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BIOMD0000000504.xml
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BIOMD0000000504.xml
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<?xml version='1.0' encoding='UTF-8' standalone='no'?>
<!-- This model was downloaded from BioModels Database -->
<!-- Wed May 14 05:21:21 BST 2014 -->
<!-- http://www.ebi.ac.uk/biomodels/ -->
<sbml xmlns="http://www.sbml.org/sbml/level2/version4" level="2" metaid="_05825f57-b51a-495a-a2fa-4e378a8d24da" version="4">
<model id="MODEL1305280001" name="Proctor2013 - Cartilage breakdown, interventions to reduce collagen release" metaid="_16b8f9b2_e92d_4013_9497_5a1b623e559f">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<div class="dc:title">Proctor2013 - Cartilage breakdown, interventions to reduce collagen release</div>
<div class="dc:description"> <p>The molecular pathways involved in cartilage breakdown is studied using this model to examine possible interventions to reduce cartilage collagen release. The model contains three separate submodels, one which describes the IL-1/JNK signalling pathway, secondly the OSM/STAT3 signalling pathway, and lastly a module which includes proMMP (Matrix matalloproteinase) activation, and aggrecan and collagen release.</p>
</div>
<div class="dc:bibliographicCitation"> <p>This model is described in the article:</p>
<div class="bibo:title"> <a href="http://identifiers.org/pubmed/24285357" title="Access to this publication">A computer simulation approach for assessing therapeutic intervention points to prevent cytokine-induced cartilage breakdown.</a>
</div>
<div class="bibo:authorList">Proctor CJ, Macdonald C, Milner JM, Rowan AD, Cawston TE.</div>
<div class="bibo:Journal">Arthritis Rheum. 2013 Nov 27.</div>
<p>Abstract:</p>
<div class="bibo:abstract"> <p>Objective. To use a novel computational approach to examine the molecular pathways involved in cartilage breakdown and to use computer simulation to test possible interventions to reduce collagen release. Methods. We constructed a computational model of the relevant molecular pathways using the Systems Biology Markup Language (SBML), a computer-readable format of a biochemical network. The model was constructed using our experimental data showing that interleukin-1 (IL-1) and oncostatin M (OSM) act synergistically to up-regulate collagenase protein and activity and initiate cartilage collagen breakdown. Simulations were performed in the COPASI software package. Results. The model predicted that simulated inhibition of c-Jun N-terminal kinase (JNK) or p38 mitogen-activated protein kinase, and over-expression of tissue inhibitor of metalloproteinases 3 (TIMP-3) led to a reduction in collagen release. Over-expression of TIMP-1 was much less effective than TIMP-3 and led to a delay, rather than a reduction, in collagen release. Simulated interventions of receptor antagonists and inhibition of Janus kinase 1 (JAK1), the first kinase in the OSM pathway, were ineffective. So, importantly, the model predicts that it is more effective to intervene at targets which are downstream, such as the JNK pathway, rather than close to the cytokine signal. In vitro experiments confirmed the effectiveness of JNK inhibition. Conclusion. Our study shows the value of computer modelling as a tool for examining possible interventions to reduce cartilage collagen breakdown. The model predicts interventions that either prevent transcription or inhibit activity of collagenases are promising strategies and should be investigated further in an experimental setting. © 2013 American College of Rheumatology.</p>
</div>
</div>
<div class="dc:publisher"> <p>This model is hosted on <a href="http://www.ebi.ac.uk/biomodels/">BioModels Database</a>
and identified
by: <a href="http://identifiers.org/biomodels.db/BIOMD0000000504">BIOMD0000000504</a>
. </p>
<p>To cite BioModels Database, please use: <a href="http://identifiers.org/pubmed/20587024" title="Latest BioModels Database publication">BioModels Database: An enhanced, curated and annotated resource
for published quantitative kinetic models</a>
. </p>
</div>
<div class="dc:license"> <p>To the extent possible under law, all copyright and related or
neighbouring rights to this encoded model have been dedicated to the public
domain worldwide. Please refer to <a href="http://creativecommons.org/publicdomain/zero/1.0/" title="Access to: CC0 1.0 Universal (CC0 1.0), Public Domain Dedication">CC0 Public Domain
Dedication</a>
for more information. </p>
</div>
</body>
</notes>
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<rdf:li rdf:resource="http://identifiers.org/uniprot/P05412"/>
</rdf:Bag>
