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Commit a255a567 authored by Marek Ostaszewski's avatar Marek Ostaszewski
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improved annotations, new pathway

parent ef49e551
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Curation/Apoptosis/Apoptosis_stable.xml
View file @ a255a567
......@@ -1782,7 +1782,6 @@ MESH Id is provided for the phenotype 'Apoptosis'.
<celldesigner:protein id="pr28" name="Orf3a" type="GENERIC"/>
<celldesigner:protein id="pr29" name="MAPK14" type="GENERIC"/>
<celldesigner:protein id="pr32" name="E" type="GENERIC"/>
<celldesigner:protein id="pr33" name="Orf7a" type="GENERIC"/>
<celldesigner:protein id="pr34" name="M" type="GENERIC"/>
<celldesigner:protein id="pr36" name="Orf3b" type="GENERIC"/>
<celldesigner:protein id="pr37" name="Orf8a" type="GENERIC"/>
......@@ -1790,6 +1789,7 @@ MESH Id is provided for the phenotype &apos;Apoptosis&apos;.
<celldesigner:protein id="pr39" name="Orf6" type="GENERIC"/>
<celldesigner:protein id="pr40" name="S" type="GENERIC"/>
<celldesigner:protein id="pr41" name="Orf9b" type="GENERIC"/>
<celldesigner:protein id="pr33" name="Orf7a" type="GENERIC"/>
</celldesigner:listOfProteins>
<celldesigner:listOfGenes/>
<celldesigner:listOfRNAs/>
......@@ -2056,6 +2056,15 @@ MESH Id is provided for the phenotype &apos;Apoptosis&apos;.
<celldesigner:catalyzed reaction="re19"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s45">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59637"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s94" id="s94" name="E" compartment="c5" initialAmount="0">
......@@ -2070,20 +2079,15 @@ MESH Id is provided for the phenotype &apos;Apoptosis&apos;.
<celldesigner:catalyzed reaction="re23"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
</annotation>
</species>
<species metaid="s39" id="s39" name="Orf7a" compartment="c5" initialAmount="0">
<annotation>
<celldesigner:extension>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>pr33</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
<celldesigner:listOfCatalyzedReactions>
<celldesigner:catalyzed reaction="re23"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s94">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59637"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s38" id="s38" name="M" compartment="c5" initialAmount="0">
......@@ -2214,6 +2218,15 @@ MESH Id is provided for the phenotype &apos;Apoptosis&apos;.
<celldesigner:proteinReference>pr36</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s144">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59633"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s145" id="s145" name="Orf8a" compartment="c5" initialAmount="0">
......@@ -2225,6 +2238,15 @@ MESH Id is provided for the phenotype &apos;Apoptosis&apos;.
<celldesigner:proteinReference>pr37</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s145">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:Q7TFA0"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s146" id="s146" name="N" compartment="c5" initialAmount="0">
......@@ -2236,6 +2258,15 @@ MESH Id is provided for the phenotype &apos;Apoptosis&apos;.
<celldesigner:proteinReference>pr38</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s146">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59595"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s147" id="s147" name="Orf6" compartment="c5" initialAmount="0">
......@@ -2247,6 +2278,15 @@ MESH Id is provided for the phenotype &apos;Apoptosis&apos;.
<celldesigner:proteinReference>pr39</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s147">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59634"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s148" id="s148" name="S" compartment="c5" initialAmount="0">
......@@ -2258,6 +2298,15 @@ MESH Id is provided for the phenotype &apos;Apoptosis&apos;.
<celldesigner:proteinReference>pr40</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s148">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59594"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s149" id="s149" name="Orf9b" compartment="c5" initialAmount="0">
......@@ -2269,6 +2318,15 @@ MESH Id is provided for the phenotype &apos;Apoptosis&apos;.
<celldesigner:proteinReference>pr41</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s149">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59636"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s150" id="s150" name="BAD" compartment="c5" initialAmount="0">
......@@ -2361,6 +2419,38 @@ MESH Id is provided for the phenotype &apos;Apoptosis&apos;.
