR:00000132",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000132",
+ new Class<?>[]{},
"subtiwiki",
"BSU29180"),
@NoMiriamUrn
SWISS_LIPIDS("SwissLipids",
"http://www.swisslipids.org/#/",
- new String[] {
+ new String[]{
"http://identifiers.org/slm/",
"http://identifiers.org/SLM",
"https://identifiers.org/slm/",
"https://identifiers.org/SLM",
},
- new Class<?>[] {}, "MIR:00000550",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000550",
+ new Class<?>[]{},
"",
"SLM:000048885"),
SWISS_MODEL("SWISS-MODEL",
"https://swissmodel.expasy.org",
- new String[] { "urn:miriam:swiss-model",
+ new String[]{"urn:miriam:swiss-model",
"http://identifiers.org/swiss-model/",
"http://identifiers.org/swiss-model",
"https://identifiers.org/swiss-model/",
"https://identifiers.org/swiss-model",
},
- new Class<?>[] {}, "MIR:00000231",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000231",
+ new Class<?>[]{},
"swiss-model",
"P23298"),
T3DB("T3DB",
"http://www.t3db.org/",
- new String[] { "urn:miriam:t3db",
+ new String[]{"urn:miriam:t3db",
"http://identifiers.org/t3db/",
"http://identifiers.org/t3db",
"https://identifiers.org/t3db/",
"https://identifiers.org/t3db",
- }, new Class<?>[] {}, "MIR:00000103",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000103",
+ new Class<?>[]{},
"t3db",
"T3D0001"),
TAIR_GENE("TAIR Gene",
"http://arabidopsis.org/index.jsp",
- new String[] { "urn:miriam:tair.gene",
+ new String[]{"urn:miriam:tair.gene",
"http://identifiers.org/tair.gene/",
"http://identifiers.org/tair.gene",
"https://identifiers.org/tair.gene/",
"https://identifiers.org/tair.gene",
- }, new Class<?>[] {}, "MIR:00000049",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000049",
+ new Class<?>[]{},
"tair.gene",
"Gene:2200934"),
TAIR_PROTEIN("TAIR Protein",
"http://arabidopsis.org/index.jsp",
- new String[] { "urn:miriam:tair.protein",
+ new String[]{"urn:miriam:tair.protein",
"http://identifiers.org/tair.protein/",
"http://identifiers.org/tair.protein",
"https://identifiers.org/tair.protein/",
"https://identifiers.org/tair.protein",
- }, new Class<?>[] {}, "MIR:00000048",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000048",
+ new Class<?>[]{},
"tair.protein",
"AASequence:1009107926"),
@@ -5864,26 +5863,26 @@ public enum MiriamType {
*/
TAIR_LOCUS("TAIR Locus",
"http://arabidopsis.org/index.jsp",
- new String[] { "urn:miriam:tair.locus",
+ new String[]{"urn:miriam:tair.locus",
"http://identifiers.org/tair.locus/",
"http://identifiers.org/tair.locus",
"https://identifiers.org/tair.locus/",
"https://identifiers.org/tair.locus",
},
- new Class<?>[] {}, "MIR:00000050",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000050",
+ new Class<?>[]{},
"tair.locus",
"2200950"),
TARBASE("TarBase",
"http://diana.imis.athena-innovation.gr/DianaTools/index.php?r=tarbase/index",
- new String[] { "urn:miriam:tarbase",
+ new String[]{"urn:miriam:tarbase",
"http://identifiers.org/tarbase/",
"http://identifiers.org/tarbase",
"https://identifiers.org/tarbase/",
"https://identifiers.org/tarbase",
- }, new Class<?>[] {}, "MIR:00000340",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000340",
+ new Class<?>[]{},
"tarbase",
"hsa-let-7a-2-3p"),
@@ -5892,83 +5891,83 @@ public enum MiriamType {
*/
TAXONOMY("Taxonomy",
"http://www.ncbi.nlm.nih.gov/taxonomy/",
- new String[] { "urn:miriam:taxonomy",
+ new String[]{"urn:miriam:taxonomy",
"http://identifiers.org/taxonomy/",
"http://identifiers.org/taxonomy",
"https://identifiers.org/taxonomy/",
"https://identifiers.org/taxonomy",
},
- new Class<?>[] {}, "MIR:00000006",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000006",
+ new Class<?>[]{},
"taxonomy",
"9606"),
TEDDY("TEDDY",
"http://teddyontology.sourceforge.net/",
- new String[] { "urn:miriam:biomodels.teddy", "urn:miriam:teddy",
+ new String[]{"urn:miriam:biomodels.teddy", "urn:miriam:teddy",
"http://identifiers.org/biomodels.teddy/",
"http://identifiers.org/biomodels.teddy",
"https://identifiers.org/biomodels.teddy/",
"https://identifiers.org/biomodels.teddy",
- }, new Class<?>[] {}, "MIR:00000107",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000107",
+ new Class<?>[]{},
"biomodels.teddy",
"TEDDY_0000066"),
TETRAHYMENA_GENOME_DATABASE("Tetrahymena Genome Database",
"http://ciliate.org/index.php/",
- new String[] { "urn:miriam:tgd",
+ new String[]{"urn:miriam:tgd",
"http://identifiers.org/tgd/",
"http://identifiers.org/tgd",
"https://identifiers.org/tgd/",
"https://identifiers.org/tgd",
- }, new Class<?>[] {}, "MIR:00000313",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000313",
+ new Class<?>[]{},
"tgd",
"TTHERM_00648910"),
TIGRFAMS("TIGRFAMS",
"http://www.jcvi.org/cgi-bin/tigrfams/Listing.cgi",
- new String[] { "urn:miriam:tigrfam",
+ new String[]{"urn:miriam:tigrfam",
"http://identifiers.org/tigrfam/",
"http://identifiers.org/tigrfam",
"https://identifiers.org/tigrfam/",
"https://identifiers.org/tigrfam",
- }, new Class<?>[] {}, "MIR:00000315",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000315",
+ new Class<?>[]{},
"tigrfam",
"TIGR00010"),
TISSUE_LIST("Tissue List",
"https://www.uniprot.org/docs/tisslist.txt",
- new String[] { "urn:miriam:tissuelist",
+ new String[]{"urn:miriam:tissuelist",
"http://identifiers.org/tissuelist/",
"http://identifiers.org/tissuelist",
"https://identifiers.org/tissuelist/",
"https://identifiers.org/tissuelist",
- }, new Class<?>[] {}, "MIR:00000360",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000360",
+ new Class<?>[]{},
"tissuelist",
"TS-0285"),
TOPDB("TOPDB",
"http://topdb.enzim.hu/",
- new String[] { "urn:miriam:topdb",
+ new String[]{"urn:miriam:topdb",
"http://identifiers.org/topdb/",
"http://identifiers.org/topdb",
"https://identifiers.org/topdb/",
"https://identifiers.org/topdb",
- }, new Class<?>[] {}, "MIR:00000503",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000503",
+ new Class<?>[]{},
"topdb",
"AP00378"),
TOPFIND("TopFind",
"http://clipserve.clip.ubc.ca/topfind",
- new String[] { "urn:miriam:topfind",
+ new String[]{"urn:miriam:topfind",
"http://identifiers.org/topfind/",
"http://identifiers.org/topfind",
"https://identifiers.org/topfind/",
"https://identifiers.org/topfind",
- }, new Class<?>[] {}, "MIR:00000255",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000255",
+ new Class<?>[]{},
"topfind",
"Q9UKQ2"),
@@ -5978,200 +5977,200 @@ public enum MiriamType {
*/
TOXICOGENOMIC_CHEMICAL("Toxicogenomic Chemical",
"http://ctdbase.org/",
- new String[] { "urn:miriam:ctd.chemical",
+ new String[]{"urn:miriam:ctd.chemical",
"http://identifiers.org/ctd.chemical/",
"http://identifiers.org/ctd.chemical",
"https://identifiers.org/ctd.chemical/",
"https://identifiers.org/ctd.chemical",
},
- new Class<?>[] {}, "MIR:00000098",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000098",
+ new Class<?>[]{},
"ctd.chemical",
"D001151"),
TOXODB("ToxoDB",
"http://toxodb.org/toxo/",
- new String[] { "urn:miriam:toxoplasma",
+ new String[]{"urn:miriam:toxoplasma",
