Vitamin D Metabolism (Homo sapiens)

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(Modified description)
Current revision (12:08, 16 August 2019) (view source)
(HMDB identifier normalization)
 
Line 6: Line 6:
   <Comment Source="WikiPathways-category">Metabolic Process</Comment>
   <Comment Source="WikiPathways-category">Metabolic Process</Comment>
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      <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">CL:0000182</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">Cell Type</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="cab">
     <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="cab">
       <bp:ID rdf:datatype="http://www.w3.org/2001/XMLSchema#string">20736230</bp:ID>
       <bp:ID rdf:datatype="http://www.w3.org/2001/XMLSchema#string">20736230</bp:ID>
Line 418: Line 421:
     </bp:PublicationXref>
     </bp:PublicationXref>
     <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#">
     <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">skin fibroblast</bp:TERM>
+
       <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">rickets</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">CL:0002620</bp:ID>
+
       <bp:ID xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">DOID:10609</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">Cell Type</bp:Ontology>
+
       <bp:Ontology xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Disease</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">osteomalacia</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">DOID:10573</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">Disease</bp:Ontology>
     </bp:openControlledVocabulary>
     </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="f3f">
     <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="f3f">
Line 430: Line 438:
       <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Norman AW</bp:AUTHORS>
       <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Norman AW</bp:AUTHORS>
     </bp:PublicationXref>
     </bp:PublicationXref>
-
     <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="cfc">
+
    <bp:openControlledVocabulary xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#">
-
       <bp:ID rdf:datatype="http://www.w3.org/2001/XMLSchema#string">11111101 </bp:ID>
+
      <bp:TERM xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:datatype="http://www.w3.org/2001/XMLSchema#string">hepatocyte</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">CL:0000182</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">Cell Type</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="def">
 +
       <bp:ID rdf:datatype="http://www.w3.org/2001/XMLSchema#string">15128933</bp:ID>
       <bp:DB rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PubMed</bp:DB>
       <bp:DB rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PubMed</bp:DB>
-
       <bp:TITLE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Biochemical and genetic aspects of 7-dehydrocholesterol reductase and Smith-Lemli-Opitz syndrome</bp:TITLE>
+
       <bp:TITLE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Genetic evidence that the human CYP2R1 enzyme is a key vitamin D 25-hydroxylase.</bp:TITLE>
-
       <bp:SOURCE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Biochim Biophys Acta. 2000 Dec 15;1529(1-3):340-56</bp:SOURCE>
+
       <bp:SOURCE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Proc Natl Acad Sci U S A</bp:SOURCE>
-
       <bp:YEAR rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2000</bp:YEAR>
+
      <bp:YEAR rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2004</bp:YEAR>
-
       <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Waterham HR, Wanders RJ</bp:AUTHORS>
+
      <bp:ID rdf:datatype="http://www.w3.org/2001/XMLSchema#string">15128933</bp:ID>
 +
      <bp:DB rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PubMed</bp:DB>
 +
      <bp:TITLE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Genetic evidence that the human CYP2R1 enzyme is a key vitamin D 25-hydroxylase.</bp:TITLE>
 +
      <bp:SOURCE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Proc Natl Acad Sci U S A</bp:SOURCE>
 +
       <bp:YEAR rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2004</bp:YEAR>
 +
       <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Cheng JB</bp:AUTHORS>
 +
      <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Levine MA</bp:AUTHORS>
 +
      <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Bell NH</bp:AUTHORS>
 +
      <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Mangelsdorf DJ</bp:AUTHORS>
 +
      <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Russell DW</bp:AUTHORS>
     </bp:PublicationXref>
     </bp:PublicationXref>
-
     <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="ca1">
+
     <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="d5b">
-
       <bp:ID rdf:datatype="http://www.w3.org/2001/XMLSchema#string">20541252</bp:ID>
+
       <bp:ID rdf:datatype="http://www.w3.org/2001/XMLSchema#string">11111101</bp:ID>
       <bp:DB rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PubMed</bp:DB>
       <bp:DB rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PubMed</bp:DB>
-
       <bp:TITLE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Common genetic determinants of vitamin D insufficiency: a genome-wide association study</bp:TITLE>
+
       <bp:TITLE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Biochemical and genetic aspects of 7-dehydrocholesterol reductase and Smith-Lemli-Opitz syndrome.</bp:TITLE>
-
       <bp:SOURCE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Lancet,376:180-188</bp:SOURCE>
+
       <bp:SOURCE rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Biochim Biophys Acta</bp:SOURCE>
-
       <bp:YEAR rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2010</bp:YEAR>
+
       <bp:YEAR rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2000</bp:YEAR>
-
       <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Thomas J Wang*, Feng Zhang*, J Brent Richards*, Bryan Kestenbaum*, Joyce B van Meurs*, Diane Berry*, Douglas P Kiel, Elizabeth A Streeten,&#13;
+
       <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Waterham HR</bp:AUTHORS>
-
Claes Ohlsson, Daniel L Koller, Leena Peltonen†, Jason D Cooper, Paul F O’Reilly, Denise K Houston, Nicole L Glazer, Liesbeth Vandenput, Munro Peacock,&#13;
+
      <bp:AUTHORS rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Wanders RJ</bp:AUTHORS>
-
Julia Shi, Fernando Rivadeneira, Mark I McCarthy, Pouta Anneli, Ian H de Boer, Massimo Mangino, Bernet Kato, Deborah J Smyth, Sarah L Booth,&#13;
+
-
Paul F Jacques, Greg L Burke, Mark Goodarzi, Ching-Lung Cheung, Myles Wolf, Kenneth Rice, David Goltzman, Nick Hidiroglou, Martin Ladouceur,&#13;
+
-
Nicholas J Wareham, Lynne J Hocking, Deborah Hart, Nigel K Arden, Cyrus Cooper, Suneil Malik, William D Fraser, Anna-Liisa Hartikainen,&#13;
+
-
Guangju Zhai, Helen M Macdonald, Nita G Forouhi, Ruth J F Loos, David M Reid, Alan Hakim, Elaine Dennison, Yongmei Liu, Chris Power,&#13;
+
-
Helen E Stevens, Laitinen Jaana, Ramachandran S Vasan, Nicole Soranzo, Jörg Bojunga, Bruce M Psaty, Mattias Lorentzon, Tatiana Foroud,&#13;
+
-
Tamara B Harris, Albert Hofman, John-Olov Jansson, Jane A Cauley, Andre G Uitterlinden, Quince Gibson, Marjo-Riitta Järvelin, David Karasik,&#13;
+
-
David S Siscovick, Michael J Econs, Stephen B Kritchevsky, Jose C Florez, John A Todd*, Josee Dupuis*, Elina Hyppönen*, Timothy D Spector*</bp:AUTHORS>
+
     </bp:PublicationXref>
     </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">kidney cell</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">CL:1000497</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">Cell Type</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">rickets</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">DOID:10609</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">Disease</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">vitamin D metabolic 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:0001011</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>
   </Biopax>
</Pathway>
</Pathway>