</celldesigner:extension>
</annotation>
</species>
<species metaid="s39" id="s39" name="Orf7a" compartment="c5" initialAmount="0" charge="0">
<notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<head>
<title/>
</head>
<body>COVID19 Disease Map
</body>
</html>
</notes>
<annotation>
<celldesigner:extension>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>pr33</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
<celldesigner:listOfCatalyzedReactions>
<celldesigner:catalyzed reaction="re23"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s39">
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:Q19QW4"/>
</rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
</listOfSpecies>
<listOfReactions>
<reaction metaid="re1" id="re1" reversible="false">
......@@ -2738,7 +2828,7 @@ MESH Id is provided for the phenotype &apos;Apoptosis&apos;.
</celldesigner:linkTarget>
<celldesigner:line width="3.0" color="ff000000"/>
</celldesigner:modification>
<celldesigner:modification type="INHIBITION" modifiers="s116" aliases="sa29" targetLineIndex="-1,7" editPoints="0.0025603618302028064,0.020742578188163163 0.9875528009624692,-0.1008400438617616">
<celldesigner:modification type="INHIBITION" modifiers="s116" aliases="sa29" targetLineIndex="-1,7" editPoints="0.0025603618302028064,0.020742578188163385 0.9875528009624693,-0.10084004386176137">
<celldesigner:connectScheme connectPolicy="square">
<celldesigner:listOfLineDirection>
<celldesigner:lineDirection index="0" value="vertical"/>
......@@ -2927,7 +3017,7 @@ MESH Id is provided for the phenotype &apos;Apoptosis&apos;.
</celldesigner:linkTarget>
<celldesigner:line width="3.0" color="ff000000"/>
</celldesigner:modification>
<celldesigner:modification type="INHIBITION" modifiers="s156" aliases="csa11" targetLineIndex="-1,2" editPoints="0.07210651322633788,0.0028511662646293345 0.0736675660903392,-0.03662814449375329">
<celldesigner:modification type="INHIBITION" modifiers="s156" aliases="csa11" targetLineIndex="-1,2" editPoints="0.07210651322633832,0.0028511662646293345 0.07366756609033964,-0.03662814449375329">
<celldesigner:connectScheme connectPolicy="square">
<celldesigner:listOfLineDirection>
<celldesigner:lineDirection index="0" value="vertical"/>
......
Curation/ETC/ETC_stable.xml
View file @ a255a567
This diff is collapsed.
Curation/Inflammasomes/NLRP3_Activation_stable.xml 0 → 100644
View file @ a255a567
This diff is collapsed.
Curation/JNK pathway/JNK_pathway_stable.xml
View file @ a255a567
......@@ -2330,6 +2330,15 @@ Uniprot:P0QGFD
<celldesigner:catalyzed reaction="re4"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s105">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59632"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s104" id="s104" name="7a" compartment="c2" initialAmount="0">
......@@ -2344,6 +2353,15 @@ Uniprot:P0QGFD
<celldesigner:catalyzed reaction="re4"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s104">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59635"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s106" id="s106" name="S" compartment="c2" initialAmount="0">
......@@ -2368,6 +2386,15 @@ Uniprot:P0QGFD
<celldesigner:catalyzed reaction="re42"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s106">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59594"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s103" id="s103" name="3b" compartment="c2" initialAmount="0">
......@@ -2382,6 +2409,15 @@ Uniprot:P0QGFD
<celldesigner:catalyzed reaction="re36"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s103">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59633"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
</listOfSpecies>
......@@ -2414,7 +2450,7 @@ Uniprot:P0QGFD
</celldesigner:connectScheme>
<celldesigner:line width="1.0" color="ff000000"/>
<celldesigner:listOfModification>
<celldesigner:modification type="PHYSICAL_STIMULATION" modifiers="s49" aliases="csa2" targetLineIndex="-1,4" editPoints="0.6490041839468192,-0.29949358690347117">
<celldesigner:modification type="PHYSICAL_STIMULATION" modifiers="s49" aliases="csa2" targetLineIndex="-1,4" editPoints="0.6490041839468192,-0.29949358690347183">
<celldesigner:connectScheme connectPolicy="direct">
<celldesigner:listOfLineDirection>
<celldesigner:lineDirection index="0" value="unknown"/>
......@@ -3290,7 +3326,7 @@ Uniprot:P0QGFD
</celldesigner:linkTarget>
<celldesigner:line width="1.0" color="ff000000"/>
</celldesigner:modification>
<celldesigner:modification type="PHYSICAL_STIMULATION" modifiers="s6" aliases="sa5" targetLineIndex="-1,4" editPoints="0.3049969275981761,-0.14963021895091022">
<celldesigner:modification type="PHYSICAL_STIMULATION" modifiers="s6" aliases="sa5" targetLineIndex="-1,4" editPoints="0.3049969275981761,-0.14963021895091067">
<celldesigner:connectScheme connectPolicy="direct">
<celldesigner:listOfLineDirection>
<celldesigner:lineDirection index="0" value="unknown"/>
......