"http://identifiers.org/toxoplasma/",
"http://identifiers.org/toxoplasma",
"https://identifiers.org/toxoplasma/",
"https://identifiers.org/toxoplasma",
- }, new Class<?>[] {}, "MIR:00000153",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000153",
+ new Class<?>[]{},
"toxoplasma",
"TGME49_053730"),
TREEBASE("TreeBASE",
"http://treebase.org/",
- new String[] { "urn:miriam:treebase",
+ new String[]{"urn:miriam:treebase",
"http://identifiers.org/treebase/",
"http://identifiers.org/treebase",
"https://identifiers.org/treebase/",
"https://identifiers.org/treebase",
- }, new Class<?>[] {}, "MIR:00000312",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000312",
+ new Class<?>[]{},
"treebase",
"TB2:S1000"),
TREEFAM("TreeFam",
"http://www.treefam.org/",
- new String[] { "urn:miriam:treefam",
+ new String[]{"urn:miriam:treefam",
"http://identifiers.org/treefam/",
"http://identifiers.org/treefam",
"https://identifiers.org/treefam/",
"https://identifiers.org/treefam",
- }, new Class<?>[] {}, "MIR:00000395",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000395",
+ new Class<?>[]{},
"treefam",
"TF101014"),
TREE_OF_LIFE("Tree of Life",
"http://tolweb.org/tree/",
- new String[] { "urn:miriam:tol",
+ new String[]{"urn:miriam:tol",
"http://identifiers.org/tol/",
"http://identifiers.org/tol",
"https://identifiers.org/tol/",
"https://identifiers.org/tol",
- }, new Class<?>[] {}, "MIR:00000405",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000405",
+ new Class<?>[]{},
"tol",
"98034"),
TRICHDB("TrichDB",
"http://trichdb.org/trichdb/",
- new String[] { "urn:miriam:trichdb",
+ new String[]{"urn:miriam:trichdb",
"http://identifiers.org/trichdb/",
"http://identifiers.org/trichdb",
"https://identifiers.org/trichdb/",
"https://identifiers.org/trichdb",
- }, new Class<?>[] {}, "MIR:00000154",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000154",
+ new Class<?>[]{},
"trichdb",
"TVAG_386080"),
TRITRYPDB("TriTrypDB",
"http://tritrypdb.org/tritrypdb/",
- new String[] { "urn:miriam:tritrypdb",
+ new String[]{"urn:miriam:tritrypdb",
"http://identifiers.org/tritrypdb/",
"http://identifiers.org/tritrypdb",
"https://identifiers.org/tritrypdb/",
"https://identifiers.org/tritrypdb",
- }, new Class<?>[] {}, "MIR:00000155",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000155",
+ new Class<?>[]{},
"tritrypdb",
"Tb927.8.620"),
TTD_Drug("TTD Drug",
"http://bidd.nus.edu.sg/group/ttd/ttd.asp",
- new String[] { "urn:miriam:ttd.drug",
+ new String[]{"urn:miriam:ttd.drug",
"http://identifiers.org/ttd.drug/",
"http://identifiers.org/ttd.drug",
"https://identifiers.org/ttd.drug/",
"https://identifiers.org/ttd.drug",
},
- new Class<?>[] {}, "MIR:00000092",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000092",
+ new Class<?>[]{},
"ttd.drug",
"DAP000773"),
TTD_TARGET("TTD Target",
"http://bidd.nus.edu.sg/group/ttd/ttd.asp",
- new String[] { "urn:miriam:ttd.target",
+ new String[]{"urn:miriam:ttd.target",
"http://identifiers.org/ttd.target/",
"http://identifiers.org/ttd.target",
"https://identifiers.org/ttd.target/",
"https://identifiers.org/ttd.target",
- }, new Class<?>[] {}, "MIR:00000093",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000093",
+ new Class<?>[]{},
"ttd.target",
"TTDS00056"),
TRANSPORT_CLASSIFICATION_DATABASE("Transport Classification Database",
"http://www.tcdb.org/",
- new String[] { "urn:miriam:tcdb",
+ new String[]{"urn:miriam:tcdb",
"http://identifiers.org/tcdb/",
"http://identifiers.org/tcdb",
"https://identifiers.org/tcdb/",
"https://identifiers.org/tcdb",
- }, new Class<?>[] {}, "MIR:00000040",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000040",
+ new Class<?>[]{},
"tcdb",
"5.A.1.1.1"),
UBERON("UBERON",
"http://bioportal.bioontology.org/ontologies/UBERON",
- new String[] { "urn:miriam:uberon",
+ new String[]{"urn:miriam:uberon",
"http://identifiers.org/uberon/",
"http://identifiers.org/UBERON",
"https://identifiers.org/uberon/",
"https://identifiers.org/UBERON",
- }, new Class<?>[] {}, "MIR:00000446",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000446",
+ new Class<?>[]{},
"",
"UBERON:0008203"),
UBIO_NAMEBANK("uBio NameBank",
"http://www.ubio.org",
- new String[] { "urn:miriam:ubio.namebank",
+ new String[]{"urn:miriam:ubio.namebank",
"http://identifiers.org/ubio.namebank/",
"http://identifiers.org/ubio.namebank",
"https://identifiers.org/ubio.namebank/",
"https://identifiers.org/ubio.namebank",
- }, new Class<?>[] {}, "MIR:00000338",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000338",
+ new Class<?>[]{},
"ubio.namebank",
"2555646"),
UM_BBD_COMPOUND("UM-BBD Compound",
"http://umbbd.ethz.ch/",
- new String[] { "urn:miriam:umbbd.compound",
+ new String[]{"urn:miriam:umbbd.compound",
"http://identifiers.org/umbbd.compound/",
"http://identifiers.org/umbbd.compound",
"https://identifiers.org/umbbd.compound/",
"https://identifiers.org/umbbd.compound",
- }, new Class<?>[] {}, "MIR:00000276",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000276",
+ new Class<?>[]{},
"umbbd.compound",
"c0001"),
UM_BBD_ENZYME("UM-BBD Enzyme",
"http://umbbd.ethz.ch/",
- new String[] { "urn:miriam:umbbd.enzyme",
+ new String[]{"urn:miriam:umbbd.enzyme",
"http://identifiers.org/umbbd.enzyme/",
"http://identifiers.org/umbbd.enzyme",
"https://identifiers.org/umbbd.enzyme/",
"https://identifiers.org/umbbd.enzyme",
- }, new Class<?>[] {}, "MIR:00000326",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000326",
+ new Class<?>[]{},
"umbbd.enzyme",
"e0333"),
UM_BBD_PATHWAY("UM-BBD Pathway",
"http://umbbd.ethz.ch/",
- new String[] { "urn:miriam:umbbd.pathway",
+ new String[]{"urn:miriam:umbbd.pathway",
"http://identifiers.org/umbbd.pathway/",
"http://identifiers.org/umbbd.pathway",
"https://identifiers.org/umbbd.pathway/",
"https://identifiers.org/umbbd.pathway",
- }, new Class<?>[] {}, "MIR:00000327",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000327",
+ new Class<?>[]{},
"umbbd.pathway",
"ala"),
UM_BBD_REACTION("UM-BBD Reaction",
"http://umbbd.ethz.ch/",
- new String[] { "urn:miriam:umbbd.reaction",
+ new String[]{"urn:miriam:umbbd.reaction",
"http://identifiers.org/umbbd.reaction/",
"http://identifiers.org/umbbd.reaction",
"https://identifiers.org/umbbd.reaction/",
"https://identifiers.org/umbbd.reaction",
- }, new Class<?>[] {}, "MIR:00000325",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000325",
+ new Class<?>[]{},
"umbbd.reaction",
"r0001"),
UM_BBD_BIOTRANSFORMATION_RULE("UM-BBD Biotransformation Rule",
"http://umbbd.ethz.ch/servlets/pageservlet?ptype=allrules",
- new String[] { "urn:miriam:umbbd.rule",
+ new String[]{"urn:miriam:umbbd.rule",
"http://identifiers.org/umbbd.rule/",
"http://identifiers.org/umbbd.rule",
"https://identifiers.org/umbbd.rule/",
"https://identifiers.org/umbbd.rule",
- }, new Class<?>[] {}, "MIR:00000328",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000328",
+ new Class<?>[]{},
"umbbd.rule",
"bt0001"),
/**
@@ -6179,50 +6178,50 @@ public enum MiriamType {