Current revision

Error rendering pathway page

This revision of the pathway probably contains invalid GPML code. If this happens to the most recent revision, try reverting the pathway using the pathway history displayed below or contact the site administrators (see WikiPathways:About) to resolve this problem.

Pathway history

View all...
CompareRevisionActionTimeUserComment
106185view12:08, 16 August 2019MaintBotHMDB identifier normalization
105853view23:17, 15 August 2019KhanspersModified description
104243view15:25, 11 May 2019EgonwRemoved the RHEA: prefix from the identifier.
103420view09:22, 28 February 2019DeSlAdded rhea to reaction from 7-DH-cholesterol to cholesterol+MIM-modification to MIM-conversion; changed ID for previtamin D3 from HMDb to ChEBI; changed MIMconversion to MImmodification for reaction with sunlight.
101956view09:20, 21 November 2018DeSlChanged layout for readability.
101955view09:08, 21 November 2018DeSlRemoved licence number
96858view23:32, 14 April 2018AlexanderPicoReverted to version '19:53, 15 September 2015' by AlexanderPico
96825view00:37, 11 April 2018Artoria2e5Modified description
96824view00:36, 11 April 2018Artoria2e5Modified description
82221view02:53, 16 September 2015AlexanderPicofixing arrowheads for biopax conversion
74057view10:23, 26 March 2014Mkutmonfixed unconnected lines, layout
73558view22:18, 31 January 2014MaintBotremoves comments
71552view19:26, 17 October 2013MaintBotUpdated data sources
70322view10:11, 17 July 2013EveloModified title
70034view01:59, 12 July 2013AlexanderPicoModified title
69840view15:25, 11 July 2013EveloOntology Term : 'osteomalacia' added !
68004view06:19, 29 June 2013EgonwMarked the VitD-binding protein as Protein (hoping that will fix the link to Uniprot/TrEMBL)
67745view11:57, 26 June 2013DdiglesOntology Term : 'vitamin D metabolic pathway' added !
46487view10:03, 2 February 2012LribeiroPeriodical save, work in progress
46379view00:36, 24 January 2012KhanspersOntology Term : 'kidney cell' added !
46378view00:35, 24 January 2012KhanspersOntology Term : 'hepatocyte' added !
46377view00:35, 24 January 2012KhanspersOntology Term : 'skin fibroblast' added !
46376view00:26, 24 January 2012KhanspersAdded xrefs, connected lines, changed graphical style
45011view17:49, 6 October 2011KhanspersOntology Term : 'rickets' added !
45010view17:45, 6 October 2011KhanspersOntology Term : 'metabolic pathway of cofactors and vitamins' added !
42790view12:53, 30 April 2011LribeiroPeriodical save, work in progress
42789view12:34, 30 April 2011LribeiroPeriodical save, work in progress
42788view12:24, 30 April 2011LribeiroPeriodical save, work in progress
42787view12:03, 30 April 2011LribeiroPeriodical save, work in progress
42786view11:24, 30 April 2011LribeiroPeriodical save, work in progress
42785view11:14, 30 April 2011LribeiroPeriodical save, work in progress
42784view11:04, 30 April 2011LribeiroPeriodical save, work in progress
42778view19:31, 29 April 2011LribeiroPeriodical save, work in progress
42777view19:20, 29 April 2011LribeiroModified description
42776view19:16, 29 April 2011LribeiroPeriodical save, work in progress
42775view19:03, 29 April 2011LribeiroPeriodical save, work in progress
42774view18:53, 29 April 2011LribeiroPeriodical save, work in progress
42773view18:42, 29 April 2011LribeiroPeriodical save, work in progress
41192view23:43, 1 March 2011MaintBotRemoved redundant pathway information and comments
38456view18:18, 14 September 2010KhanspersChanged spacing and layout
38455view18:17, 14 September 2010KhanspersPeriodical save, work in progress
38443view22:26, 13 September 2010KhanspersUpdated xref for CYP2R1
38440view09:37, 13 September 2010MartijnVanIerselTurned metabolites into circles
38425view01:43, 11 September 2010AlexanderPicorearranged layout
38424view23:19, 10 September 2010KhanspersMinor layout change
38423view23:16, 10 September 2010Khanspersminor layout
38422view22:58, 10 September 2010KhanspersAdded cell shapes, changed lines and datanode sizing
38421view22:51, 10 September 2010KhanspersPeriodical save, work in progress
38420view22:41, 10 September 2010KhanspersPeriodical save, work in progress
38419view22:31, 10 September 2010KhanspersPeriodical save, work in progress