Curation/TGF beta pathway/TGFB_pathway_stable.xml
View file @ a255a567
......@@ -244,7 +244,7 @@
</celldesigner:speciesIdentity>
</celldesigner:annotation>
</celldesigner:species>
<celldesigner:species id="s106" name="TGFB">
<celldesigner:species id="s106" name="TGFB1">
<celldesigner:notes>
<html xmlns="http://www.w3.org/1999/xhtml">
<head>
......@@ -1827,13 +1827,13 @@
<celldesigner:protein id="pr8" name="RHOA" type="GENERIC"/>
<celldesigner:protein id="pr15" name="BAMBI" type="GENERIC"/>
<celldesigner:protein id="pr9" name="PPP2CA" type="GENERIC"/>
<celldesigner:protein id="pr18" name="BMPR1" type="GENERIC"/>
<celldesigner:protein id="pr14" name="TGFBR2" type="GENERIC"/>
<celldesigner:protein id="pr13" name="TGFBR1" type="GENERIC"/>
<celldesigner:protein id="pr18" name="BMPR1" type="RECEPTOR"/>
<celldesigner:protein id="pr14" name="TGFBR2" type="RECEPTOR"/>
<celldesigner:protein id="pr13" name="TGFBR1" type="RECEPTOR"/>
<celldesigner:protein id="pr11" name="LTBP1" type="GENERIC"/>
<celldesigner:protein id="pr16" name="ACVR1" type="GENERIC"/>
<celldesigner:protein id="pr19" name="BMPR2" type="GENERIC"/>
<celldesigner:protein id="pr12" name="TGFB" type="GENERIC"/>
<celldesigner:protein id="pr16" name="ACVR1" type="RECEPTOR"/>
<celldesigner:protein id="pr19" name="BMPR2" type="RECEPTOR"/>
<celldesigner:protein id="pr12" name="TGFB1" type="GENERIC"/>
<celldesigner:protein id="pr7" name="RBX1" type="GENERIC"/>
<celldesigner:protein id="pr6" name="SMAD3" type="GENERIC">
<celldesigner:listOfModificationResidues>
......@@ -1860,25 +1860,25 @@
<celldesigner:modificationResidue angle="0.74" id="rs1" side="none"/>
</celldesigner:listOfModificationResidues>
</celldesigner:protein>
<celldesigner:protein id="pr17" name="ACVR1B" type="GENERIC"/>
<celldesigner:protein id="pr17" name="ACVR1B" type="RECEPTOR"/>
<celldesigner:protein id="pr4" name="MAPK3" type="GENERIC"/>
<celldesigner:protein id="pr25" name="RPS6KB1" type="GENERIC">
<celldesigner:listOfModificationResidues>
<celldesigner:modificationResidue angle="2.4" id="rs1" name="rs1" side="none"/>
</celldesigner:listOfModificationResidues>
</celldesigner:protein>
<celldesigner:protein id="pr22" name="ACTR2" type="GENERIC"/>
<celldesigner:protein id="pr22" name="ACTR2" type="RECEPTOR"/>
<celldesigner:protein id="pr27" name="CUL2" type="GENERIC"/>
<celldesigner:protein id="pr28" name="ELOC" type="GENERIC"/>
<celldesigner:protein id="pr29" name="ELOB" type="GENERIC"/>
<celldesigner:protein id="pr32" name="3a" type="GENERIC"/>
<celldesigner:protein id="pr33" name="7b" type="GENERIC"/>
<celldesigner:protein id="pr34" name="nsp4" type="GENERIC"/>
<celldesigner:protein id="pr35" name="8" type="GENERIC"/>
<celldesigner:protein id="pr36" name="nsp7" type="GENERIC"/>
<celldesigner:protein id="pr32" name="Orf3a" type="GENERIC"/>
<celldesigner:protein id="pr33" name="Nsp7b" type="GENERIC"/>
<celldesigner:protein id="pr34" name="E" type="GENERIC"/>
<celldesigner:protein id="pr35" name="Orf8" type="GENERIC"/>
<celldesigner:protein id="pr36" name="Nsp7" type="GENERIC"/>
<celldesigner:protein id="pr37" name="Orf10" type="GENERIC"/>
<celldesigner:protein id="pr38" name="PPP2R1A" type="GENERIC"/>
<celldesigner:protein id="pr39" name="7a" type="GENERIC"/>
<celldesigner:protein id="pr39" name="Orf7a" type="GENERIC"/>
</celldesigner:listOfProteins>
<celldesigner:listOfGenes/>
<celldesigner:listOfRNAs/>
......@@ -1975,17 +1975,6 @@
</celldesigner:extension>
</annotation>
</species>
<species metaid="s12" id="s12" name="TGFB" compartment="default" initialAmount="0" charge="0">
<annotation>
<celldesigner:extension>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>pr12</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
</annotation>
</species>
<species metaid="s4" id="s4" name="MAPK3" compartment="c1" initialAmount="0" charge="0">
