WikiPathways

From WikiPathways

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{|  
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<h2 class="frontPagePanel yellowFg">11 April 2019: Scheduled Downtime</h2>
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<font size=2>'''We will be taking the site down for an hour at 24:00UTC on April 11th. We are switching over to new and improved infrastructure! Sorry for any inconveniences.'''</font></div>
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<h2 class="frontPagePanel yellowFg">2015-Sep-01: Technical issues.</h2>
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<font size=2>'''We are currently experiencing some technical issues, so some pages are not accessible. We are working hard to fix those issues. Sorry for any inconveniences.'''</font></div>
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<h2 class="frontPagePanel redFg">Share your pathway knowledge in the fight against COVID-19</h2>
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<font size=2>'''''ACCESS'' the rapidly growing [[Portal:COVID-19|collection of COVID-19 pathways]], ''CONTRIBUTE'' your time and domain knowledge about pathway biology as a [[Help:Authors|pathway author]], and ''USE'' these pathways in [[Help:Tools_using_WikiPathways|your research]].'''</font></div>
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<h2 class="frontPagePanel redFg">Welcome to WikiPathways <sup>BETA</sup></h2>
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<h2 class="frontPagePanel greenFg">Try the New WikiPathways</h2>
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<font size=2>'''In the new tradition of [[wikipedia:Main_Page|Wikipedia]], WikiPathways is an open, public platform dedicated to the curation of biological pathways by and for the scientific community. [[WikiPathways:About|More about WikiPathways...]]'''</font></div>
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<font size=2>'''Visit https://wikipathways.org to see the new version of WikiPathways.''' This is the "classic" version of WikiPathways will not be maintained for much longer.
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<h2 class="frontPagePanel blueFg">Finding Pathways</h2>
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<h2 class="frontPagePanel blueFg">Find Pathways</h2>
{|style="width:100%;" border="0" valign="top" cellspacing="2" cellpadding="1" align="center"
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|align="center" valign="top"|<big>'''Search'''</big>{{#googleCoop:}}
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|align="center" valign="top"|<big>'''Search'''</big><BR>{{#searchPathwaysBox:}}
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|rowspan="2" align="center" valign="top"|<big>'''Browse'''</big>{{#imgLink:Browse_thumb_200.jpg|200|center||special|BrowsePathwaysPage|Browse}}
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|rowspan="2" align="center" valign="top"|<big>'''Browse'''</big>{{#imgLink:Browse_thumb.png|200|center||special|BrowsePathwaysPage|Browse}}
'''Browse by species and category'''
'''Browse by species and category'''
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<h2 class="frontPagePanel blueFg">Contributing New Pathways</h2>
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<h2 class="frontPagePanel blueFg">Get Pathways</h2>
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|align="center" valign="top"|<big>'''Create'''</big>{{#imgLink:Create_thumb_160.jpg|160|center||special|CreatePathwayPage|Create}}
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|align="center" valign="top"|<big>'''Download'''</big>{{#imgLink:Download_label.png|215|center|||Download_Pathways|Download}}
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'''Create a new pathway page'''
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'''Multiple formats and methods'''
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|rowspan="1" align="center" valign="top"|<big>'''Suggest'''</big>{{#imgLink:Wishlist_thumb_200.jpg|200|center||special|SpecialWishList|Wish list}}
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|rowspan="1" align="center" valign="top"|<big>'''Growth'''</big>{{#imgLink:Wp_growth_label.png|200|center|||WikiPathways:Statistics|Growth}}
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'''Add a pathway to the wish list'''
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'''New pathways added each month'''
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<h2 class="frontPagePanel blueFg">Sample Pathway Pages</h2>
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<h2 class="frontPagePanel blueFg">Edit Pathways</h2>
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|rowspan="1" align="center" valign="top" style="width:45%;"|<big>'''Sandbox'''</big>{{#imgLink:Sandbox_thumb_200.jpg|200|center||pathway|WP4|Sandbox}}
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|align="center" valign="top"|<big>'''Learn'''</big>{{#imgLink:AcademyPath.png|200|center||external|http://academy.wikipathways.org|WikiPathways Academy}}
'''Play with the editor tools'''
'''Play with the editor tools'''
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|align="center" valign="top"|<big>'''Request'''</big>{{#imgLink:RequestForm2.png|210|center||external|https://github.com/wikipathways/pathway-curation-tasks/issues|Figure Conversion}}
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'''Check out the following pages:'''<br>
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'''Queue figures for conversion'''