*/
UNIGENE("UniGene",
"http://www.ncbi.nlm.nih.gov/unigene",
- new String[] { "urn:miriam:unigene",
+ new String[]{"urn:miriam:unigene",
"http://identifiers.org/unigene/",
"http://identifiers.org/unigene",
"https://identifiers.org/unigene/",
"https://identifiers.org/unigene",
},
- new Class<?>[] {}, "MIR:00000346",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000346",
+ new Class<?>[]{},
"unigene",
"4900"),
UNII("UNII",
"http://fdasis.nlm.nih.gov/srs/",
- new String[] { "urn:miriam:unii",
+ new String[]{"urn:miriam:unii",
"http://identifiers.org/unii/",
"http://identifiers.org/unii",
"https://identifiers.org/unii/",
"https://identifiers.org/unii",
- }, new Class<?>[] {}, "MIR:00000531",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000531",
+ new Class<?>[]{},
"unii",
"3G6A5W338E"),
UNIMOD("Unimod",
"http://www.unimod.org/",
- new String[] { "urn:miriam:unimod",
+ new String[]{"urn:miriam:unimod",
"http://identifiers.org/unimod/",
"http://identifiers.org/unimod",
"https://identifiers.org/unimod/",
"https://identifiers.org/unimod",
- }, new Class<?>[] {}, "MIR:00000447",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000447",
+ new Class<?>[]{},
"unimod",
"1200"),
UNIPARC("UniParc",
"https://www.ebi.ac.uk/uniparc/",
- new String[] { "urn:miriam:uniparc",
+ new String[]{"urn:miriam:uniparc",
"http://identifiers.org/uniparc/",
"http://identifiers.org/uniparc",
"https://identifiers.org/uniparc/",
"https://identifiers.org/uniparc",
- }, new Class<?>[] {}, "MIR:00000041",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000041",
+ new Class<?>[]{},
"uniparc",
"UPI000000000A"),
@@ -6230,13 +6229,13 @@ public enum MiriamType {
@Deprecated
UNIPATHWAY_REACTION("UniPathway Reaction",
"http://www.grenoble.prabi.fr/obiwarehouse/unipathway/",
- new String[] {
+ new String[]{
"http://identifiers.org/unipathway.reaction/",
"http://identifiers.org/unipathway.reaction",
"https://identifiers.org/unipathway.reaction/",
"https://identifiers.org/unipathway.reaction",
- }, new Class<?>[] {}, "MIR:00000570",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000570",
+ new Class<?>[]{},
"unipathway.reaction",
"UCR00226"),
@@ -6245,15 +6244,15 @@ public enum MiriamType {
*/
UNIPROT("Uniprot",
"http://www.uniprot.org/",
- new String[] { "urn:miriam:uniprot", "urn:lsid:uniprot.org",
+ new String[]{"urn:miriam:uniprot", "urn:lsid:uniprot.org",
"http://identifiers.org/uniprot/",
"http://identifiers.org/uniprot",
"https://purl.uniprot.org/uniprot/",
"https://identifiers.org/uniprot/",
"https://identifiers.org/uniprot",
},
- new Class<?>[] { Protein.class, Gene.class, Rna.class }, "MIR:00000005",
- new Class<?>[] {},
+ new Class<?>[]{Protein.class, Gene.class, Rna.class}, "MIR:00000005",
+ new Class<?>[]{},
"uniprot",
"P0DP23"),
@@ -6262,63 +6261,63 @@ public enum MiriamType {
*/
UNIPROT_ISOFORM("UniProt Isoform",
"http://www.uniprot.org/",
- new String[] { "urn:miriam:uniprot.isoform",
+ new String[]{"urn:miriam:uniprot.isoform",
"http://identifiers.org/uniprot.isoform/",
"http://identifiers.org/uniprot.isoform",
"https://identifiers.org/uniprot.isoform/",
"https://identifiers.org/uniprot.isoform",
},
- new Class<?>[] { Protein.class }, "MIR:00000388",
- new Class<?>[] {},
+ new Class<?>[]{Protein.class}, "MIR:00000388",
+ new Class<?>[]{},
"uniprot.isoform",
"Q5BJF6-3"),
UNISTS("UniSTS",
"https://www.ncbi.nlm.nih.gov/sites/entrez?db=unists",
- new String[] { "urn:miriam:unists",
+ new String[]{"urn:miriam:unists",
"http://identifiers.org/unists/",
"http://identifiers.org/unists",
"https://identifiers.org/unists/",
"https://identifiers.org/unists",
- }, new Class<?>[] {}, "MIR:00000162",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000162",
+ new Class<?>[]{},
"unists",
"456789"),
UNIT_ONTOLOGY("Unit Ontology",
"http://bioportal.bioontology.org/ontologies/UO",
- new String[] { "urn:miriam:unit", "urn:miriam:obo.unit",
+ new String[]{"urn:miriam:unit", "urn:miriam:obo.unit",
"http://identifiers.org/uo/",
"http://identifiers.org/UO",
"https://identifiers.org/uo/",
"https://identifiers.org/UO",
- }, new Class<?>[] {}, "MIR:00000136",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000136",
+ new Class<?>[]{},
"",
"UO:0000080"),
UNITE("Unite",
"http://unite.ut.ee/",
- new String[] { "urn:miriam:unite",
+ new String[]{"urn:miriam:unite",
"http://identifiers.org/unite/",
"http://identifiers.org/unite",
"https://identifiers.org/unite/",
"https://identifiers.org/unite",
- }, new Class<?>[] {}, "MIR:00000352",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000352",
+ new Class<?>[]{},
"unite",
"UDB000691"),
USPTO("USPTO",
"http://patft.uspto.gov/netahtml/PTO/index.html",
- new String[] { "urn:miriam:uspto",
+ new String[]{"urn:miriam:uspto",
"http://identifiers.org/uspto/",
"http://identifiers.org/uspto",
"https://identifiers.org/uspto/",
"https://identifiers.org/uspto",
},
- new Class<?>[] {}, "MIR:00000538",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000538",
+ new Class<?>[]{},
"uspto",
"4145692"),
@@ -6328,90 +6327,90 @@ public enum MiriamType {
@Deprecated
UNKNOWN("Unknown",
null,
- new String[] {},
- new Class<?>[] {}, null,
- new Class<?>[] {},
+ new String[]{},
+ new Class<?>[]{}, null,
+ new Class<?>[]{},
null,
null),
VARIO("VariO",
"http://bioportal.bioontology.org/ontologies/VARIO",
- new String[] { "urn:miriam:vario",
+ new String[]{"urn:miriam:vario",
"http://identifiers.org/vario/",
"http://identifiers.org/VariO",
"https://identifiers.org/vario/",
"https://identifiers.org/VariO",
- }, new Class<?>[] {}, "MIR:00000406",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000406",
+ new Class<?>[]{},
"",
"VariO:0294"),
VBASE2("Vbase2",
"http://www.vbase2.org/vbase2.php",
- new String[] { "urn:miriam:vbase2",
+ new String[]{"urn:miriam:vbase2",
"http://identifiers.org/vbase2/",
"http://identifiers.org/vbase2",
"https://identifiers.org/vbase2/",
"https://identifiers.org/vbase2",
- }, new Class<?>[] {}, "MIR:00000320",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000320",
+ new Class<?>[]{},
"vbase2",
"humIGHV025"),
VBRC("VBRC",
"http://vbrc.org/",
- new String[] { "urn:miriam:vbrc",
+ new String[]{"urn:miriam:vbrc",
"http://identifiers.org/vbrc/",
"http://identifiers.org/vbrc",
"https://identifiers.org/vbrc/",
"https://identifiers.org/vbrc",
- }, new Class<?>[] {}, "MIR:00000448",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000448",
+ new Class<?>[]{},
"vbrc",
"35742"),
VFDB_GENE("VFDB Gene",
"http://www.mgc.ac.cn/VFs/",
- new String[] { "urn:miriam:vfdb.gene",
+ new String[]{"urn:miriam:vfdb.gene",
"http://identifiers.org/vfdb.gene/",
"http://identifiers.org/vfdb.gene",
"https://identifiers.org/vfdb.gene/",
"https://identifiers.org/vfdb.gene",
- }, new Class<?>[] {}, "MIR:00000472",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000472",
+ new Class<?>[]{},
"vfdb.gene",
"VFG2154"),
VFDB_GENUS("VFDB Genus",
"http://www.mgc.ac.cn/VFs/",
- new String[] { "urn:miriam:vfdb.genus",