<annotation>
<celldesigner:extension>
......@@ -2119,7 +2108,7 @@
</celldesigner:extension>
</annotation>
</species>
<species metaid="s85" id="s85" name="7b" compartment="default" initialAmount="0">
<species metaid="s85" id="s85" name="Nsp7b" compartment="default" initialAmount="0">
<annotation>
<celldesigner:extension>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
......@@ -2131,9 +2120,18 @@
<celldesigner:catalyzed reaction="re6"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s85">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:Q7TFA1"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s90" id="s90" name="nsp4" compartment="c1" initialAmount="0">
<species metaid="s90" id="s90" name="E" compartment="c1" initialAmount="0">
<annotation>
<celldesigner:extension>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
......@@ -2145,9 +2143,18 @@
<celldesigner:catalyzed reaction="re3"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s90">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59637"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s92" id="s92" name="8" compartment="default" initialAmount="0">
<species metaid="s92" id="s92" name="Orf8" compartment="default" initialAmount="0">
<annotation>
<celldesigner:extension>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
......@@ -2159,9 +2166,23 @@
<celldesigner:catalyzed reaction="re32"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s92">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:Q80H93"/>
</rdf:Bag>
</bqmodel:is>
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:Q7TFA0"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s96" id="s96" name="nsp7" compartment="c1" initialAmount="0">
<species metaid="s96" id="s96" name="Nsp7" compartment="c1" initialAmount="0">
<annotation>
<celldesigner:extension>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
......@@ -2173,9 +2194,18 @@
<celldesigner:catalyzed reaction="re7"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s96">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:Q7TFA1"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s104" id="s104" name="7a" compartment="c1" initialAmount="0">
<species metaid="s104" id="s104" name="Orf7a" compartment="c1" initialAmount="0">
<annotation>
<celldesigner:extension>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
......@@ -2187,9 +2217,18 @@
<celldesigner:catalyzed reaction="re8"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s104">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59635"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s105" id="s105" name="3a" compartment="c1" initialAmount="0">
<species metaid="s105" id="s105" name="Orf3a" compartment="c1" initialAmount="0">
<annotation>
<celldesigner:extension>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
......@@ -2203,6 +2242,15 @@
<celldesigner:catalyzed reaction="re20"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s105">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:P59632"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s109" id="s109" name="TGFB/TGFBR" compartment="c1" initialAmount="0">
......@@ -2221,7 +2269,7 @@
</celldesigner:extension>
</annotation>
</species>
<species metaid="s110" id="s110" name="7b" compartment="c1" initialAmount="0">
<species metaid="s110" id="s110" name="Nsp7b" compartment="c1" initialAmount="0">
<annotation>
<celldesigner:extension>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
......@@ -2233,6 +2281,15 @@
<celldesigner:catalyzed reaction="re3"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/">
<rdf:Description rdf:about="#s110">
<bqmodel:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:uniprot:Q7TFA1"/>
</rdf:Bag>