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* [[Special:RecentPathwayChanges | Show recent changes]]
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* [[Special:NewPathwaysPage | Show new pathways]]
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* [[Special:MostEditedPathwaysPage | Show most edited pathways]]
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* [[Special:PopularPathwaysPage | Show most viewed pathways]]
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* [[Special:SpecialWishList | Show pathway wish list]]
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'''For more information see the [[Help:Contents |Help pages]]'''
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<h2 class="frontPagePanel yellowFg">We want your feedback! A quick survey to help us focus development: [https://www.surveymonkey.com/r/wikipathways https://www.surveymonkey.com/r/wikipathways]</h2></div>
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<h2 class="frontPagePanel greenFg">Today's Featured Pathway</h2>{{ #pathwayOfTheDay: {{LOCALDAYNAME}} {{LOCALDAY}} {{LOCALMONTHNAME}} {{LOCALYEAR}} | Curation:FeaturedPathway | true}}
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<h2 class="frontPagePanel blueFg">Today's Featured Pathway</h2>{{ #pathwayOfTheDay: {{LOCALDAYNAME}} {{LOCALDAY}} {{LOCALMONTHNAME}} {{LOCALYEAR}} | Curation:CurrentHighlight | true}}
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<h2 class="frontPagePanel greenFg">Latest edits</h2><recentChanges class="greenBg" style="border:none" namespace='102' limit='3'></recentChanges>
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<h2 class="frontPagePanel blueFg" style="margin-top:0.5em;">Updates</h2>
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<h2 class="frontPagePanel greenFg">Latest discussions</h2><recentChanges class="greenBg" style="border:none" namespace='90' limit='3'></recentChanges>
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* '''April 2024 Release''': [[Special:RecentPathwayChanges|290 edits]] by [[WikiPathways:Statistics#Contribution_scores|11 contributors]] and [https://www.wikipathways.org/browse/new.html 2 new pathways].
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<h2 class="frontPagePanel greenFg">New!</h2>
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* '''March 2024 Release''': [[Special:RecentPathwayChanges|542 edits]] by [[WikiPathways:Statistics#Contribution_scores|9 contributors]] and [https://www.wikipathways.org/browse/new.html 10 new pathways].
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*New species supported:
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* '''February 2024 Release''': [[Special:RecentPathwayChanges|586 edits]] by [[WikiPathways:Statistics#Contribution_scores|12 contributors]] and [https://www.wikipathways.org/browse/new.html 16 new pathways].
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** Arabidopsis thaliana
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* '''January 2024 Release''': [[Special:RecentPathwayChanges|105 edits]] by [[WikiPathways:Statistics#Contribution_scores|11 contributors]] and [https://www.wikipathways.org/browse/new.html 1 new pathway].
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** Oryza sativa
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* '''December 2023 Release''': [[Special:RecentPathwayChanges|120 edits]] by [[WikiPathways:Statistics#Contribution_scores|12 contributors]].
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*Private pathways ([[Help:Private_Pathways|read more]])
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* '''November 2023 Release''': [[Special:RecentPathwayChanges|120 edits]] by [[WikiPathways:Statistics#Contribution_scores|10 contributors]] and [https://www.wikipathways.org/browse/new.html 3 new pathways].
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*Stable Identifiers for all pathways (<span class="plainlinks">[http://www.helixsoft.nl/blog/?p=29 read more]</span>)
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* '''October 2023 Release''': [[Special:RecentPathwayChanges|157 edits]] by [[WikiPathways:Statistics#Contribution_scores|13 contributors]] and [https://www.wikipathways.org/browse/new.html 2 new pathways].
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* '''September 2023 Release''': [[Special:RecentPathwayChanges|85 edits]] by [[WikiPathways:Statistics#Contribution_scores|11 contributors]] and [https://www.wikipathways.org/browse/new.html 4 new pathways].
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* '''August 2023 Release''': [[Special:RecentPathwayChanges|207 edits]] by [[WikiPathways:Statistics#Contribution_scores|9 contributors]] and [https://www.wikipathways.org/browse/new.html 22 new pathways].
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&nbsp;&nbsp;&nbsp;&nbsp;[[WikiPathways:Updates|more...]]
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<h2 class="frontPagePanel blueFg">Discussions</h2><recentChanges class="blueBg" style="border:none" namespace='90' limit='2'></recentChanges>&nbsp;&nbsp;&nbsp;&nbsp;[[WikiPathways:Discussions|more...]]
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<h2 class="frontPagePanel blueFg">Forum</h2><rss>https://groups.google.com/group/wikipathways-discuss/feed/rss_v2_0_msgs.xml|short|max=2</rss>&nbsp;&nbsp;&nbsp;&nbsp;[http://groups.google.com/group/wikipathways-discuss Google group wikipathways-discuss]
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<h2 class="frontPagePanel greenFg">Community Interest</h2>
 
