WikiPathways

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<h2 class="frontPagePanel greenFg">Today's Featured Pathway</h2>{{ #pathwayOfTheDay: {{LOCALDAYNAME}} {{LOCALDAY}} {{LOCALMONTHNAME}} {{LOCALYEAR}} }}
<h2 class="frontPagePanel greenFg">Today's Featured Pathway</h2>{{ #pathwayOfTheDay: {{LOCALDAYNAME}} {{LOCALDAY}} {{LOCALMONTHNAME}} {{LOCALYEAR}} }}
<h2 class="frontPagePanel greenFg">New!</h2>
<h2 class="frontPagePanel greenFg">New!</h2>
 +
*Redesigned group appearance and selection, try it out in the [[Pathway:Homo sapiens:Sandbox| sandbox pathway]]!
*WikiPathways article published in [http://0-dx.doi.org.ilsprod.lib.neu.edu/10.1371/journal.pbio.0060184 PLoS Biology]!
*WikiPathways article published in [http://0-dx.doi.org.ilsprod.lib.neu.edu/10.1371/journal.pbio.0060184 PLoS Biology]!
*New species added: '''[[wikipedia:Danio_rerio|Danio rerio]]'''
*New species added: '''[[wikipedia:Danio_rerio|Danio rerio]]'''

Revision as of 14:13, 21 August 2008

<analytics uacct="UA-1605246-1" ></analytics>


Welcome to WikiPathways BETA

In the new tradition of Wikipedia, 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{{#googleCoop:}} Browse
Title error

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
Title error

Create a new pathway page

Suggest
Title error

Add a pathway to the wish list

Sample Pathway Pages

Sandbox
Sandbox

Play with the editor tools

Check out the following pages:

For more information see the Help pages


Today's Featured Pathway

Fatty Acid Elongation, Saturated (Saccharomyces cerevisiae)
invalid pathway title: exception 'Exception' with message 'Unable to convert to /var/www/wikipathways/images/a/a7/WP380_18453.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/a/a7/WP380_18453.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), 'Fatty Acid Elon...', 'https://www.wik...', 'Fatty Acid Elon...', 'center', 'pwthumb', '300')
  6. 5 [internal function]: renderPathwayImage(Object(Parser), 'Pathway:WP380', '300', 'center', 'Fatty Acid Elon...', 'pathway', 'Fatty Acid Elon...')
  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 6 April ...')
  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('<analytics uacc...')
  20. 19 /var/www/wikipathways/includes/parser/Parser.php(321): Parser->internalParse('<analytics uacc...')
  21. 20 /var/www/wikipathways/includes/OutputPage.php(405): Parser->parse('<analytics uacc...', Object(Title), Object(ParserOptions), true, true, 18453)
  22. 21 /var/www/wikipathways/includes/OutputPage.php(391): OutputPage->addWikiTextTitle('<analytics uacc...', Object(Title), true, true)
  23. 22 /var/www/wikipathways/includes/OutputPage.php(500): OutputPage->addWikiTextTitleTidy('<analytics uacc...', Object(Title), true)
  24. 23 /var/www/wikipathways/includes/DifferenceEngine.php(313): OutputPage->addWikiTextTidy('<analytics uacc...')
  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}

New!

  • Redesigned group appearance and selection, try it out in the sandbox pathway!
  • WikiPathways article published in PLoS Biology!
  • New species added: Danio rerio
  • New editor feature: automatic connectors

Community Interest

Portals within WikiPathways for communities with focused pathway interests:

Want to start your own Portal? Contact us!

Statistics

  • There are 2817 pathways
  • Number of pathways (and unique genes) per species:
Anopheles gambiae: 23 (428)
Arabidopsis thaliana: 94 (956)
Bacillus subtilis: 3 (14)
Beta vulgaris: 1 (25)
Bos taurus: 275 (3743)
Caenorhabditis elegans: 66 (882)
Canis familiaris: 112 (2820)
Danio rerio: 105 (2708)
Drosophila melanogaster: 35 (565)
Escherichia coli: 13 (28)
Equus caballus: 12 (200)
Gallus gallus: 100 (2106)
Glycine max: 1 (2)
Gibberella zeae: 2 (0)
Homo sapiens: 1153 (8326)
Hordeum vulgare: 1 (9)
Mus musculus: 227 (4985)
Mycobacterium tuberculosis: 17 (148)
Oryza sativa: 69 (493)
Pan troglodytes: 116 (2937)
Populus trichocarpa: 5 (0)
Rattus norvegicus: 174 (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)
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