WikiPathways

From WikiPathways

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(fixed spacing in green Featured Pathways section)
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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>
 +
*New species added: Danio rerio
*WikiPathways won the application showcase at the [http://www.nbic.nl/nbic/newsevents/BioRange_Meeting/ NBIC BioRange Consortium Meeting]!
*WikiPathways won the application showcase at the [http://www.nbic.nl/nbic/newsevents/BioRange_Meeting/ NBIC BioRange Consortium Meeting]!
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*Pathway [[Special:SpecialWishlist|Wish List]]
 
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*New embedded pathway editor 
 
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*[[Download Pathways|Batch download page]]
 
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*Visual diff tool for comparing pathway versions
 
 +
<h2 class="frontPagePanel greenFg">Community Interest Items</h2>
 +
Portals within WikiPathways for communities with focused pathway interests:
 +
* [http://wikipathways.org/index.php/Portal:GenMAPP GenMAPP] contributed pathways
 +
* [http://wikipathways.org/index.php/Portal:BiGCaT BiGCaT] contributed pathways
 +
 +
Want to start your own Portal? [[WikiPathways:About#Who_is_Involved|Contact us!]]
 +
 +
[http://wikipathways.org/index.php/CommunityCurationProtocol Community Curation Event]: May 19-23  Join us!
<h2 class="frontPagePanel greenFg">Coming Soon...</h2>
<h2 class="frontPagePanel greenFg">Coming Soon...</h2>
* Converted content from KEGG and Reactome
* Converted content from KEGG and Reactome

Revision as of 09:07, 15 May 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

Hypertrophy model (Homo sapiens)
invalid pathway title: exception 'Exception' with message 'Unable to convert to /var/www/wikipathways/images/1/12/WP516_12469.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/1/12/WP516_12469.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), 'Hypertrophy mod...', 'https://classic...', 'Hypertrophy mod...', 'center', 'pwthumb', '300')
  6. 5 [internal function]: renderPathwayImage(Object(Parser), 'Pathway:WP516', '300', 'center', 'Hypertrophy mod...', 'pathway', 'Hypertrophy mod...')
  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 1 July 2...')
  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, 12469)
  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!

Community Interest Items

Portals within WikiPathways for communities with focused pathway interests:

Want to start your own Portal? Contact us!

Community Curation Event: May 19-23 Join us!

Coming Soon...

  • Converted content from KEGG and Reactome
  • Tagging pathways with terms from Gene Ontology and other biological ontologies

Statistics

  • There are 3180 pathways
  • Number of pathways (and unique genes) per species:
Acetobacterium woodii: 1 (0)
Anopheles gambiae: 18 (400)
Arabidopsis thaliana: 94 (960)
Bacillus subtilis: 3 (14)
Beta vulgaris: 1 (25)
Brassica napus: 2 (162)
Bos taurus: 273 (3739)
Caenorhabditis elegans: 65 (827)
Canis familiaris: 112 (2857)
Caulobacter vibrioides: 1 (0)
Danio rerio: 103 (2666)
Daphnia magna: 2 (0)
Daphnia pulex: 1 (31)
Drosophila melanogaster: 34 (541)
Escherichia coli: 14 (83)
Equus caballus: 12 (200)
Gallus gallus: 100 (2106)
Glycine max: 1 (0)
Gibberella zeae: 2 (0)
Homo sapiens: 1507 (9872)
Hordeum vulgare: 1 (9)
Mus musculus: 237 (5107)
Mycobacterium tuberculosis: 16 (141)
Oryza sativa: 68 (535)
Ovis aries: 1 (0)
Pan troglodytes: 115 (2948)
Populus trichocarpa: 5 (0)
Rattus norvegicus: 175 (3796)
Saccharomyces cerevisiae: 137 (824)
Solanum lycopersicum: 7 (5)
Sus scrofa: 10 (97)
Triticum aestivum: 1 (0)
Vitis vinifera: 1 (0)
Zea mays: 59 (31)
Plasmodium falciparum: 1 (0)
Retrieved from "https://classic.wikipathways.org/index.php/WikiPathways"
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