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Portals within WikiPathways for communities with focused pathway interests:
 
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* [[Portal:Micronutrient|Micronutrient initiative]] contributed pathways
 
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* [[Portal:GenMAPP|GenMAPP]] contributed pathways
 
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* [[Portal:BiGCaT|BiGCaT]] contributed pathways
 
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Want to start your own Portal? [[Contact_Us|Contact us!]]
 
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<h2 class="frontPagePanel greenFg">Statistics</h2>{{ #siteStats: class="greenBg" style="border: 0;"}}
 
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Current revision

Try the New WikiPathways

Visit https://wikipathways.org to see the new version of WikiPathways. This is the "classic" version of WikiPathways will not be maintained for much longer.

Find Pathways

Search

 Browse

Browse by species and category

You can search by:
  • Pathway name (Apoptosis)
  • Gene or protein name (p53)
  • Any page content (cancer)

Get Pathways

Download

Multiple formats and methods

Growth

New pathways added each month

Edit Pathways

Learn

Play with the editor tools

Request

Queue figures for conversion

We want your feedback! A quick survey to help us focus development: https://www.surveymonkey.com/r/wikipathways

Today's Featured Pathway

SARS-CoV-2 and ACE2 receptor: molecular mechanisms (Homo sapiens)
invalid pathway title: exception 'Exception' with message 'Unable to convert to /var/www/wikipathways/images/3/36/WP4883_28663.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/3/36/WP4883_28663.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), 'SARS-CoV-2 and ...', 'https://classic...', 'SARS-CoV-2 and ...', 'center', 'pwthumb', '300')
  6. 5 [internal function]: renderPathwayImage(Object(Parser), 'Pathway:WP4883', '300', 'center', 'SARS-CoV-2 and ...', 'pathway', 'SARS-CoV-2 and ...')
  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), 'Friday 3 May 20...', 'Curation:Curren...', 'true')
  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('{| ?<!-- Specia...')
  20. 19 /var/www/wikipathways/includes/parser/Parser.php(321): Parser->internalParse('{| ?<!-- Specia...')
  21. 20 /var/www/wikipathways/includes/OutputPage.php(405): Parser->parse('{| ?<!-- Specia...', Object(Title), Object(ParserOptions), true, true, 129405)
  22. 21 /var/www/wikipathways/includes/OutputPage.php(391): OutputPage->addWikiTextTitle('{| ?<!-- Specia...', Object(Title), true, true)
  23. 22 /var/www/wikipathways/includes/OutputPage.php(500): OutputPage->addWikiTextTitleTidy('{| ?<!-- Specia...', Object(Title), true)
  24. 23 /var/www/wikipathways/includes/DifferenceEngine.php(313): OutputPage->addWikiTextTidy('{| ?<!-- Specia...')
  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}

Updates

    more...

Discussions

No recent changes    more...

Forum

        Google group wikipathways-discuss


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