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
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You can search by:
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Contributing New Pathways
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Create a new pathway page
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Add a pathway to the wish list
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Sample Pathway Pages
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Play with the editor tools
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Check out the following pages:
For more information see the Help pages
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Today's Featured Pathway
Nicotine metabolism in liver cells (Homo sapiens)
invalid pathway title: exception 'Exception' with message 'Unable to convert to /var/www/wikipathways/images/1/12/WP1600_35797.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/WP1600_35797.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), 'Nicotine metabo...', 'https://classic...', 'Nicotine metabo...', 'center', 'pwthumb', '300')
- 5 [internal function]: renderPathwayImage(Object(Parser), 'Pathway:WP1600', '300', 'center', 'Nicotine metabo...', 'pathway', 'Nicotine metabo...')
- 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), 'Friday 3 May 20...', 'Curation:Featur...', 'true')
- 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('__NOEDITSECTION...')
- 19 /var/www/wikipathways/includes/parser/Parser.php(321): Parser->internalParse('__NOEDITSECTION...')
- 20 /var/www/wikipathways/includes/OutputPage.php(405): Parser->parse('__NOEDITSECTION...', Object(Title), Object(ParserOptions), true, true, 36191)
- 21 /var/www/wikipathways/includes/OutputPage.php(391): OutputPage->addWikiTextTitle('__NOEDITSECTION...', Object(Title), true, true)
- 22 /var/www/wikipathways/includes/OutputPage.php(500): OutputPage->addWikiTextTitleTidy('__NOEDITSECTION...', Object(Title), true)
- 23 /var/www/wikipathways/includes/DifferenceEngine.php(313): OutputPage->addWikiTextTidy('__NOEDITSECTION...')
- 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}
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Community Interest
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Statistics
- There are 3169 pathways
- Number of pathways (and unique genes) per species:
| Acetobacterium woodii:
| 1
| (0)
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| Anopheles gambiae:
| 20
| (400)
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| Arabidopsis thaliana:
| 94
| (960)
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| Bacillus subtilis:
| 3
| (14)
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| Beta vulgaris:
| 1
| (25)
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| Brassica napus:
| 2
| (162)
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| Bos taurus:
| 273
| (3739)
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| Caenorhabditis elegans:
| 65
| (827)
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| Canis familiaris:
| 112
| (2857)
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| Caulobacter vibrioides:
| 1
| (0)
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| Danio rerio:
| 103
| (2664)
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| Daphnia magna:
| 2
| (0)
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| Daphnia pulex:
| 1
| (31)
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| Drosophila melanogaster:
| 34
| (541)
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| Escherichia coli:
| 14
| (83)
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| Equus caballus:
| 12
| (200)
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| Gallus gallus:
| 100
| (2106)
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| Glycine max:
| 1
| (0)
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| Gibberella zeae:
| 2
| (0)
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| Homo sapiens:
| 1494
| (9757)
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| Hordeum vulgare:
| 1
| (9)
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| Mus musculus:
| 237
| (5107)
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| Mycobacterium tuberculosis:
| 16
| (141)
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| Oryza sativa:
| 68
| (535)
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| Ovis aries:
| 1
| (0)
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| Pan troglodytes:
| 115
| (2948)
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| Populus trichocarpa:
| 5
| (0)
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| Rattus norvegicus:
| 175
| (3796)
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| Saccharomyces cerevisiae:
| 137
| (836)
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| Solanum lycopersicum:
| 7
| (5)
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| Sus scrofa:
| 10
| (97)
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| Triticum aestivum:
| 1
| (0)
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| Vitis vinifera:
| 1
| (0)
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| Zea mays:
| 59
| (31)
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| Plasmodium falciparum:
| 1
| (0)
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