WikiPathways

From WikiPathways

Revision as of 00:20, 12 October 2011 by AlexanderPico (Talk | contribs)
Jump to: navigation, search


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...

Finding Pathways

Search

Browse

Browse by species and category

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

Contributing New Pathways

Create

Create a new pathway page

Suggest

Add a pathway to the wish list

Sample Pathway Pages

Sandbox

Play with the editor tools

Check out the following pages:

For more information see the Help pages


Today's Featured Pathway

Oxidative Stress (Homo sapiens)
invalid pathway title: exception 'Exception' with message 'Unable to convert to /var/www/wikipathways/images/9/94/WP408_45490.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/9/94/WP408_45490.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), 'Oxidative Stres...', 'https://www.wik...', 'Oxidative Stres...', 'center', 'pwthumb', '300')
  6. 5 [internal function]: renderPathwayImage(Object(Parser), 'Pathway:WP408', '300', 'center', 'Oxidative Stres...', 'pathway', 'Oxidative Stres...')
  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), 'Monday 30 Novem...', '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/Article.php(3406): Parser->parse('__NOEDITSECTION...', Object(Title), Object(ParserOptions), true, true, 45490)
  22. 21 /var/www/wikipathways/includes/Article.php(875): Article->outputWikiText('__NOEDITSECTION...', false)
  23. 22 /var/www/wikipathways/includes/Wiki.php(437): Article->view()
  24. 23 /var/www/wikipathways/includes/Wiki.php(59): MediaWiki->performAction(Object(OutputPage), Object(Article), Object(Title), Object(User), Object(WebRequest))
  25. 24 /var/www/wikipathways/index.php(93): MediaWiki->initialize(Object(Title), Object(Article), Object(OutputPage), Object(User), Object(WebRequest))
  26. 25 {main}

Latest discussions

19 November 2020
Updating reference info (1) by Denise Slenter
16 November 2020
Uploading pathways (1) by Denise Slenter
10 November 2020
Thanks for starting a new pathway! (1) by Anders Riutta
    more...

Forum

        more...

    New!

    Community Interest

    Portals within WikiPathways for communities with focused pathway interests:

    Want to start your own Portal? Contact us!

    Statistics

    • There are 2892 pathways
    • Number of pathways (and unique genes) per species:
    Acetobacterium woodii: 1 (0)
    Anopheles gambiae: 21 (428)
    Arabidopsis thaliana: 92 (956)
    Bacillus subtilis: 3 (14)
    Beta vulgaris: 1 (25)
    Bos taurus: 274 (3743)
    Caenorhabditis elegans: 66 (882)
    Canis familiaris: 112 (2820)
    Danio rerio: 105 (2708)
    Drosophila melanogaster: 35 (565)
    Escherichia coli: 12 (28)
    Equus caballus: 12 (200)
    Gallus gallus: 100 (2106)
    Glycine max: 1 (2)
    Gibberella zeae: 2 (0)
    Homo sapiens: 1235 (8626)
    Hordeum vulgare: 1 (9)
    Mus musculus: 229 (4985)
    Mycobacterium tuberculosis: 16 (132)
    Oryza sativa: 68 (535)
    Pan troglodytes: 115 (2910)
    Populus trichocarpa: 5 (0)
    Rattus norvegicus: 173 (3623)
    Saccharomyces cerevisiae: 135 (856)
    Solanum lycopersicum: 7 (5)
    Sus scrofa: 9 (65)
    Vitis vinifera: 1 (0)
    Zea mays: 58 (31)
    Plasmodium falciparum: 1 (0)
    Brassica napus: 2 (162)
    Personal tools