+ new String[]{"urn:miriam:vfdb.genus",
"http://identifiers.org/vfdb.genus/",
"http://identifiers.org/vfdb.genus",
"https://identifiers.org/vfdb.genus/",
"https://identifiers.org/vfdb.genus",
- }, new Class<?>[] {}, "MIR:00000471",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000471",
+ new Class<?>[]{},
"vfdb.genus",
"Chlamydia"),
VIRALZONE("ViralZone",
"http://www.expasy.org/viralzone/",
- new String[] { "urn:miriam:viralzone",
+ new String[]{"urn:miriam:viralzone",
"http://identifiers.org/viralzone/",
"http://identifiers.org/viralzone",
"https://identifiers.org/viralzone/",
"https://identifiers.org/viralzone",
- }, new Class<?>[] {}, "MIR:00000449",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000449",
+ new Class<?>[]{},
"viralzone",
"992"),
VIRSIRNA("VIRsiRNA",
"http://crdd.osdd.net/servers/virsirnadb",
- new String[] { "urn:miriam:virsirna",
+ new String[]{"urn:miriam:virsirna",
"http://identifiers.org/virsirna/",
"http://identifiers.org/virsirna",
"https://identifiers.org/virsirna/",
"https://identifiers.org/virsirna",
- }, new Class<?>[] {}, "MIR:00000249",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000249",
+ new Class<?>[]{},
"virsirna",
"virsi1909"),
@@ -6420,14 +6419,14 @@ public enum MiriamType {
*/
VMH_METABOLITE("VMH metabolite",
"https://vmh.uni.lu/",
- new String[] { "urn:miriam:vmhmetabolite",
+ new String[]{"urn:miriam:vmhmetabolite",
"http://identifiers.org/vmhmetabolite/",
"http://identifiers.org/vmhmetabolite",
"https://identifiers.org/vmhmetabolite/",
"https://identifiers.org/vmhmetabolite",
},
- new Class<?>[] { Chemical.class }, "MIR:00000636",
- new Class<?>[] {},
+ new Class<?>[]{Chemical.class}, "MIR:00000636",
+ new Class<?>[]{},
"vmhmetabolite",
"h2o"),
@@ -6436,14 +6435,14 @@ public enum MiriamType {
*/
VMH_REACTION("VMH reaction",
"https://vmh.uni.lu/",
- new String[] { "urn:miriam:vmhreaction",
+ new String[]{"urn:miriam:vmhreaction",
"http://identifiers.org/vmhreaction/",
"http://identifiers.org/vmhreaction",
"https://identifiers.org/vmhreaction/",
"https://identifiers.org/vmhreaction",
},
- new Class<?>[] { Reaction.class }, "MIR:00000640",
- new Class<?>[] {},
+ new Class<?>[]{Reaction.class}, "MIR:00000640",
+ new Class<?>[]{},
"vmhreaction",
"HEX1"),
@@ -6452,26 +6451,26 @@ public enum MiriamType {
*/
WIKIDATA("Wikidata",
"https://www.wikidata.org/",
- new String[] { "urn:miriam:wikidata",
+ new String[]{"urn:miriam:wikidata",
"http://identifiers.org/wikidata/",
"http://identifiers.org/wikidata",
"https://identifiers.org/wikidata/",
"https://identifiers.org/wikidata",
},
- new Class<?>[] {}, "MIR:00000549",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000549",
+ new Class<?>[]{},
"wikidata",
"Q2207226"),
WIKIGENES("WikiGenes",
"http://www.wikigenes.org/",
- new String[] { "urn:miriam:wikigenes",
+ new String[]{"urn:miriam:wikigenes",
"http://identifiers.org/wikigenes/",
"http://identifiers.org/wikigenes",
"https://identifiers.org/wikigenes/",
"https://identifiers.org/wikigenes",
- }, new Class<?>[] {}, "MIR:00000437",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000437",
+ new Class<?>[]{},
"wikigenes",
"3771877"),
@@ -6480,14 +6479,14 @@ public enum MiriamType {
*/
WIKIPATHWAYS("WikiPathways",
"http://www.wikipathways.org/",
- new String[] { "urn:miriam:wikipathways",
+ new String[]{"urn:miriam:wikipathways",
"http://identifiers.org/wikipathways/",
"http://identifiers.org/wikipathways",
"https://identifiers.org/wikipathways/",
"https://identifiers.org/wikipathways"
},
- new Class<?>[] {}, "MIR:00000076",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000076",
+ new Class<?>[]{},
"wikipathways",
"WP100"),
@@ -6496,26 +6495,26 @@ public enum MiriamType {
*/
WIKIPEDIA("Wikipedia (English)",
"http://en.wikipedia.org/wiki/Main_Page",
- new String[] { "urn:miriam:wikipedia.en",
+ new String[]{"urn:miriam:wikipedia.en",
"http://identifiers.org/wikipedia.en/",
"http://identifiers.org/wikipedia.en",
"https://identifiers.org/wikipedia.en/",
"https://identifiers.org/wikipedia.en",
},
- new Class<?>[] {}, "MIR:00000384",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000384",
+ new Class<?>[]{},
"wikipedia.en",
"SM_UB-81"),
WORFDB("Worfdb",
"http://worfdb.dfci.harvard.edu/",
- new String[] { "urn:miriam:worfdb",
+ new String[]{"urn:miriam:worfdb",
"http://identifiers.org/worfdb/",
"http://identifiers.org/worfdb",
"https://identifiers.org/worfdb/",
"https://identifiers.org/worfdb",
- }, new Class<?>[] {}, "MIR:00000288",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000288",
+ new Class<?>[]{},
"worfdb",
"T01B6.1"),
@@ -6524,198 +6523,190 @@ public enum MiriamType {
*/
WORM_BASE("WormBase",
"http://wormbase.bio2rdf.org/fct",
- new String[] { "urn:miriam:wormbase",
+ new String[]{"urn:miriam:wormbase",
"http://identifiers.org/wb/",
"http://identifiers.org/wb",
"https://identifiers.org/wb/",
"https://identifiers.org/wb",
},
- new Class<?>[] {}, "MIR:00000027",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000027",
+ new Class<?>[]{},
"wb",
"WBGene00000001"),
WORM_BASE_RNAI("WormBase RNAi",
"https://www.wormbase.org/",
- new String[] { "urn:miriam:wormbase.rnai",
+ new String[]{"urn:miriam:wormbase.rnai",
"http://identifiers.org/wb.rnai/",
"http://identifiers.org/wb.rnai",
"https://identifiers.org/wb.rnai/",
"https://identifiers.org/wb.rnai",
},
- new Class<?>[] {}, "MIR:00000466",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000466",
+ new Class<?>[]{},
"wb.rnai",
"WBRNAi00086878"),
WORMPEP("Wormpep",
"https://www.wormbase.org/db/seq/protein",
- new String[] { "urn:miriam:wormpep",
+ new String[]{"urn:miriam:wormpep",
"http://identifiers.org/wormpep/",
"http://identifiers.org/wormpep",
"https://identifiers.org/wormpep/",
"https://identifiers.org/wormpep",
- }, new Class<?>[] {}, "MIR:00000031",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000031",
+ new Class<?>[]{},
"wormpep",
"CE28239"),
XENBASE("Xenbase",
"https://www.xenbase.org/",
- new String[] { "urn:miriam:xenbase",
+ new String[]{"urn:miriam:xenbase",
"http://identifiers.org/xenbase/",
"http://identifiers.org/xenbase",
"https://identifiers.org/xenbase/",
"https://identifiers.org/xenbase",
- }, new Class<?>[] {}, "MIR:00000186",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000186",
+ new Class<?>[]{},
"xenbase",
"XB-GENE-922462"),
YDPM("YDPM",
"http://www-deletion.stanford.edu/YDPM/",
- new String[] { "urn:miriam:ydpm",
+ new String[]{"urn:miriam:ydpm",
"http://identifiers.org/ydpm/",
"http://identifiers.org/ydpm",
"https://identifiers.org/ydpm/",
"https://identifiers.org/ydpm",
- }, new Class<?>[] {}, "MIR:00000465",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000465",
+ new Class<?>[]{},
"ydpm",
"YAL001C"),
YEAST_INTRON_DATABASE_V4_3("Yeast Intron Database v4.3",
"http://intron.ucsc.edu/yeast4.3/",
- new String[] { "urn:miriam:yeastintron",
+ new String[]{"urn:miriam:yeastintron",
"http://identifiers.org/yeastintron/",
"http://identifiers.org/yeastintron",
