Commit 11fdfe4c authored by Benjamin M. Gyori's avatar Benjamin M. Gyori
Browse files

Add Gilda grounding

parent 2b979813
Pipeline #46725 passed with stages
in 51 seconds
......@@ -4585,6 +4585,14 @@ RefSeq_ID: NM_001323552
<celldesigner:catalyzed reaction="re7"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
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......@@ -4786,6 +4794,14 @@ RefSeq_ID: NM_018947
<celldesigner:catalyzed reaction="re5"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
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......@@ -4912,6 +4928,14 @@ RefSeq_ID: NM_001228
<celldesigner:catalyzed reaction="re23"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
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......@@ -4933,6 +4957,14 @@ RefSeq_ID: NM_001228
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</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
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......@@ -4974,6 +5006,14 @@ RefSeq_ID: NM_001228
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......@@ -4993,6 +5033,14 @@ RefSeq_ID: NM_001228
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</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
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......@@ -5012,6 +5060,14 @@ RefSeq_ID: NM_001228
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</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
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</annotation>
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......@@ -5023,6 +5079,14 @@ RefSeq_ID: NM_001228
<celldesigner:proteinReference>p_s_id_sa67</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
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</annotation>
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......@@ -5043,6 +5107,14 @@ RefSeq_ID: NM_001228
<celldesigner:catalyzed reaction="re12"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
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<rdf:Description>
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</bqbiol:isEncodedBy>
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</rdf:RDF>
</annotation>
</species>
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......@@ -5126,6 +5198,14 @@ RefSeq_ID: NM_004346
</celldesigner:state>
</celldesigner:speciesIdentity>
</celldesigner:extension>
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</annotation>
</species>
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......@@ -5145,6 +5225,14 @@ RefSeq_ID: NM_004346
<celldesigner:catalyzed reaction="re9"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
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</annotation>
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</listOfSpecies>
......@@ -7196,4 +7284,4 @@ RefSeq_ID: NM_004346
</reaction>
</listOfReactions>
</model>
</sbml>
</sbml>
\ No newline at end of file
......@@ -6231,6 +6231,14 @@ Long Name: FibrinogenSynonym: Factor IAccession: P00406
<celldesigner:proteinReference>pr118</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
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......@@ -8093,6 +8101,10 @@ PMID:15283675
<rdf:li rdf:resource="urn:miriam:taxonomy:9606"/>
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</bqbiol:isDescribedBy>
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</annotation>
......@@ -8493,6 +8505,14 @@ Long Name: KininogenSynonym: Alpha-2-thiol proteinase inhibitor,KNGAccession:
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</celldesigner:speciesIdentity>
</celldesigner:extension>
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......@@ -8698,6 +8718,14 @@ Long Name: KininogenSynonym: Alpha-2-thiol proteinase inhibitor,KNGAccession:
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......@@ -8910,6 +8938,14 @@ Long Name: Activated Protein CSynonym: FXIV,anticoagulant protein C,autoprothr
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</celldesigner:speciesIdentity>
</celldesigner:extension>
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......@@ -9123,6 +9159,14 @@ Long Name: Fibrinogen Synonym: Factor I Accession: P00406
<celldesigner:catalyzed reaction="re268"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
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......@@ -9686,6 +9730,10 @@ Long Name: FibrinogenSynonym: Factor IAccession: P00406
<rdf:li rdf:resource="urn:miriam:taxonomy:9606"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
<bqbiol:is>
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<rdf:li rdf:resource="urn:miriam:mesh:D000080424"/></rdf:Bag>
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......@@ -19778,4 +19826,4 @@ PMID:15746105
</reaction>
</listOfReactions>
</model>
</sbml>
</sbml>
\ No newline at end of file
......@@ -8514,6 +8514,14 @@ In mammalian cells, four types of connectors between ER and mitochondria have be
<celldesigner:catalyzed reaction="path_0_re63"/>
</celldesigner:listOfCatalyzedReactions>
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......@@ -9182,6 +9190,14 @@ MICU1, MICU2, MCUb and EMRE were detected by protein immunoblotting after immuno
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......@@ -10222,6 +10238,14 @@ Genetic ablation of Mfn2 in mouse embryonic fibroblasts amplified ER stress and
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......@@ -12932,6 +12956,14 @@ The metalloproteinase ADAM17 is responsible for mediating ACE2 shedding from the
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......@@ -24068,4 +24100,4 @@ Additional data indicate that SARS-CoV S protein or SARS virus infection directl
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\ No newline at end of file
......@@ -12824,6 +12824,14 @@ Mutations in COX15 produce a defect in the mitochondrial heme biosynthetic pathw
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......@@ -13037,6 +13045,14 @@ Mutations in COX15 produce a defect in the mitochondrial heme biosynthetic pathw