Error details

exception 'Exception' with message 'Unable to convert to /var/www/wikipathways/images/7/79/WP1531_prev.svg:
<BR>Status:1
<BR>Message:Exception in thread "main" java.lang.NullPointerException
	at org.pathvisio.core.Engine.getPathwayImporters(Unknown Source)
	at org.pathvisio.core.Engine.importPathway(Unknown Source)
	at org.pathvisio.core.util.Converter.main(Unknown Source)

<BR>Command:java -Xmx1024M -jar /var/www/wikipathways/wpi/bin/pathvisio_core.jar "/var/www/wikipathways" "/var/www/wikipathways/images/7/79/WP1531_prev.svg" 2>&1<BR>' in /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php:1255
Stack trace:
#0 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1227): Pathway::convertWithPathVisio(false, '/var/www/wikipa...')
#1 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1137): Pathway->saveConvertedByPathVisioCache('svg')
#2 /var/www/wikipathways/wpi/extensions/Pathways/PathwayPage.php(21): Pathway->updateCache('svg')
#3 [internal function]: renderPathwayPage(Object(Parser), '<?xml version="...', Object(StripState))
#4 /var/www/wikipathways/includes/Hooks.php(125): call_user_func_array('renderPathwayPa...', Array)
#5 /var/www/wikipathways/includes/parser/Parser.php(318): wfRunHooks('ParserBeforeStr...', Array)
#6 /var/www/wikipathways/includes/OutputPage.php(405): Parser->parse('<?xml version="...', Object(Title), Object(ParserOptions), true, true, 106185)
#7 /var/www/wikipathways/includes/OutputPage.php(391): OutputPage->addWikiTextTitle('<?xml version="...', Object(Title), true, true)
#8 /var/www/wikipathways/includes/OutputPage.php(500): OutputPage->addWikiTextTitleTidy('<?xml version="...', Object(Title), true)
#9 /var/www/wikipathways/includes/DifferenceEngine.php(313): OutputPage->addWikiTextTidy('<?xml version="...')
#10 /var/www/wikipathways/includes/DifferenceEngine.php(271): DifferenceEngine->renderNewRevision()
#11 /var/www/wikipathways/includes/Article.php(729): DifferenceEngine->showDiffPage(false)
#12 /var/www/wikipathways/includes/Wiki.php(437): Article->view()
#13 /var/www/wikipathways/includes/Wiki.php(59): MediaWiki->performAction(Object(OutputPage), Object(Article), Object(Title), Object(User), Object(WebRequest))
#14 /var/www/wikipathways/index.php(93): MediaWiki->initialize(Object(Title), Object(Article), Object(OutputPage), Object(User), Object(WebRequest))
#15 {main}
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