"https://identifiers.org/yeastintron/",
"https://identifiers.org/yeastintron",
- }, new Class<?>[] {}, "MIR:00000521",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000521",
+ new Class<?>[]{},
"yeastintron",
"SNR17A"),
YETFASCO("YeTFasCo",
"http://yetfasco.ccbr.utoronto.ca/",
- new String[] { "urn:miriam:yetfasco",
+ new String[]{"urn:miriam:yetfasco",
"http://identifiers.org/yetfasco/",
"http://identifiers.org/yetfasco",
"https://identifiers.org/yetfasco/",
"https://identifiers.org/yetfasco",
- }, new Class<?>[] {}, "MIR:00000339",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000339",
+ new Class<?>[]{},
"yetfasco",
"YOR172W_571.0"),
YEAST_INTRON_DATABASE_V3("Yeast Intron Database v3",
"http://compbio.soe.ucsc.edu/yeast_introns.html",
- new String[] { "urn:miriam:yid",
+ new String[]{"urn:miriam:yid",
"http://identifiers.org/yid/",
"http://identifiers.org/yid",
"https://identifiers.org/yid/",
"https://identifiers.org/yid",
- }, new Class<?>[] {}, "MIR:00000460",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000460",
+ new Class<?>[]{},
"yid",
"SNR17A"),
YRC_PDR("YRC PDR",
"http://www.yeastrc.org/pdr/",
- new String[] { "urn:miriam:yrcpdr",
+ new String[]{"urn:miriam:yrcpdr",
"http://identifiers.org/yrcpdr/",
"http://identifiers.org/yrcpdr",
"https://identifiers.org/yrcpdr/",
"https://identifiers.org/yrcpdr",
- }, new Class<?>[] {}, "MIR:00000459",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000459",
+ new Class<?>[]{},
"yrcpdr",
"2673500"),
ZFIN("ZFIN Bioentity",
"http://zfin.org",
- new String[] { "urn:miriam:zfin",
+ new String[]{"urn:miriam:zfin",
"http://identifiers.org/zfin/",
"http://identifiers.org/zfin",
"https://identifiers.org/zfin/",
"https://identifiers.org/zfin",
},
- new Class<?>[] {}, "MIR:00000079",
- new Class<?>[] {},
+ new Class<?>[]{}, "MIR:00000079",
+ new Class<?>[]{},
"zfin",
"ZDB-GENE-041118-11"),
ZINC("ZINC",
"http://zinc15.docking.org/",
- new String[] { "urn:miriam:zinc",
+ new String[]{"urn:miriam:zinc",
"http://identifiers.org/zinc/",
"http://identifiers.org/zinc",
"https://identifiers.org/zinc/",
"https://identifiers.org/zinc",
- }, new Class<?>[] {}, "MIR:00000529",
- new Class<?>[] {},
+ }, new Class<?>[]{}, "MIR:00000529",
+ new Class<?>[]{},
"zinc",
"ZINC1084"),
;
- private static Logger logger = LogManager.getLogger();
+ private static final Logger logger = LogManager.getLogger();
/**
* User friendly name.
*/
- private String commonName;
+ private final String commonName;
/**
* url to home page of given resource type.
*/
- private String dbHomepage;
+ private final String dbHomepage;
/**
* Identifier of the database in miriam registry.
*/
- private String registryIdentifier;
+ private final String registryIdentifier;
/**
* Valid URIs to this resource.
*/
- private List<String> uris = new ArrayList<>();
+ private final List<String> uris = new ArrayList<>();
/**
* Classes that can be annotated by this resource.
*/
- private List<Class<? extends BioEntity>> validClass = new ArrayList<>();
+ private final List<Class<? extends BioEntity>> validClass = new ArrayList<>();
/**
* When class from this list is marked as "require at least one annotation" then
* annotation of this type is valid.
*/
- private List<Class<? extends BioEntity>> requiredClass = new ArrayList<>();
+ private final List<Class<? extends BioEntity>> requiredClass = new ArrayList<>();
- private String namespace;
+ private final String namespace;
- private String exampleIdentifier;
+ private final String exampleIdentifier;
/**
* Constructor that initialize enum object.
- *
- * @param dbHomePage
- * home page of the resource {@link #dbHomepage}
- * @param commonName
- * {@link #commonName}
- * @param uris
- * {@link #uris}
- * @param classes
- * {@link #validClass}
- * @param registryIdentifier
- * {@link #registryIdentifier}
- * @param requiredClasses
- * {@link #requiredClasses}
+ *
+ * @param dbHomePage home page of the resource {@link #dbHomepage}
+ * @param commonName {@link #commonName}
+ * @param uris {@link #uris}
+ * @param classes {@link #validClass}
+ * @param registryIdentifier {@link #registryIdentifier}
+ * @param requiredClasses {@link #requiredClasses}
*/
MiriamType(final String commonName, final String dbHomePage, final String[] uris, final Class<?>[] classes, final String registryIdentifier,
- final Class<?>[] requiredClasses, final String namespace, final String exampleIdentifier) {
+ final Class<?>[] requiredClasses, final String namespace, final String exampleIdentifier) {
this.commonName = commonName;
this.dbHomepage = dbHomePage;
- for (final String string : uris) {
- this.uris.add(string);
- }
+ Collections.addAll(this.uris, uris);
for (final Class<?> clazz : classes) {
this.validClass.add((Class<? extends BioEntity>) clazz);
}
@@ -6729,29 +6720,23 @@ public enum MiriamType {
/**
* Constructor that initialize enum object.
- *
- * @param dbHomePage
- * home page of the resource {@link #dbHomepage}
- * @param commonName
- * {@link #commonName}
- * @param uri
- * one of {@link #uris}
- * @param registryIdentifier
- * {@link #registryIdentifier}
- * @param classes
- * {@link #validClass}
+ *
+ * @param dbHomePage home page of the resource {@link #dbHomepage}
+ * @param commonName {@link #commonName}
+ * @param uri one of {@link #uris}
+ * @param registryIdentifier {@link #registryIdentifier}
+ * @param classes {@link #validClass}
*/
MiriamType(final String commonName, final String dbHomePage, final String uri, final Class<?>[] classes, final String registryIdentifier,
- final Class<?>[] requiredClasses, final String namespace, final String exampleIdentifier) {
- this(commonName, dbHomePage, new String[] { uri }, classes, registryIdentifier, requiredClasses, namespace,
+ final Class<?>[] requiredClasses, final String namespace, final String exampleIdentifier) {
+ this(commonName, dbHomePage, new String[]{uri}, classes, registryIdentifier, requiredClasses, namespace,
exampleIdentifier);
}
/**
* Returns {@link MiriamType} associated with parameter uri address.
*
- * @param uri
- * uri to check
+ * @param uri uri to check
* @return {@link MiriamType} for given uri
*/
public static MiriamType getTypeByUri(final String uri) {
@@ -6769,8 +6754,7 @@ public enum MiriamType {
/**
* Returns {@link MiriamType} associated with {@link #commonName}.
*
- * @param string
- * {@link #commonName}
+ * @param string {@link #commonName}
* @return {@link MiriamType} for given name
*/
public static MiriamType getTypeByCommonName(final String string) {
@@ -6785,12 +6769,11 @@ public enum MiriamType {
/**
* Transforms identifier into {@link MiriamData}.
*
- * @param generalIdentifier
- * identifier in the format NAME:IDENTIFIER. Where NAME is the name
- * from {@link MiriamType#commonName} and IDENTIFIER is resource
- * identifier.
+ * @param generalIdentifier identifier in the format NAME:IDENTIFIER. Where NAME is the name
+ * from {@link MiriamType#commonName} and IDENTIFIER is resource
+ * identifier.
