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...
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Contributing New Pathways
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Create a new pathway page
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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
Vitamin D metabolism (Homo sapiens)
invalid pathway title: exception 'Exception' with message 'Unable to convert to /var/www/wikipathways/images/6/6f/WP1531_81822.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/6/6f/WP1531_81822.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), 'Vitamin D metab...', 'https://classic...', 'Vitamin D metab...', 'center', 'pwthumb', '300')
- 5 [internal function]: renderPathwayImage(Object(Parser), 'Pathway:WP1531', '300', 'center', 'Vitamin D metab...', 'pathway', 'Vitamin D metab...')
- 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/Article.php(3406): Parser->parse('__NOEDITSECTION...', Object(Title), Object(ParserOptions), true, true, 81822)
- 21 /var/www/wikipathways/includes/Article.php(875): Article->outputWikiText('__NOEDITSECTION...', false)
- 22 /var/www/wikipathways/includes/Wiki.php(437): Article->view()
- 23 /var/www/wikipathways/includes/Wiki.php(59): MediaWiki->performAction(Object(OutputPage), Object(Article), Object(Title), Object(User), Object(WebRequest))
- 24 /var/www/wikipathways/index.php(93): MediaWiki->initialize(Object(Title), Object(Article), Object(OutputPage), Object(User), Object(WebRequest))
- 25 {main}
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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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