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Update JSON, SVG, PNG, TSV and GPML files
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actions-user committed Jan 28, 2024
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154 changes: 77 additions & 77 deletions pathways/WP1403/WP1403-datanodes.tsv
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256 changes: 128 additions & 128 deletions pathways/WP1403/WP1403.gpml
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1,128 changes: 690 additions & 438 deletions pathways/WP1403/WP1403.json
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238 changes: 119 additions & 119 deletions pathways/WP1403/WP1403.svg
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222 changes: 111 additions & 111 deletions pathways/WP1772/WP1772-datanodes.tsv
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37 changes: 18 additions & 19 deletions pathways/WP1772/WP1772.gpml
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Original file line number Diff line number Diff line change
@@ -1,7 +1,6 @@
<?xml version="1.0" encoding="UTF-8"?>
<Pathway xmlns="http://pathvisio.org/GPML/2013a" Name="Apoptosis modulation and signaling" Data-Source="WikiPathways" Version="WP1772_r126407" Author="[Felix555, Khanspers, Frances55, MartijnVanIersel, MaintBot, Egonw, Zari, MirellaKalafati, AlexanderPico, Ryanmiller, Marvin M2, Fehrhart, Ariutta, Ddomingof, Eweitz]" Last-Modified="20230426194505" Organism="Homo sapiens">
<Comment Source="WikiPathways-description">Apoptosis, or cell death program, can be activated by various mechanisms within the extrinsic and the intrinsic pathway. While activation of cell death receptors leads to the engagement of the extrinsic pathway, the intrinsic pathway is activated by mitochondria during cellular stress, both
resulting in an activation of caspases.
<Pathway xmlns="http://pathvisio.org/GPML/2013a" Name="Apoptosis modulation and signaling" Data-Source="WikiPathways" Version="WP1772_r128132" Author="[Felix555, Khanspers, Frances55, MartijnVanIersel, MaintBot, Egonw, Zari, MirellaKalafati, AlexanderPico, Ryanmiller, Marvin M2, Fehrhart, Ariutta, Ddomingof, Eweitz]" Last-Modified="20240127140231" Organism="Homo sapiens">
<Comment Source="WikiPathways-description">Apoptosis, or cell death program, can be activated by various mechanisms within the extrinsic and the intrinsic pathway. While activation of cell death receptors leads to the engagement of the extrinsic pathway, the intrinsic pathway is activated by mitochondria during cellular stress, both resulting in an activation of caspases.
In the present pathway we emphasized the activation of caspases by those two pathways in pancreatic cancer (PDAC) cells. Please notice, that PDAC cells are so called type-II cells. In these cells the activation of cell death receptors is not sufficient to activated caspases. By cleavage of Bid, type-II cells activate the intrinsic pathway as "amplification loop".

Proteins on this pathway have targeted assays available via the [https://assays.cancer.gov/available_assays?wp_id=WP1772 CPTAC Assay Portal]</Comment>
Expand All @@ -13,7 +12,7 @@ Proteins on this pathway have targeted assays available via the [https://assays.
<Attribute Key="org.pathvisio.model.BackpageHead" Value="JNK" />
<Attribute Key="org.pathvisio.model.GenMAPP-Xref" Value="" />
<Graphics CenterX="770.0" CenterY="836.9999999999995" Width="40.0" Height="20.0" ZOrder="32768" FontSize="10" Valign="Middle" />
<Xref Database="HGNC" ID="MAPK8"/>
<Xref Database="HGNC" ID="MAPK8" />
</DataNode>
<DataNode TextLabel="Ca2+" GraphId="a91e8" Type="Metabolite">
<Graphics CenterX="653.9999999999997" CenterY="282.6666666666667" Width="52.00000000000005" Height="20.0" ZOrder="32768" FontSize="10" Valign="Middle" Color="0000ff" />
Expand Down Expand Up @@ -1453,6 +1452,11 @@ Proteins on this pathway have targeted assays available via the [https://assays.
<Group GroupId="e0c0f" GraphId="fd805" Style="Group" />
<InfoBox CenterX="871.6666666666666" CenterY="725.0" />
<Biopax>
<bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#">
<bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">regulatory pathway</bp:TERM>
<bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0000004</bp:ID>
<bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology>
</bp:openControlledVocabulary>
<bp:PublicationXref xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:id="bc6">
<bp:ID rdf:datatype="http://www.w3.org/2001/XMLSchema#string">20808857</bp:ID>
<bp:DB rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PubMed</bp:DB>
Expand All @@ -1474,6 +1478,16 @@ Proteins on this pathway have targeted assays available via the [https://assays.
<bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pilarsky C</bp:AUTHORS>
<bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Grأ¼tzmann R</bp:AUTHORS>
</bp:PublicationXref>
<bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#">
<bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">signaling pathway</bp:TERM>
<bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0000003</bp:ID>
<bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology>
</bp:openControlledVocabulary>
<bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#">
<bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">apoptotic cell death pathway</bp:TERM>
<bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0000009</bp:ID>
<bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology>
</bp:openControlledVocabulary>
<bp:PublicationXref xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:id="cda">
<bp:ID rdf:datatype="http://www.w3.org/2001/XMLSchema#string">17404574</bp:ID>
<bp:DB rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PubMed</bp:DB>
Expand All @@ -1485,21 +1499,6 @@ Proteins on this pathway have targeted assays available via the [https://assays.
<bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Bronk SF</bp:AUTHORS>
<bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Gores GJ</bp:AUTHORS>
</bp:PublicationXref>
<bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#">
<bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">apoptotic cell death pathway</bp:TERM>
<bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0000009</bp:ID>
<bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology>
</bp:openControlledVocabulary>
<bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#">
<bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">regulatory pathway</bp:TERM>
<bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0000004</bp:ID>
<bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology>
</bp:openControlledVocabulary>
<bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#">
<bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">signaling pathway</bp:TERM>
<bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PW:0000003</bp:ID>
<bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Pathway Ontology</bp:Ontology>
</bp:openControlledVocabulary>
</Biopax>
</Pathway>

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