* @return {@link MiriamData} representing generalIdentifier, when identifier is
- * invalid InvalidArgumentException is thrown
+ * invalid InvalidArgumentException is thrown
*/
public static MiriamData getMiriamDataFromIdentifier(final String generalIdentifier) {
int index = generalIdentifier.indexOf(":");
@@ -6801,7 +6784,7 @@ public enum MiriamType {
String id = generalIdentifier.substring(index + 1);
for (final MiriamType mt : MiriamType.values()) {
if (mt.getCommonName().equalsIgnoreCase(type)) {
- return new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, mt, id);
+ return new MiriamData(mt, id);
}
}
throw new InvalidArgumentException("Unknown miriam type: " + type + " (id: " + id + ")");
@@ -6819,7 +6802,7 @@ public enum MiriamType {
String id = generalIdentifier.substring(index + 1);
for (final MiriamType mt : MiriamType.values()) {
if (mt.getNamespace().equalsIgnoreCase(type)) {
- return new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, mt, id);
+ return new MiriamData(mt, id);
}
}
throw new InvalidArgumentException("Unknown miriam type: " + type + " (id: " + id + ")");
@@ -6828,8 +6811,7 @@ public enum MiriamType {
/**
* Creates {@link MiriamData} from miriam uri.
*
- * @param sourceMiriamUri
- * miriam uri defining {@link MiriamData}
+ * @param sourceMiriamUri miriam uri defining {@link MiriamData}
* @return {@link MiriamData} from miriam uri
*/
public static MiriamData getMiriamByUri(final String sourceMiriamUri) {
@@ -6888,7 +6870,6 @@ public enum MiriamType {
}
/**
- *
* @return {@link #commonName}
*/
public String getCommonName() {
@@ -6896,7 +6877,6 @@ public enum MiriamType {
}
/**
- *
* @return {@link #uris}
*/
public List<String> getUris() {
@@ -6904,7 +6884,6 @@ public enum MiriamType {
}
/**
- *
* @return {@link #validClass}
*/
public List<Class<? extends BioEntity>> getValidClass() {
diff --git a/model/src/test/java/lcsb/mapviewer/model/map/species/ElementComparatorTest.java b/model/src/test/java/lcsb/mapviewer/model/map/species/ElementComparatorTest.java
index 8cc2e19027791ef76ab74e633796c1655a27ebdd..2e98b4e115fbac927859e53bff8281dfbdb6006f 100644
--- a/model/src/test/java/lcsb/mapviewer/model/map/species/ElementComparatorTest.java
+++ b/model/src/test/java/lcsb/mapviewer/model/map/species/ElementComparatorTest.java
@@ -1,15 +1,5 @@
package lcsb.mapviewer.model.map.species;
-import static org.junit.Assert.assertEquals;
-import static org.junit.Assert.assertTrue;
-
-import java.awt.Color;
-
-import org.junit.After;
-import org.junit.Before;
-import org.junit.Test;
-import org.mockito.Mockito;
-
import lcsb.mapviewer.ModelTestFunctions;
import lcsb.mapviewer.common.exception.NotImplementedException;
import lcsb.mapviewer.model.map.MiriamData;
@@ -23,10 +13,19 @@ import lcsb.mapviewer.model.map.model.ModelFullIndexed;
import lcsb.mapviewer.model.map.model.SubmodelType;
import lcsb.mapviewer.model.map.reaction.Reaction;
import lcsb.mapviewer.model.map.species.field.PositionToCompartment;
+import org.junit.After;
+import org.junit.Before;
+import org.junit.Test;
+import org.mockito.Mockito;
+
+import java.awt.Color;
+
+import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertTrue;
public class ElementComparatorTest extends ModelTestFunctions {
- private ElementComparator comparator = new ElementComparator();
+ private final ElementComparator comparator = new ElementComparator();
@Before
public void setUp() throws Exception {
@@ -104,7 +103,7 @@ public class ElementComparatorTest extends ModelTestFunctions {
Element element1 = createElement();
Element element2 = createElement();
element1.setBorderColor(Color.YELLOW);
-
+
assertTrue(comparator.compare(element1, element2) != 0);
assertTrue(comparator.compare(element2, element1) != 0);
}
@@ -114,7 +113,7 @@ public class ElementComparatorTest extends ModelTestFunctions {
Element element1 = createElement();
Element element2 = createElement();
element1.setFontColor(Color.YELLOW);
-
+
assertTrue(comparator.compare(element1, element2) != 0);
assertTrue(comparator.compare(element2, element1) != 0);
}
@@ -266,7 +265,7 @@ public class ElementComparatorTest extends ModelTestFunctions {
result.setOnlySubstanceUnits(true);
result.setPositionToCompartment(PositionToCompartment.TRANSMEMBRANE);
result.setNotes("id");
- MiriamData md = new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.PUBMED, "c");
+ MiriamData md = new MiriamData(MiriamType.PUBMED, "c");
result.addMiriamData(md);
return result;
}
diff --git a/model/src/test/java/lcsb/mapviewer/model/map/species/SpeciesComparatorTest.java b/model/src/test/java/lcsb/mapviewer/model/map/species/SpeciesComparatorTest.java
index f490d60db1543b7aad8f30124d848b28226c9334..420594a3f5be6b2e4708735f5a036c120e040002 100644
--- a/model/src/test/java/lcsb/mapviewer/model/map/species/SpeciesComparatorTest.java
+++ b/model/src/test/java/lcsb/mapviewer/model/map/species/SpeciesComparatorTest.java
@@ -1,15 +1,5 @@
package lcsb.mapviewer.model.map.species;
-import static org.junit.Assert.assertEquals;
-import static org.junit.Assert.assertTrue;
-
-import java.awt.Color;
-
-import org.junit.After;
-import org.junit.Before;
-import org.junit.Test;
-import org.mockito.Mockito;
-
import lcsb.mapviewer.ModelTestFunctions;
import lcsb.mapviewer.common.exception.NotImplementedException;
import lcsb.mapviewer.model.map.MiriamData;
@@ -17,10 +7,19 @@ import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
import lcsb.mapviewer.model.map.kinetics.SbmlUnit;
import lcsb.mapviewer.model.map.species.field.PositionToCompartment;
+import org.junit.After;
+import org.junit.Before;
+import org.junit.Test;
+import org.mockito.Mockito;
+
+import java.awt.Color;
+
+import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertTrue;
public class SpeciesComparatorTest extends ModelTestFunctions {
- private SpeciesComparator comparator = new SpeciesComparator();
+ private final SpeciesComparator comparator = new SpeciesComparator();
@Before
public void setUp() throws Exception {
@@ -215,7 +214,7 @@ public class SpeciesComparatorTest extends ModelTestFunctions {
species1 = createSimpleMolecule();
species2 = createSimpleMolecule();
- species1.getMiriamData().iterator().next().setRelationType(MiriamRelationType.BQ_BIOL_IS);
+ species1.getMiriamData().iterator().next().setRelationType(MiriamRelationType.BQ_BIOL_IS_ENCODED_BY);
assertTrue(comparator.compare(species1, species2) != 0);
assertTrue(comparator.compare(species2, species1) != 0);
@@ -240,7 +239,7 @@ public class SpeciesComparatorTest extends ModelTestFunctions {
result.setPositionToCompartment(PositionToCompartment.INSIDE);
result.setNotes("id");
@SuppressWarnings("deprecation")
- MiriamData md = new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.UNKNOWN, "c");
+ MiriamData md = new MiriamData(MiriamType.UNKNOWN, "c");
result.addMiriamData(md);
return result;
}
diff --git a/pathvisio/src/main/java/lcsb/mapviewer/wikipathway/model/biopax/BiopaxFactory.java b/pathvisio/src/main/java/lcsb/mapviewer/wikipathway/model/biopax/BiopaxFactory.java
index 6054dc809c4cd9e4381e0bc2bc35ba1c4e767c7b..6b289f3310ff3d1dd722edb3b666040d6d172ccd 100644
--- a/pathvisio/src/main/java/lcsb/mapviewer/wikipathway/model/biopax/BiopaxFactory.java
+++ b/pathvisio/src/main/java/lcsb/mapviewer/wikipathway/model/biopax/BiopaxFactory.java
@@ -1,22 +1,20 @@
package lcsb.mapviewer.wikipathway.model.biopax;
-import java.util.ArrayList;
-import java.util.Collection;
-import java.util.List;
-
-import org.apache.commons.lang3.StringUtils;
-import org.apache.logging.log4j.LogManager;
-import org.apache.logging.log4j.Logger;
-
import lcsb.mapviewer.common.exception.NotImplementedException;
import lcsb.mapviewer.model.LogMarker;
import lcsb.mapviewer.model.ProjectLogEntryType;
import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
+import org.apache.commons.lang3.StringUtils;
+import org.apache.logging.log4j.LogManager;
+import org.apache.logging.log4j.Logger;
+
+import java.util.ArrayList;
+import java.util.Collection;
+import java.util.List;
public class BiopaxFactory {
- private Logger logger = LogManager.getLogger();
+ private final Logger logger = LogManager.getLogger();
private String mapName;
public BiopaxFactory(final String mapName) {
@@ -25,9 +23,8 @@ public class BiopaxFactory {
/**
* Creates {@link MiriamData annotation} from {@link BiopaxPublication}.
