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
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
Fatty acid biosynthesis (Rattus norvegicus)
invalid pathway title: exception 'Exception' with message 'Unable to convert to /var/www/wikipathways/images/8/8b/WP504_9143.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/8/8b/WP504_9143.svg" 2>&1
' 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/Pathway.php(1153): Pathway->updateCache('svg')
- 3 /var/www/wikipathways/wpi/extensions/pathwayThumb.php(129): Pathway->getImage()
- 4 /var/www/wikipathways/wpi/extensions/pathwayThumb.php(53): makeThumbLinkObj(Object(Pathway), 'Fatty acid bios...', 'https://classic...', 'Fatty acid bios...', 'center', 'pwthumb', '300')
- 5 [internal function]: renderPathwayImage(Object(Parser), 'Pathway:WP504', '300', 'center', 'Fatty acid bios...', 'pathway', 'Fatty acid bios...')
- 6 /var/www/wikipathways/includes/parser/Parser.php(2860): call_user_func_array('renderPathwayIm...', Array)
- 7 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPTemplateFrame_DOM))
- 8 /var/www/wikipathways/includes/parser/Parser.php(2986): PPFrame_DOM->expand(Object(PPNode_DOM))
- 9 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPFrame_DOM))
- 10 /var/www/wikipathways/includes/parser/Parser.php(2678): PPFrame_DOM->expand(Object(PPNode_DOM), 0)
- 11 /var/www/wikipathways/includes/parser/Parser.php(966): Parser->replaceVariables('{{Template:Toda...')
- 12 /var/www/wikipathways/includes/parser/Parser.php(439): Parser->internalParse('{{Template:Toda...')
- 13 /var/www/wikipathways/wpi/extensions/PathwayOfTheDay/PathwayOfTheDay.php(60): Parser->recursiveTagParse('{{Template:Toda...')
- 14 [internal function]: getPathwayOfTheDay(Object(Parser), 'Wednesday 26 Ju...')
- 15 /var/www/wikipathways/includes/parser/Parser.php(2860): call_user_func_array('getPathwayOfThe...', Array)
- 16 /var/www/wikipathways/includes/parser/Preprocessor_DOM.php(915): Parser->braceSubstitution(Array, Object(PPFrame_DOM))
- 17 /var/www/wikipathways/includes/parser/Parser.php(2678): PPFrame_DOM->expand(Object(PPNode_DOM), 0)
- 18 /var/www/wikipathways/includes/parser/Parser.php(966): Parser->replaceVariables('<analytics uacc...')
- 19 /var/www/wikipathways/includes/parser/Parser.php(321): Parser->internalParse('<analytics uacc...')
- 20 /var/www/wikipathways/includes/OutputPage.php(405): Parser->parse('<analytics uacc...', Object(Title), Object(ParserOptions), true, true, 9536)
- 21 /var/www/wikipathways/includes/OutputPage.php(391): OutputPage->addWikiTextTitle('<analytics uacc...', Object(Title), true, true)
- 22 /var/www/wikipathways/includes/OutputPage.php(500): OutputPage->addWikiTextTitleTidy('<analytics uacc...', Object(Title), true)
- 23 /var/www/wikipathways/includes/DifferenceEngine.php(313): OutputPage->addWikiTextTidy('<analytics uacc...')
- 24 /var/www/wikipathways/includes/DifferenceEngine.php(271): DifferenceEngine->renderNewRevision()
- 25 /var/www/wikipathways/includes/Article.php(729): DifferenceEngine->showDiffPage(false)
- 26 /var/www/wikipathways/includes/Wiki.php(437): Article->view()
- 27 /var/www/wikipathways/includes/Wiki.php(59): MediaWiki->performAction(Object(OutputPage), Object(Article), Object(Title), Object(User), Object(WebRequest))
- 28 /var/www/wikipathways/index.php(93): MediaWiki->initialize(Object(Title), Object(Article), Object(OutputPage), Object(User), Object(WebRequest))
- 29 {main}
New!
Coming Soon...
- Converted content from KEGG and Reactome
- Tagging pathways with terms from GO 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)
|
|
