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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|an 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]].  
  
== About C. elegans ==
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== WormBoard  ==
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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.
  
*[http://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans (Wikipedia)][[About elegans|<br>]]  
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*[[WormBoard#WormBoard_Charter|Charter]] -- ''Charter and mission of the WormBoard''
*[[Key publications|Key publications]]  
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*[[WormBoard#WormBoard_Members|Members]] -- ''Current and former members''
*[[Nomenclature|Genetic Nomenclature]]  
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*[[Strains|Obtaining strains]]  
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===WormBoard Reports===
*[[Reagents|Reagents]] - ''Useful reagents from third-party sources''  
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*[[WormBoard_Report:_August_2020|August 2020]]
*[[Experimental protocols|Experimental protocols]] / [[Tools|Tools]]  
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*[https://blog.wormbase.org/2020/07/18/promoting-equity-in-the-c-elegans-community July 2020]
*[[Other nematodes|Other nematodes]]  
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*[[Nematode sequencing summary|Nematode resequencing and diversity]]
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== Using WormBase  ==
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*[[Site Map|Site Map]]  
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=== 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)]]  
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*[[Downloads|Downloads]] - ''Download commonly requested files and datasets''
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*[[Guidelines for Users on Submitting/Reporting Data to WormBase|'''Submitting Data''']]
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=== 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]
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* [[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://www.wormbase.org/forums/ Job postings])  
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*[http://www.wormbase.org/forums/ Worm Community Discussion Forum] ([http://forums.wormbase.org/index.php?board=1.0 Job postings])  
*[[NGASP|NGASP]]
 
 
*[[Software for nematode research|Software for nematode research]]  
 
*[[Software for nematode research|Software for nematode research]]  
*[[Related web resources|Related web resources]]
 
  
== Other Resource Info ==
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*[[NGASP|NGASP]]
  
* C. elegans
 
  Cosmids/YACs
 
  Fosmids
 
  
== Using WormBase ==
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=== Reagents and Protocols ===
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*[[Strains|Strains]]
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*[[Reagents|Reagents]] - ''Useful reagents from third-party sources''
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*[[Cosmids/YACs|Cosmids/YACs]]
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*[[Fosmids|Fosmids]]
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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]
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=== Web Resources ===
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*[[Related web resources|Related web resources]]
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* Microarray Data Sites
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**[http://smd.stanford.edu/search.shtml Stanford Microarray Database (SMD) search page]
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**[http://smd.stanford.edu/cgi-bin/search/nameSearch.pl SMD gene-centric search page]
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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)
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**[ftp://smd-ftp.stanford.edu/smd/publications/91/  SMD's FTP site]
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**[[SPELL|''SPELL'']]
  
Contents
 
  
*[[Species available through WormBase (overview)|Species available through WormBase (overview)]]
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== Staying up-to-date  ==
**[[Brugia malayi|''Brugia malayi'']]
 
**[[Caenorhabditis elegans|''Caenorhabditis elegans'']]
 
**[[Caenorhabditis brenneri|''Caenorhabditis brenneri'']]
 
**[[Caenorhabditis briggsae|''Caenorhabditis briggsae'']]
 
**[[Caenorhabditis japonica|''Caenorhabditis japonica'']]
 
**[[Caenorhabditis remanei|''Caenorhabditis remanei'']]
 
**[[Pristionchus pacificus|''Pristionchus pacificus'']]
 
  
*[[Site Map|Site Map]]
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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.
*[[Mirror sites and frozen releases|Mirror sites and frozen releases]]
 
  
User Guides
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* Twitter: [http://www.twitter.com/wormbase Status updates], [http://www.twitter.com/wormbase_commit Software commit messages]
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* Mailing Lists: [[Mailing lists#help|General questions]] | [[Mailing lists#developers|Developers]] -- [[Mailing lists|More...]]
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* RSS Feeds: [http://www.wormbase.org/rss/wormbase-live.xml News and Status] | [http://www.wormbase.org/rss/wormbase-dev.xml Development News] -- [[RSS news feeds|More Info]]
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*[[WormBase Newsletters|WormBase Newsletters]]
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*[http://www.wormbook.org/announce.html WormBook Announcements] - ''low volume''
  
*[[User Guide|Official User Guide]]
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== Internal Documentation ==
*[[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)]]
 
*[[Glossary of terms|Glossary of terms]]
 
*[[FAQs|FAQs]]
 
  
*[[Downloads|Downloads]] - ''Download commonly requested files and datasets''  
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*[[WormBase Staff Resources]] -- ''A guide to the tools available for WormBase staff''
*[[Guidelines for Users on Submitting/Reporting Data to WormBase|Submitting data and reporting errors]]
 
  
General Information
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*[[:Category:Web_Dev|Developer documentation]]
  
*[[Release Schedule|Release Schedule]] - ''When to expect the next release of WormBase, and information on past releases''
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*[[Caltech documentation]]
*[[Citing WormBase|Citing WormBase]]
 
*[[Presentations|Presentations]] | [[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  ==
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*[[:Category:Hinxton|Hinxton documentation]]
  
[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.
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*[[Working Groups|Working Groups]]
  
*[http://www.twitter.com/wormbase Twitter (username: wormbase)]
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*[[WormBase_database_schema|Model changes]] | [[Outstanding Model questions]]
*[[Mailing lists|Mailing lists]]: [[Mailing lists#help|general questions]], [[Mailing lists#developers|developers]]
 
*[[RSS news feeds|Subscribe to RSS feeds...]]
 
*[[WormBase Newsletters|WormBase Newsletters]]
 
*[http://www.wormbook.org/announce.html WormBook Announcements] - ''low volume''
 
  
== For Developers  ==
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*[[WormBase SAB Meeting|WormBase SAB Meeting]]
  
*[[Project Calendar|Project Calendar]]
 
*[[Developer documentation|Developer documentation]]
 
*[[Linking To WormBase|Linking To WormBase]]
 
*[[CVS Access To WormBase|CVS Access To WormBase]]
 
*[[Suggested pre-release data checks|Suggested pre-release data checks]]
 
*[[SOPs|Internal documentation and standard operating procedures]]
 
  
&nbsp;
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[[Category:User Guide]]
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[[Category:Developer documentation]]
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[[Category:WikiMainPage]]
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[[Category:Meetings]]
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[[Category:Curation]]

Latest revision as of 15:15, 31 August 2020

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

WormBoard Reports

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