- *
- * @param publication
- * input BioPax structure
+ *
+ * @param publication input BioPax structure
* @return {@link MiriamData annotation}
*/
public MiriamData createMiriamData(final BiopaxPublication publication) {
@@ -36,7 +33,7 @@ public class BiopaxFactory {
return null;
} else {
if (StringUtils.isNumeric(publication.getId().trim())) {
- return new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.PUBMED, publication.getId());
+ return new MiriamData(MiriamType.PUBMED, publication.getId());
} else {
return null;
}
@@ -49,14 +46,12 @@ public class BiopaxFactory {
/**
* Returns list of {@link MiriamData} that are referenced in {@link BiopaxData}
* with identifier given in biopaxReference.
- *
- * @param biopaxData
- * {@link BiopaxData} where annotations are stored
- * @param biopaxReference
- * list of references (to data in {@link BiopaxData}) that we want to
- * convert into {@link MiriamData}
+ *
+ * @param biopaxData {@link BiopaxData} where annotations are stored
+ * @param biopaxReference list of references (to data in {@link BiopaxData}) that we want to
+ * convert into {@link MiriamData}
* @return list of {@link MiriamData} that are referenced in {@link BiopaxData}
- * with identifier given in biopaxReference.
+ * with identifier given in biopaxReference.
*/
public Collection<MiriamData> getMiriamData(final BiopaxData biopaxData, final Collection<String> biopaxReference) {
List<MiriamData> result = new ArrayList<>();
diff --git a/pathvisio/src/main/java/lcsb/mapviewer/wikipathway/xml/ReferenceParser.java b/pathvisio/src/main/java/lcsb/mapviewer/wikipathway/xml/ReferenceParser.java
index 9f9641831198de4c2aa0bc70538ba7434bf03fe2..0d49f5e1c92ec1bcbfe1d53f7ce9a05822acdc1e 100644
--- a/pathvisio/src/main/java/lcsb/mapviewer/wikipathway/xml/ReferenceParser.java
+++ b/pathvisio/src/main/java/lcsb/mapviewer/wikipathway/xml/ReferenceParser.java
@@ -1,14 +1,5 @@
package lcsb.mapviewer.wikipathway.xml;
-import java.util.Collection;
-
-import org.apache.commons.text.StringEscapeUtils;
-import org.apache.logging.log4j.LogManager;
-import org.apache.logging.log4j.Logger;
-import org.w3c.dom.Element;
-import org.w3c.dom.Node;
-import org.w3c.dom.NodeList;
-
import lcsb.mapviewer.common.MinervaLoggerAppender;
import lcsb.mapviewer.common.Pair;
import lcsb.mapviewer.common.exception.InvalidArgumentException;
@@ -16,16 +7,22 @@ import lcsb.mapviewer.common.exception.NotImplementedException;
import lcsb.mapviewer.converter.ConverterException;
import lcsb.mapviewer.model.LogMarker;
import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
import lcsb.mapviewer.wikipathway.model.ReferenceMapping;
+import org.apache.commons.text.StringEscapeUtils;
+import org.apache.logging.log4j.LogManager;
+import org.apache.logging.log4j.Logger;
+import org.w3c.dom.Element;
+import org.w3c.dom.Node;
+import org.w3c.dom.NodeList;
+
+import java.util.Collection;
/**
* Parser used to extract {@link MiriamData references} in miriam format from
* GPML data.
- *
- * @author Piotr Gawron
*
+ * @author Piotr Gawron
*/
public class ReferenceParser extends ElementGpmlParser<MiriamData> {
@@ -40,11 +37,9 @@ public class ReferenceParser extends ElementGpmlParser<MiriamData> {
/**
* This function creates MiriamData from database name and id.
- *
- * @param id
- * - resource identifier
- * @param db
- * -database type
+ *
+ * @param id - resource identifier
+ * @param db -database type
* @return {@link MiriamData} object referencing to the resource
*/
protected MiriamData createMiriamData(final String id, final String db) {
@@ -65,13 +60,14 @@ public class ReferenceParser extends ElementGpmlParser<MiriamData> {
for (final String uri : t.getUris()) {
if (uri.endsWith(db)) {
type = t;
+ break;
}
}
}
}
}
if (type != null) {
- return new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, type, id);
+ return new MiriamData(type, id);
} else {
logger.warn("This database type is not implemented yet: " + db + "; resource: " + id);
return null;
@@ -183,7 +179,7 @@ public class ReferenceParser extends ElementGpmlParser<MiriamData> {
@Override
public String toXml(final Collection<MiriamData> miriamData, final LogMarker logMarker) throws ConverterException {
- StringBuilder result = new StringBuilder("");
+ StringBuilder result = new StringBuilder();
int counter = 0;
for (final MiriamData md : miriamData) {
if (!md.getDataType().equals(MiriamType.PUBMED)) {
diff --git a/persist/src/test/java/lcsb/mapviewer/persist/dao/map/CommentDaoTest.java b/persist/src/test/java/lcsb/mapviewer/persist/dao/map/CommentDaoTest.java
index a0453a3f9e03b7409ac5080d86bf8da504b85bc8..2a3b7100d1d677cd909ea417428c1329b026bc81 100644
--- a/persist/src/test/java/lcsb/mapviewer/persist/dao/map/CommentDaoTest.java
+++ b/persist/src/test/java/lcsb/mapviewer/persist/dao/map/CommentDaoTest.java
@@ -1,17 +1,8 @@
package lcsb.mapviewer.persist.dao.map;
-import static org.junit.Assert.assertEquals;
-import static org.junit.Assert.assertNotNull;
-
-import org.junit.After;
-import org.junit.Before;
-import org.junit.Test;
-import org.springframework.beans.factory.annotation.Autowired;
-
import lcsb.mapviewer.model.Project;
import lcsb.mapviewer.model.map.Comment;
import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
import lcsb.mapviewer.model.map.compartment.Compartment;
import lcsb.mapviewer.model.map.layout.graphics.Layer;
@@ -26,6 +17,13 @@ import lcsb.mapviewer.model.map.species.field.Residue;
import lcsb.mapviewer.persist.PersistTestFunctions;
import lcsb.mapviewer.persist.dao.ProjectDao;
import lcsb.mapviewer.persist.dao.user.UserDao;
+import org.junit.After;
+import org.junit.Before;
+import org.junit.Test;
+import org.springframework.beans.factory.annotation.Autowired;
+
+import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertNotNull;
public class CommentDaoTest extends PersistTestFunctions {
@@ -53,7 +51,7 @@ public class CommentDaoTest extends PersistTestFunctions {
projectDao.add(project);
return project;
}
-
+
@Test
public void testGetById() throws Exception {
Project project = createProject();
@@ -85,7 +83,7 @@ public class CommentDaoTest extends PersistTestFunctions {
commentDao.add(comment2);
Model model = project.getTopModel();
-
+
assertEquals(0, commentDao.getCommentByModel(model, true, true).size());
assertEquals(1, commentDao.getCommentByModel(model, false, true).size());
assertEquals(1, commentDao.getCommentByModel(model, null, true).size());
@@ -154,7 +152,7 @@ public class CommentDaoTest extends PersistTestFunctions {
Residue mr = createResidue();
alias.addResidue(mr);
- alias.addMiriamData(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.CHEBI, "c"));
+ alias.addMiriamData(new MiriamData(MiriamType.CHEBI, "c"));
return model;
}
diff --git a/persist/src/test/java/lcsb/mapviewer/persist/dao/map/ModelDaoTest.java b/persist/src/test/java/lcsb/mapviewer/persist/dao/map/ModelDaoTest.java
index 2601b2c2f7e982b23b7d52b8f45d39a932cbf9a9..115b5bc8b80892381917d1181ab85b6879617d8b 100644
--- a/persist/src/test/java/lcsb/mapviewer/persist/dao/map/ModelDaoTest.java
