WikiPathways

From WikiPathways

(Difference between revisions)
Jump to: navigation, search
(fixed format)
(added oct update)
Line 84: Line 84:
* '''December 2016 Update''': 201 edits by 15 contributors this month.
* '''December 2016 Update''': 201 edits by 15 contributors this month.
* '''November 2016 Update''': 143 new human genes added to pathways this month.
* '''November 2016 Update''': 143 new human genes added to pathways this month.
 +
* '''October 2016 Update''': 12 new human pathways contributed this month.
* June 2016: Our Resource Description Framework API is described in [http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1004989 PLOS Comp Bio].
* June 2016: Our Resource Description Framework API is described in [http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1004989 PLOS Comp Bio].
* May 2016: Read about the Reactome pathways on this site in [http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1004941 PLOS Comp Bio].
* May 2016: Read about the Reactome pathways on this site in [http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1004941 PLOS Comp Bio].

Revision as of 23:07, 20 January 2017


We want your feedback! A quick survey to help us focus development and renew funding. https://www.surveymonkey.com/r/wikipathways

Welcome to WikiPathways BETA

WikiPathways is an open, public platform dedicated to the curation of biological pathways by and for the scientific community. More about WikiPathways...

Find Pathways

Search

Browse

Browse by species and category

You can search by:
  • Pathway name (Apoptosis)
  • Gene or protein name (p53)
  • Any page content (cancer)

Contribute New Pathways

Create

Create a new pathway page

Suggest

Add a pathway to the wish list

Explore Pathway Editing

Sandbox

Play with the editor tools

Check out the following pages:

For more information see our Help topics


Today's Featured Pathway

TCA Cycle (Krebs Cycle) (Arabidopsis thaliana)
invalid pathway title: exception 'Exception' with message 'Unable to convert to /var/www/wikipathways/images/c/c8/WP2624_91207.svg:
Status:1
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)


Command:java -Xmx1024M -jar /var/www/wikipathways/wpi/bin/pathvisio_core.jar "/var/www/wikipathways" "/var/www/wikipathways/images/c/c8/WP2624_91207.svg" 2>&1
' in /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php:1255 Stack trace:

  1. 0 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1227): Pathway::convertWithPathVisio(false, '/var/www/wikipa...')
  2. 1 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1137): Pathway->saveConvertedByPathVisioCache('svg')
  3. 2 /var/www/wikipathways/wpi/extensions/Pathways/Pathway.php(1153): Pathway->updateCache('svg')
  4. 3 /var/www/wikipathways/wpi/extensions/pathwayThumb.php(129): Pathway->getImage()
  5. 4 /var/www/wikipathways/wpi/extensions/pathwayThumb.php(53): makeThumbLinkObj(Object(Pathway), 'TCA Cycle (Kreb...', 'https://www.wik...', 'TCA Cycle (Kreb...', 'center', 'pwthumb', '300')
  6. 5 [internal function]: renderPathwayImage(Object(Parser), 'Pathway:WP2624', '300', 'center', 'TCA Cycle (Kreb...', 'pathway', 'TCA Cycle (Kreb...')
  7. 6 /var/www/wikipathways/includes/parser/Parser.php(2860): call_user_func_array('renderPathwayIm...', Array)
  8. 7 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPTemplateFrame_DOM))
  9. 8 /var/www/wikipathways/includes/parser/Parser.php(2986): PPFrame_DOM->expand(Object(PPNode_DOM))
  10. 9 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPFrame_DOM))
  11. 10 /var/www/wikipathways/includes/parser/Parser.php(2678): PPFrame_DOM->expand(Object(PPNode_DOM), 0)
  12. 11 /var/www/wikipathways/includes/parser/Parser.php(966): Parser->replaceVariables('{{Template:Toda...')
  13. 12 /var/www/wikipathways/includes/parser/Parser.php(439): Parser->internalParse('{{Template:Toda...')
  14. 13 /var/www/wikipathways/wpi/extensions/PathwayOfTheDay/PathwayOfTheDay.php(60): Parser->recursiveTagParse('{{Template:Toda...')
  15. 14 [internal function]: getPathwayOfTheDay(Object(Parser), 'Tuesday 22 Sept...', 'Curation:Featur...', 'true')
  16. 15 /var/www/wikipathways/includes/parser/Parser.php(2860): call_user_func_array('getPathwayOfThe...', Array)
  17. 16 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPFrame_DOM))
  18. 17 /var/www/wikipathways/includes/parser/Parser.php(2678): PPFrame_DOM->expand(Object(PPNode_DOM), 0)
  19. 18 /var/www/wikipathways/includes/parser/Parser.php(966): Parser->replaceVariables('__NOEDITSECTION...')
  20. 19 /var/www/wikipathways/includes/parser/Parser.php(321): Parser->internalParse('__NOEDITSECTION...')
  21. 20 /var/www/wikipathways/includes/OutputPage.php(405): Parser->parse('__NOEDITSECTION...', Object(Title), Object(ParserOptions), true, true, 91208)
  22. 21 /var/www/wikipathways/includes/OutputPage.php(391): OutputPage->addWikiTextTitle('__NOEDITSECTION...', Object(Title), true, true)
  23. 22 /var/www/wikipathways/includes/OutputPage.php(500): OutputPage->addWikiTextTitleTidy('__NOEDITSECTION...', Object(Title), true)
  24. 23 /var/www/wikipathways/includes/DifferenceEngine.php(313): OutputPage->addWikiTextTidy('__NOEDITSECTION...')
  25. 24 /var/www/wikipathways/includes/DifferenceEngine.php(271): DifferenceEngine->renderNewRevision()
  26. 25 /var/www/wikipathways/includes/Article.php(729): DifferenceEngine->showDiffPage(false)
  27. 26 /var/www/wikipathways/includes/Wiki.php(437): Article->view()
  28. 27 /var/www/wikipathways/includes/Wiki.php(59): MediaWiki->performAction(Object(OutputPage), Object(Article), Object(Title), Object(User), Object(WebRequest))
  29. 28 /var/www/wikipathways/index.php(93): MediaWiki->initialize(Object(Title), Object(Article), Object(OutputPage), Object(User), Object(WebRequest))
  30. 29 {main}

Updates

  • January 2017 Update: 25 new human pathways with 181 new genes. Download
  • December 22: Blog post about our translation of mouse pathways.
  • December 2016 Update: 201 edits by 15 contributors this month.
  • November 2016 Update: 143 new human genes added to pathways this month.
  • October 2016 Update: 12 new human pathways contributed this month.
  • June 2016: Our Resource Description Framework API is described in PLOS Comp Bio.
  • May 2016: Read about the Reactome pathways on this site in PLOS Comp Bio.
  • Check our TissueAnalyzer page to study pathway activity in different tissues.
  • Want to add your ORCID id to your WikiPathways account? Find out how to do it!
  • Include an interactive pathway image on your own blog/website

Discussions

18 September 2020
WP4965 (1) by Denise Slenter
25 August 2020
Welcome new user (7) by Susan Coort
    more...

Forum

        Google group wikipathways-discuss
    Personal tools