</bqbiol:encodes>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="DUSP16" initialAmount="0" hasOnlySubstanceUnits="true" metaid="_84d92f18-88f2-41bf-9d01-146238883e42" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_84d92f18-88f2-41bf-9d01-146238883e42">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/Q9BY84"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="IRAK2" initialAmount="100" hasOnlySubstanceUnits="true" metaid="b333a5ee-4a34-4788-b236-d909d0c169e2" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#b333a5ee-4a34-4788-b236-d909d0c169e2">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/O43187"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="IRAK2_TRAF6" initialAmount="0" hasOnlySubstanceUnits="true" metaid="_7c51685d-0a47-4bcd-ab3d-75c137bd4f48" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_7c51685d-0a47-4bcd-ab3d-75c137bd4f48">
<bqbiol:hasPart>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/O43187"/>
<rdf:li rdf:resource="http://identifiers.org/uniprot/Q9Y4K3"/>
</rdf:Bag>
</bqbiol:hasPart>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="IRAK2_TRAF6_PP4" initialAmount="0" hasOnlySubstanceUnits="true" metaid="_4455b4b2-e891-4c38-bfea-a75471bbcbaa" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_4455b4b2-e891-4c38-bfea-a75471bbcbaa">
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<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/Q9Y4K3"/>
<rdf:li rdf:resource="http://identifiers.org/uniprot/O43187"/>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P60510"/>
</rdf:Bag>
</bqbiol:hasPart>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="JAK1" initialAmount="100" hasOnlySubstanceUnits="true" metaid="_3b1f8896-d993-4d3a-b76a-b896e221e270" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_3b1f8896-d993-4d3a-b76a-b896e221e270">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P23458"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="JAK1_P" initialAmount="0" hasOnlySubstanceUnits="true" metaid="cfcb13e4-c2f6-49d6-89e6-99500d6c3149" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#cfcb13e4-c2f6-49d6-89e6-99500d6c3149">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P23458"/>
<rdf:li rdf:resource="http://identifiers.org/pubchem.compound/3842"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="JNK" initialAmount="100" hasOnlySubstanceUnits="true" metaid="_09f93b5a-9c9f-49c2-af10-6b337fbeec52" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_09f93b5a-9c9f-49c2-af10-6b337fbeec52">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P45983"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="JNK_P" initialAmount="0" hasOnlySubstanceUnits="true" metaid="bb6dd5c5-c9b0-4185-b06b-d42e64ed6a66" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#bb6dd5c5-c9b0-4185-b06b-d42e64ed6a66">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P45983"/>
<rdf:li rdf:resource="http://identifiers.org/pubchem.compound/3842"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="Matriptase" initialAmount="100" hasOnlySubstanceUnits="true" metaid="_1547a94d-9598-4c28-b22e-61a3f40ea009" compartment="cytoplasm">
<notes>
<p xmlns="http://www.w3.org/1999/xhtml">
Matriptase is referred to as MMPActivator in the paper.</p>
</notes>
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_1547a94d-9598-4c28-b22e-61a3f40ea009">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/Q9Y5Y6"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="MKP1" initialAmount="0" hasOnlySubstanceUnits="true" metaid="e7159d89-49be-427e-a3f2-6d3ad330f1ac" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#e7159d89-49be-427e-a3f2-6d3ad330f1ac">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P28562"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="MMP1_mRNA" initialAmount="0" hasOnlySubstanceUnits="true" metaid="a9aad317-f67a-4491-abcd-7e72b7d4b57b" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#a9aad317-f67a-4491-abcd-7e72b7d4b57b">
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/ensembl/ENSG00000196611"/>
</rdf:Bag>
</bqbiol:isEncodedBy>
<bqbiol:encodes>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P03956"/>
</rdf:Bag>
</bqbiol:encodes>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="MMP3_mRNA" initialAmount="0" hasOnlySubstanceUnits="true" metaid="f7f0f3e4-1ff9-452b-8613-cb6d9b21e534" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#f7f0f3e4-1ff9-452b-8613-cb6d9b21e534">
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/ensembl/ENSG00000149968"/>
</rdf:Bag>
</bqbiol:isEncodedBy>
<bqbiol:encodes>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P08254"/>
</rdf:Bag>
</bqbiol:encodes>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="MMP13_mRNA" initialAmount="0" hasOnlySubstanceUnits="true" metaid="_7682b8c4-a6e7-4c6d-8c65-5368c7fa710a" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_7682b8c4-a6e7-4c6d-8c65-5368c7fa710a">
<bqbiol:encodes>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P45452"/>
</rdf:Bag>
</bqbiol:encodes>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/ensembl/ENSG00000137745"/>
</rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="p38" initialAmount="100" hasOnlySubstanceUnits="true" metaid="fabdcbef-10d3-4703-b054-68d426f53fd9" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#fabdcbef-10d3-4703-b054-68d426f53fd9">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/Q15759"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="p38_P" initialAmount="0" hasOnlySubstanceUnits="true" metaid="d00cf64d-d401-4a83-be94-7e7a3a13926b" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#d00cf64d-d401-4a83-be94-7e7a3a13926b">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/Q15759"/>
<rdf:li rdf:resource="http://identifiers.org/pubchem.compound/3842"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="PP4" initialAmount="0" hasOnlySubstanceUnits="true" metaid="_1a175dfe-c6d8-4dfb-abd3-9efe98ca1f90" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_1a175dfe-c6d8-4dfb-abd3-9efe98ca1f90">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P60510"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="proMMP1" initialAmount="0" hasOnlySubstanceUnits="true" metaid="_7cee460c-95cc-4745-bc98-e9f02e43e008" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_7cee460c-95cc-4745-bc98-e9f02e43e008">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P03956"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="proMMP3" initialAmount="0" hasOnlySubstanceUnits="true" metaid="f564220a-b615-4ee7-9ce6-b399140d58b8" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#f564220a-b615-4ee7-9ce6-b399140d58b8">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P08254"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="proMMP13" initialAmount="0" hasOnlySubstanceUnits="true" metaid="dd05ceb9-d460-49d1-ad59-0ae1f016b13e" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#dd05ceb9-d460-49d1-ad59-0ae1f016b13e">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P45452"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="PTPRT" initialAmount="0" hasOnlySubstanceUnits="true" metaid="da5ef079-b7f9-4c63-9bff-c5b265e85275" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#da5ef079-b7f9-4c63-9bff-c5b265e85275">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/O14522"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="SOCS3" initialAmount="0" hasOnlySubstanceUnits="true" metaid="_088fd434-6864-4f70-a593-fc0c6a4ffab3" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_088fd434-6864-4f70-a593-fc0c6a4ffab3">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/O14543"/>
</rdf:Bag>
</bqbiol:isVersionOf>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="SOCS3_mRNA" initialAmount="0" hasOnlySubstanceUnits="true" metaid="_954199dc-28cd-4abd-9418-31dd2a005e88" sboTerm="SBO:0000278" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_954199dc-28cd-4abd-9418-31dd2a005e88">
<bqbiol:encodes>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/O14543"/>
</rdf:Bag>
</bqbiol:encodes>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/ensembl/ENSG00000184557"/>
</rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="STAT3_cyt" initialAmount="100" hasOnlySubstanceUnits="true" metaid="_59b4e499-41a3-4c6f-b38d-abb73c26d43a" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_59b4e499-41a3-4c6f-b38d-abb73c26d43a">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P40763"/>
</rdf:Bag>
</bqbiol:isVersionOf>
<bqbiol:occursIn>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/go/GO:0005737"/>
</rdf:Bag>
</bqbiol:occursIn>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="STAT3_P_cyt" initialAmount="0" hasOnlySubstanceUnits="true" metaid="a1640127-e05b-4dea-99e0-1fdfbd96a2b6" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#a1640127-e05b-4dea-99e0-1fdfbd96a2b6">
<bqbiol:isVersionOf>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P40763"/>
<rdf:li rdf:resource="http://identifiers.org/pubchem.compound/3842"/>
</rdf:Bag>
</bqbiol:isVersionOf>
<bqbiol:occursIn>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/go/GO:0005737"/>
</rdf:Bag>
</bqbiol:occursIn>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="TIMP1_mRNA" initialAmount="20" hasOnlySubstanceUnits="true" metaid="cbb5a734-1250-4e28-a6c0-a57c5aa9dc0a" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#cbb5a734-1250-4e28-a6c0-a57c5aa9dc0a">
<bqbiol:encodes>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P01033"/>
</rdf:Bag>
</bqbiol:encodes>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/ensembl/ENSG00000102265"/>
</rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="TIMP3_mRNA" initialAmount="20" hasOnlySubstanceUnits="true" metaid="_5c05cf0b-8779-443c-98db-c801f3bc508c" compartment="cytoplasm">
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_5c05cf0b-8779-443c-98db-c801f3bc508c">
<bqbiol:encodes>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/uniprot/P35625"/>
</rdf:Bag>
</bqbiol:encodes>
<bqbiol:isEncodedBy>
<rdf:Bag>
<rdf:li rdf:resource="http://identifiers.org/ensembl/ENSG00000100234"/>
</rdf:Bag>
</bqbiol:isEncodedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</species>
<species id="TRAF6" initialAmount="100" hasOnlySubstanceUnits="true" metaid="_31e9ee7f-4deb-4026-acb5-8058f46e1833" compartment="cytoplasm">
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