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This is the official wiki site for [http://www.wormbase.org WormBase], the database of the model organism [http://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans] and related nematodes. WormBase is developed by an [[WormBase Consortium|international consortium]] of researchers and computer scientists.  
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This is the official wiki site for [http://www.wormbase.org WormBase], the database of the model organism [http://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans] and related nematodes. WormBase is developed by an [http://www.wormbase.org/about/staff#01--10 international consortium] of researchers and computer scientists.  
  
 
To edit this Wiki, please create an account (click on the 'log in/create account' link at the top of the page). Before contributing, please see the [[Wiki objectives and usage guidelines|WormBaseWiki usage guidelines]].  
 
To edit this Wiki, please create an account (click on the 'log in/create account' link at the top of the page). Before contributing, please see the [[Wiki objectives and usage guidelines|WormBaseWiki usage guidelines]].  
  
== Table of Contents ==
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== WormBoard  ==
 +
Since its inception the ''C. elegans'' field has relied on the voluntary efforts of community-minded individuals to develop and organize key resources and meetings. As the field enters its second half-century, continued growth necessitates a more formal structure for such efforts. The Worm Board has been formed to advocate for ''C. elegans'' research internationally and to foster the continued development of community resources.
  
*[[WormBase_Genomes| Overview of all species]]
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*[[WormBoard#WormBoard_Charter|Charter]] -- ''Charter and mission of the WormBoard''
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*[[WormBoard#WormBoard_Members|Members]] -- ''Current and former members''
  
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== Using WormBase  ==
 +
 +
*[[Site Map|Site Map]]
 +
 +
=== User Guides  ===
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*[http://www.wormbase.org/about/Frequently_asked_questions FAQ]
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*[[Data mining|Data mining]] - ''Learn about the methods for mining WormBase systematically''
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*[[Searching WormBase for Information About C. elegans (Wiley)|Searching WormBase for Information About C. elegans (Wiley)]]
 +
*[[Downloads|Downloads]] - ''Download commonly requested files and datasets''
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*[[Guidelines for Users on Submitting/Reporting Data to WormBase|'''Submitting Data''']]
 +
 +
=== General Information  ===
 +
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*[[Local installation of WormBase|Installing WormBase on your own computer]]
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*[[Editorial policy|Editorial policy]] - ''WormBase editorial policy''
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 +
=== WormMine  ===
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[http://www.wormbase.org/tools/wormmine/begin.do Our WormMine instance]
 +
 +
* [[WormMine|Wiki Page]]
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* [[UserGuide:WormMine|User Guide]]
  
 
== Community Resources  ==
 
== Community Resources  ==
  
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*[[WormBase_Genomes| Overview of species' genomes available in WormBase]]
 
*[http://www.wormbase.org/db/misc/laboratory?name=%2A;class=laboratory C. elegans laboratories]  
 
*[http://www.wormbase.org/db/misc/laboratory?name=%2A;class=laboratory C. elegans laboratories]  
 
*[[Meetings|Meetings]]  
 
*[[Meetings|Meetings]]  
 
*[http://www.wormbase.org/forums/ Worm Community Discussion Forum] ([http://forums.wormbase.org/index.php?board=1.0 Job postings])  
 
*[http://www.wormbase.org/forums/ Worm Community Discussion Forum] ([http://forums.wormbase.org/index.php?board=1.0 Job postings])  
 
*[[Software for nematode research|Software for nematode research]]  
 
*[[Software for nematode research|Software for nematode research]]  
*[[Related web resources|Related web resources]]
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*[[NGASP|NGASP]]
 
*[[NGASP|NGASP]]
 +
  
 
=== Reagents and Protocols ===
 
=== Reagents and Protocols ===
 
 
*[[Strains|Strains]]  
 
*[[Strains|Strains]]  
 
*[[Reagents|Reagents]] - ''Useful reagents from third-party sources''  
 
*[[Reagents|Reagents]] - ''Useful reagents from third-party sources''  
 
*[[Cosmids/YACs|Cosmids/YACs]]  
 
*[[Cosmids/YACs|Cosmids/YACs]]  
 
*[[Fosmids|Fosmids]]
 
*[[Fosmids|Fosmids]]
* Experimental protocols: [http://www.wormbook.org/toc_wormmethods.html WormMethods @ WormBook] | [http://forums.wormbase.org/index.php?board=22.0/ Worm Community Forum]
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* Experimental protocols:  
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**[http://www.wormbook.org/toc_wormmethods.html WormMethods @ WormBook]  
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**[http://forums.wormbase.org/index.php?board=22.0/ Worm Community Forum]
  
=== Microarray Data ===
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=== Web Resources ===
 
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*[[Related web resources|Related web resources]]
*[http://smd.stanford.edu/search.shtml  Stanford Microarray Database (SMD) search page]
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* Microarray Data Sites
*[http://smd.stanford.edu/cgi-bin/search/nameSearch.pl SMD gene-centric search page]
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**[http://smd.stanford.edu/search.shtml  Stanford Microarray Database (SMD) search page]
*[http://smd.stanford.edu/cgi-bin/publication/viewPublication.pl?pub_no=91 Jiang et al. (2001), PNAS 98, 218-223] (SMD data from Kim laboratory's 2001 microarray paper)
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**[http://smd.stanford.edu/cgi-bin/search/nameSearch.pl SMD gene-centric search page]
*[ftp://smd-ftp.stanford.edu/smd/publications/91/  SMD's FTP site]
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**[http://smd.stanford.edu/cgi-bin/publication/viewPublication.pl?pub_no=91 Jiang et al. (2001), PNAS 98, 218-223] (SMD data from Kim laboratory's 2001 microarray paper)
*[[SPELL|''SPELL'']]
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**[ftp://smd-ftp.stanford.edu/smd/publications/91/  SMD's FTP site]
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**[[SPELL|''SPELL'']]
  