</bqmodel:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s111" id="s111" name="E3 ubiquitin ligase complex" compartment="c1" initialAmount="0">
......@@ -2360,6 +2417,17 @@
</rdf:RDF>
</annotation>
</species>
<species metaid="s12" id="s12" name="TGFB1" compartment="default" initialAmount="0" charge="0">
<annotation>
<celldesigner:extension>
<celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
<celldesigner:speciesIdentity>
<celldesigner:class>PROTEIN</celldesigner:class>
<celldesigner:proteinReference>pr12</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
</annotation>
</species>
</listOfSpecies>
<listOfReactions>
<reaction metaid="re3" id="re3" reversible="false">
......@@ -2408,7 +2476,7 @@
</celldesigner:linkTarget>
<celldesigner:line width="1.0" color="ff000000"/>
</celldesigner:modification>
<celldesigner:modification type="INHIBITION" modifiers="s4" aliases="sa18" targetLineIndex="-1,7" editPoints="0.23340242777306575,-0.1047249599597384 0.4009856359219717,0.2687707916833375">
<celldesigner:modification type="INHIBITION" modifiers="s4" aliases="sa18" targetLineIndex="-1,7" editPoints="0.2334024277730662,-0.1047249599597384 0.4009856359219721,0.2687707916833375">
<celldesigner:connectScheme connectPolicy="square">
<celldesigner:listOfLineDirection>
<celldesigner:lineDirection index="0" value="vertical"/>
......@@ -2565,7 +2633,7 @@
</celldesigner:linkTarget>
<celldesigner:line width="1.0" color="ff000000"/>
</celldesigner:modification>
<celldesigner:modification type="INHIBITION" modifiers="s112" aliases="sa11" targetLineIndex="-1,7" editPoints="0.09184632204263199,0.15977199932434916 0.8434646434096145,-0.27230232339393146">
<celldesigner:modification type="INHIBITION" modifiers="s112" aliases="sa11" targetLineIndex="-1,7" editPoints="0.09184632204263199,0.15977199932435004 0.8434646434096145,-0.27230232339393146">
<celldesigner:connectScheme connectPolicy="square">
<celldesigner:listOfLineDirection>
<celldesigner:lineDirection index="0" value="vertical"/>
......@@ -2622,7 +2690,7 @@
</celldesigner:connectScheme>
<celldesigner:line width="1.0" color="ff000000"/>
</celldesigner:modification>
<celldesigner:modification type="PHYSICAL_STIMULATION" modifiers="s105" aliases="sa65" targetLineIndex="-1,2" editPoints="0.4512675818513239,0.09517758911275331 0.493856778824588,-0.1067515006054881">
<celldesigner:modification type="PHYSICAL_STIMULATION" modifiers="s105" aliases="sa65" targetLineIndex="-1,2" editPoints="0.45126758185132276,0.09517758911275306 0.493856778824588,-0.10675150060548816">
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<celldesigner:listOfLineDirection>
<celldesigner:lineDirection index="0" value="vertical"/>
......@@ -3154,7 +3222,7 @@
<celldesigner:lineDirection arm="2" index="0" value="unknown"/>
</celldesigner:listOfLineDirection>
</celldesigner:connectScheme>
<celldesigner:editPoints num0="0" num1="0" num2="0" tShapeIndex="0">0.0837004405286344,0.32158590308370094</celldesigner:editPoints>
<celldesigner:editPoints num0="0" num1="0" num2="0" tShapeIndex="0">0.08370044052863462,0.3215859030837014</celldesigner:editPoints>
<celldesigner:line width="1.0" color="ff000000"/>
<celldesigner:listOfModification>
<celldesigner:modification type="INHIBITION" modifiers="s11" aliases="sa7" targetLineIndex="2,7">
......@@ -3168,7 +3236,7 @@
</celldesigner:linkTarget>
<celldesigner:line width="1.0" color="ff000000"/>
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<celldesigner:modification type="INHIBITION" modifiers="s15" aliases="sa33" targetLineIndex="2,2" editPoints="-0.057571434281026734,-0.1168077027017822 0.7469827304677037,-0.5133512195245928">
<celldesigner:connectScheme connectPolicy="square">
<celldesigner:listOfLineDirection>
<celldesigner:lineDirection index="0" value="horizontal"/>
......