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EcoliWiki

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You can help EcoliWiki by editing the content of this page. For information about becoming a registered user and obtaining editing privileges, see Help:Accounts.

Link/URL:

EcoliWiki

What:

Wiki-based community annotation for E. coli K-12, as part of PortEco

Who:

Jim Hu, Texas A&M University

Updates:

As edited

Upcoming events:
Web Services:

REST services available

Contents

About EcoliWiki

EcoliWiki[1] is a wiki-based system for finding, editing, and adding information about E. coli K-12 and other model organism strains of E. coli. EcoliWiki is being constructed to include information about bacteriophage, plasmids, and mobile genetic elements.

Content

Most of the E. coli information was initially seeded with a subset of information from parsing EcoCyc data dumps. For phage λ and the F plasmid, Genbank accessions were converted to GFF, which was parsed into the appropriate tables. Other sources of content include:

Quickview

EW quickview.jpg

Gene Product Page

EW jmol.jpg



Expression Pages

EW expression.jpg



Using EcoliWiki

View a list of all pages in the "Help" namespace.

Browsing

Searching

Other sites with related content

Technology

EcoliWiki is run off of Mediawiki version 1.21.9 modified with a mix of open source extensions. Many of these are from other publicly available sources, while others were created for this project. Notable custom extensions include:

  • TableEdit: provides structured data in the wiki format, allowing easier data reuse.
  • PagesOnDemand: Automated seeding of content for various kinds of pages. PagesOnDemand is extensible to support new page types.

Statistics

EcoliWiki currently has 165,402 pages. You can view other statistics on Special:Statistics.

Web Services/API

EcoliWiki provides REST web services as part of the PortEco Web Services infrastructure project

  • keyword - currently searches based on a single keyword
  • gene - prototype to extract gene details from the wiki
  • is_edited - shows numbers of human revisions to EcoliWiki pages.

For more detail about the EcoliWiki web services, see Help:Web Services.

Discussion

References

External Links

EcoliWiki

Discussion of EcoliWiki on other websites


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