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......@@ -13085,6 +13101,14 @@ Mutations in COX15 produce a defect in the mitochondrial heme biosynthetic pathw
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</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:11180"/></rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s408" id="s408" name="SOD1" compartment="c2" initialAmount="0" sboTerm="SBO:0000252">
......@@ -13272,6 +13296,14 @@ Mutations in COX15 produce a defect in the mitochondrial heme biosynthetic pathw
<celldesigner:name>HO</celldesigner:name>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:5013"/></rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s18" id="s18" name="H+" compartment="c1" initialAmount="0" sboTerm="SBO:0000327">
......@@ -13910,6 +13942,14 @@ Mutations in COX15 produce a defect in the mitochondrial heme biosynthetic pathw
<celldesigner:name>ROS</celldesigner:name>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:10261"/></rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s1109" id="s1109" name="OXPHOS factors" compartment="c2" initialAmount="0">
......@@ -14249,6 +14289,14 @@ Uniprot Q9Y6M9
<celldesigner:proteinReference>pr76</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:7704"/></rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s1131" id="s1131" name="s1131" compartment="c2" initialAmount="0">
......@@ -14282,6 +14330,14 @@ Uniprot Q9Y6M9
<celldesigner:proteinReference>pr55</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:7683"/></rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s1138" id="s1138" name="mtDNA encoded OXPHOS units" compartment="c2" initialAmount="0">
......@@ -14330,6 +14386,14 @@ Uniprot Q9Y6M9
<celldesigner:proteinReference>pr138</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:29548"/></rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s1141" id="s1141" name="ACAD9" compartment="c2" initialAmount="0">
......@@ -14341,6 +14405,14 @@ Uniprot Q9Y6M9
<celldesigner:proteinReference>pr141</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:21497"/></rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s1142" id="s1142" name="NDUFAF7" compartment="c2" initialAmount="0">
......@@ -14352,6 +14424,14 @@ Uniprot Q9Y6M9
<celldesigner:proteinReference>pr177</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:28816"/></rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s1153" id="s1153" name="TIM22 complex" compartment="c2" initialAmount="0">
......@@ -14557,6 +14637,14 @@ Uniprot Q9Y6M9
<celldesigner:proteinReference>pr276</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:25152"/></rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s1182" id="s1182" name="TIM9-TIM10 complex" compartment="c2" initialAmount="0">
......@@ -14598,6 +14686,14 @@ Uniprot Q9Y6M9
<celldesigner:proteinReference>pr192</celldesigner:proteinReference>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:14247"/></rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s1190" id="s1190" name="s1190" compartment="c2" initialAmount="0">
......@@ -19866,4 +19962,4 @@ Uniprot Q9Y6M9
</reaction>
</listOfReactions>
</model>
</sbml>
</sbml>
\ No newline at end of file
......@@ -10121,6 +10121,14 @@ Emek Demir, Oregon Health &amp; Science University (OHSU), Portland, Oregon
</celldesigner:state>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:7782"/></rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s87" id="s87" name="E2" compartment="c1" charge="0">
......@@ -10183,6 +10191,10 @@ Emek Demir, Oregon Health &amp; Science University (OHSU), Portland, Oregon
<rdf:li rdf:resource="urn:miriam:interpro:IPR012233"/>
</rdf:Bag>
</bqmodel:is>
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:fplx:PKC"/></rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
......@@ -10862,6 +10874,14 @@ Emek Demir, Oregon Health &amp; Science University (OHSU), Portland, Oregon
<celldesigner:catalyzed reaction="re11"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:5013"/></rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s784" id="s784" name="ABCC1" compartment="c1" initialAmount="0">
......@@ -10881,6 +10901,14 @@ Emek Demir, Oregon Health &amp; Science University (OHSU), Portland, Oregon
<celldesigner:catalyzed reaction="re17"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:51"/></rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s169" id="s169" name="proIL-18" compartment="c1" initialAmount="0" charge="0">
......@@ -11092,6 +11120,14 @@ Emek Demir, Oregon Health &amp; Science University (OHSU), Portland, Oregon
</celldesigner:state>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:16400"/></rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s538" id="s538" name="NLRP3 Elicitor Proteins" compartment="c1" initialAmount="0">
......@@ -11225,6 +11261,14 @@ Emek Demir, Oregon Health &amp; Science University (OHSU), Portland, Oregon
<celldesigner:catalyzed reaction="re96"/>
</celldesigner:listOfCatalyzedReactions>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:is>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:fplx:CK2"/></rdf:Bag>
</bqbiol:is>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s420" id="s420" name="TXN" compartment="c1" initialAmount="0" charge="0">
......@@ -18343,4 +18387,4 @@ Elicitor Proteins:
</reaction>
</listOfReactions>
</model>
</sbml>
</sbml>
\ No newline at end of file
......@@ -3910,6 +3910,14 @@ Ebru Kocakaya, Ankara University, Ankara, Turkey
</celldesigner:state>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:hgnc:7797"/></rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species metaid="s825" id="s825" name="NF-KB COMPLEX:IKBA" compartment="c2" initialAmount="0" charge="0">
......@@ -4461,6 +4469,14 @@ Ebru Kocakaya, Ankara University, Ankara, Turkey
</celldesigner:state>
</celldesigner:speciesIdentity>
</celldesigner:extension>
<rdf:RDF xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
<rdf:Description>