== Using WormBase  ==
 
 
*[[Site Map|Site Map]]
 
*[[Mirror sites and frozen releases|Mirror sites and frozen releases]]
 
 
User Guides
 
 
*[[User Guide|Official User Guide]]  -- ''Usage, FAQs, Glossary of terms''
 
*[[Data mining|Data mining]] - ''Learn about the methods for mining WormBase systematically''
 
*[[Searching WormBase for Information About C. elegans (Wiley)|Searching WormBase for Information About C. elegans (Wiley)]]
 
*[[Downloads|Downloads]] - ''Download commonly requested files and datasets''
 
*[[Guidelines for Users on Submitting/Reporting Data to WormBase|Submitting data and reporting errors]]
 
 
General Information
 
 
*[[Release Schedule|Release Schedule]] - ''When to expect the next release of WormBase, and information on past releases''
 
*[[Citing WormBase|Citing WormBase]]
 
*[[Publications|Publications]] - ''public information presented by the developers of WormBase''
 
*[[Local installation of WormBase|Installng WormBase on your own computer]]
 
*[[Editorial policy|Editorial policy]] - ''WormBase editorial policy''
 
*[[Acceptable use policy|Acceptable use policy]]
 
*[[WormBaseWiki:Copyrights|Copyright statement]]
 
*[[Acceptable use policy#Privacy statement|Privacy statement]]
 
  
 
== Staying up-to-date  ==
 
== Staying up-to-date  ==
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[http://www.wormbase.org WormBase] offers a number of ways to stay up-to-date with new features and datasets, to make feature requests, and to ask for assistance with the database.  
 
[http://www.wormbase.org WormBase] offers a number of ways to stay up-to-date with new features and datasets, to make feature requests, and to ask for assistance with the database.  
  
* Live Help Desk: [http://friendfeed.com/rooms/wormbase The WormBase Room on FriendFeed]
 
 
* Twitter: [http://www.twitter.com/wormbase Status updates], [http://www.twitter.com/wormbase_commit Software commit messages]  
 
* Twitter: [http://www.twitter.com/wormbase Status updates], [http://www.twitter.com/wormbase_commit Software commit messages]  
 
* Mailing Lists: [[Mailing lists#help|General questions]] | [[Mailing lists#developers|Developers]] -- [[Mailing lists|More...]]  
 
* Mailing Lists: [[Mailing lists#help|General questions]] | [[Mailing lists#developers|Developers]] -- [[Mailing lists|More...]]  
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*[[WormBase Newsletters|WormBase Newsletters]]  
 
*[[WormBase Newsletters|WormBase Newsletters]]  
 
*[http://www.wormbook.org/announce.html WormBook Announcements] - ''low volume''
 
*[http://www.wormbook.org/announce.html WormBook Announcements] - ''low volume''
*[[Help Desk During International Worm Meeting]]
 
  
 
== Internal Documentation ==  
 
== Internal Documentation ==  
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*[[WormBase Staff Resources]] -- ''A guide to the tools available for WormBase staff''
 
*[[WormBase Staff Resources]] -- ''A guide to the tools available for WormBase staff''
  
*[[Developer documentation|Developer documentation]]
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*[[:Category:Web_Dev|Developer documentation]]
  
 
*[[Caltech documentation]]
 
*[[Caltech documentation]]
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 +
*[[:Category:Hinxton|Hinxton documentation]]
  
 
*[[Working Groups|Working Groups]]
 
*[[Working Groups|Working Groups]]
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*[[WormBase SAB Meeting|WormBase SAB Meeting]]
 
*[[WormBase SAB Meeting|WormBase SAB Meeting]]
  
*[[WB2 page review]]
 
  
 
[[Category:User Guide]]
 
[[Category:User Guide]]

Latest revision as of 19:40, 3 December 2019

This is the official wiki site for WormBase, the database of the model organism Caenorhabditis elegans and related nematodes. WormBase is developed by an international consortium of researchers and computer scientists.

To edit this Wiki, please create an account (click on the 'log in/create account' link at the top of the page). Before contributing, please see the WormBaseWiki usage guidelines.

WormBoard

Since its inception the C. elegans field has relied on the voluntary efforts of community-minded individuals to develop and organize key resources and meetings. As the field enters its second half-century, continued growth necessitates a more formal structure for such efforts. The Worm Board has been formed to advocate for C. elegans research internationally and to foster the continued development of community resources.

  • Charter -- Charter and mission of the WormBoard
  • Members -- Current and former members

Using WormBase

User Guides

General Information

WormMine

Our WormMine instance

Community Resources


Reagents and Protocols

Web Resources


Staying up-to-date

WormBase offers a number of ways to stay up-to-date with new features and datasets, to make feature requests, and to ask for assistance with the database.

Internal Documentation