+++ b/persist/src/test/java/lcsb/mapviewer/persist/dao/map/ModelDaoTest.java
@@ -1,20 +1,8 @@
package lcsb.mapviewer.persist.dao.map;
-import static org.junit.Assert.assertEquals;
-import static org.junit.Assert.assertFalse;
-import static org.junit.Assert.assertNotNull;
-import static org.junit.Assert.assertNull;
-import static org.junit.Assert.assertTrue;
-
-import org.junit.After;
-import org.junit.Before;
-import org.junit.Test;
-import org.springframework.beans.factory.annotation.Autowired;
-
import lcsb.mapviewer.model.Project;
import lcsb.mapviewer.model.graphics.PolylineData;
import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
import lcsb.mapviewer.model.map.compartment.Compartment;
import lcsb.mapviewer.model.map.kinetics.SbmlFunction;
@@ -38,9 +26,20 @@ import lcsb.mapviewer.model.map.species.Protein;
import lcsb.mapviewer.model.map.species.Species;
import lcsb.mapviewer.persist.PersistTestFunctions;
import lcsb.mapviewer.persist.dao.ProjectDao;
+import org.junit.After;
+import org.junit.Before;
+import org.junit.Test;
+import org.springframework.beans.factory.annotation.Autowired;
+
+import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertNotEquals;
+import static org.junit.Assert.assertNotNull;
+import static org.junit.Assert.assertNotSame;
+import static org.junit.Assert.assertNull;
+import static org.junit.Assert.assertTrue;
public class ModelDaoTest extends PersistTestFunctions {
- private ModelComparator modelComparator = new ModelComparator();
+ private final ModelComparator modelComparator = new ModelComparator();
@Autowired
@@ -67,7 +66,7 @@ public class ModelDaoTest extends PersistTestFunctions {
modelDao.evict(model);
ModelData model2 = modelDao.getById(model.getId());
assertNotNull(model2);
- assertFalse(model2 == model);
+ assertNotSame(model2, model);
assertEquals(model.getElements().size(), model2.getElements().size());
assertEquals(model.getLayers().size(), model2.getLayers().size());
@@ -157,7 +156,7 @@ public class ModelDaoTest extends PersistTestFunctions {
}
}
assertNotNull(reaction2);
- assertFalse(reaction.equals(reaction2));
+ assertNotEquals(reaction, reaction2);
assertEquals(reaction.getNodes().size(), reaction2.getNodes().size());
@@ -279,10 +278,10 @@ public class ModelDaoTest extends PersistTestFunctions {
projectDao.evict(project);
Model model2 = new ModelFullIndexed(modelDao.getById(model.getId()));
- Protein originalSpecies = (Protein) model.getElementByElementId("pr1");
- Protein fromDbSpecies = (Protein) model2.getElementByElementId("pr1");
+ Protein originalSpecies = model.getElementByElementId("pr1");
+ Protein fromDbSpecies = model2.getElementByElementId("pr1");
- assertFalse(originalSpecies.equals(fromDbSpecies));
+ assertNotEquals(originalSpecies, fromDbSpecies);
assertEquals(originalSpecies.getModificationResidues().size(), fromDbSpecies.getModificationResidues().size());
project = projectDao.getById(project.getId());
@@ -301,10 +300,10 @@ public class ModelDaoTest extends PersistTestFunctions {
projectDao.evict(project);
Model model2 = new ModelFullIndexed(modelDao.getById(model.getId()));
- Protein originalSpecies = (Protein) model.getElementByElementId("pr1");
- Protein fromDbSpecies = (Protein) model2.getElementByElementId("pr1");
+ Protein originalSpecies = model.getElementByElementId("pr1");
+ Protein fromDbSpecies = model2.getElementByElementId("pr1");
- assertFalse(originalSpecies.equals(fromDbSpecies));
+ assertNotEquals(originalSpecies, fromDbSpecies);
assertEquals(originalSpecies.getMiriamData().size(), fromDbSpecies.getMiriamData().size());
project = projectDao.getById(project.getId());
@@ -353,7 +352,7 @@ public class ModelDaoTest extends PersistTestFunctions {
alias.addResidue(createResidue());
- alias.addMiriamData(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.CHEBI, "c"));
+ alias.addMiriamData(new MiriamData(MiriamType.CHEBI, "c"));
return model;
}
diff --git a/persist/src/test/java/lcsb/mapviewer/persist/dao/map/ProjectBackgroundDaoTest.java b/persist/src/test/java/lcsb/mapviewer/persist/dao/map/ProjectBackgroundDaoTest.java
index be2fc7c751a607e31540121872bdb7225867e9ce..879e2516edf588dcd4fb3eacba9752748d896eb0 100644
--- a/persist/src/test/java/lcsb/mapviewer/persist/dao/map/ProjectBackgroundDaoTest.java
+++ b/persist/src/test/java/lcsb/mapviewer/persist/dao/map/ProjectBackgroundDaoTest.java
@@ -1,20 +1,7 @@
package lcsb.mapviewer.persist.dao.map;
-import static org.junit.Assert.assertEquals;
-import static org.junit.Assert.assertTrue;
-
-import java.util.List;
-
-import org.apache.logging.log4j.LogManager;
-import org.apache.logging.log4j.Logger;
-import org.junit.After;
-import org.junit.Before;
-import org.junit.Test;
-import org.springframework.beans.factory.annotation.Autowired;
-
import lcsb.mapviewer.model.Project;
import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
import lcsb.mapviewer.model.map.compartment.Compartment;
import lcsb.mapviewer.model.map.layout.ProjectBackground;
@@ -28,6 +15,17 @@ import lcsb.mapviewer.model.map.species.Protein;
import lcsb.mapviewer.model.map.species.Species;
import lcsb.mapviewer.persist.PersistTestFunctions;
import lcsb.mapviewer.persist.dao.ProjectDao;
+import org.apache.logging.log4j.LogManager;
+import org.apache.logging.log4j.Logger;
+import org.junit.After;
+import org.junit.Before;
+import org.junit.Test;
+import org.springframework.beans.factory.annotation.Autowired;
+
+import java.util.List;
+
+import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertTrue;
public class ProjectBackgroundDaoTest extends PersistTestFunctions {
@@ -89,7 +87,7 @@ public class ProjectBackgroundDaoTest extends PersistTestFunctions {
protein.addResidue(createResidue());
- protein.addMiriamData(new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.CHEBI, "c"));
+ protein.addMiriamData(new MiriamData(MiriamType.CHEBI, "c"));
return model;
}
diff --git a/persist/src/test/java/lcsb/mapviewer/persist/dao/map/layout/alias/ElementDaoTest.java b/persist/src/test/java/lcsb/mapviewer/persist/dao/map/layout/alias/ElementDaoTest.java
index 0f6ebe00c97fe6df86560592976dab12d82bde9a..728b64d0ff26356ab70c65c531697349c68012ed 100644
--- a/persist/src/test/java/lcsb/mapviewer/persist/dao/map/layout/alias/ElementDaoTest.java
+++ b/persist/src/test/java/lcsb/mapviewer/persist/dao/map/layout/alias/ElementDaoTest.java
@@ -2,7 +2,6 @@ package lcsb.mapviewer.persist.dao.map.layout.alias;
import lcsb.mapviewer.model.Project;
import lcsb.mapviewer.model.map.MiriamData;
-import lcsb.mapviewer.model.map.MiriamRelationType;
import lcsb.mapviewer.model.map.MiriamType;
import lcsb.mapviewer.model.map.compartment.Compartment;
import lcsb.mapviewer.model.map.model.ElementSubmodelConnection;
@@ -161,7 +160,7 @@ public class ElementDaoTest extends PersistTestFunctions {
Compartment parent = createCompartment("comp id");
sp.setCompartment(parent);
- MiriamData md = new MiriamData(MiriamRelationType.BQ_BIOL_IS_DESCRIBED_BY, MiriamType.HGNC_SYMBOL, "SNCA");
+ MiriamData md = new MiriamData(MiriamType.HGNC_SYMBOL, "SNCA");
sp.addMiriamData(md);
elementDao.add(sp);