Database Commons a catalog of biological databases

Database Commons - TAIR

TAIR

Citations: 768

z-index 40.70

Short name TAIR
Full name The Arabidopsis Information Resource
Description TAIR is the model organism database for the fully sequenced and intensively studied model plant Arabidopsis thaliana.
URL https://www.arabidopsis.org/
Year founded 2007
Last update & version 2017-02-22    1.0
Availability Free to all users
University/Institution hosted Phoenix Bioinformatics
Address 643 Bair Island Rd. Suite 403
City Redwood City
Province/State California
Country/Region United States
Contact name Eva Huala
Contact email huala@phoenixbioinformatics.org
Data type(s)
Major organism(s)
Keyword(s)
  • gene structure and function annotation
Publication(s)
  • Sustainable funding for biocuration: The Arabidopsis Information Resource (TAIR) as a case study of a subscription-based funding model. [PMID: 26989150]

    Leonore Reiser, Tanya Z Berardini, Donghui Li, Robert Muller, Emily M Strait, Qian Li, Yarik Mezheritsky, Andrey Vetushko, Eva Huala
    Database : the journal of biological databases and curation 2016:2016
    10 Citations (Google Scholar as of 2017-03-24)

    Abstract: Databases and data repositories provide essential functions for the research community by integrating, curating, archiving and otherwise packaging data to facilitate discovery and reuse. Despite their importance, funding for maintenance of these resources is increasingly hard to obtain. Fueled by a desire to find long term, sustainable solutions to database funding, staff from the Arabidopsis Information Resource (TAIR), founded the nonprofit organization, Phoenix Bioinformatics, using TAIR as a test case for user-based funding. Subscription-based funding has been proposed as an alternative to grant funding but its application has been very limited within the nonprofit sector. Our testing of this model indicates that it is a viable option, at least for some databases, and that it is possible to strike a balance that maximizes access while still incentivizing subscriptions. One year after transitioning to subscription support, TAIR is self-sustaining and Phoenix is poised to expand and support additional resources that wish to incorporate user-based funding strategies. Database URL: www.arabidopsis.org. © The Author(s) 2016. Published by Oxford University Press.

  • The Arabidopsis Information Resource (TAIR): gene structure and function annotation. [PMID: 17986450]

    David Swarbreck, Christopher Wilks, Philippe Lamesch, Tanya Z Berardini, Margarita Garcia-Hernandez, Hartmut Foerster, Donghui Li, Tom Meyer, Robert Muller, Larry Ploetz, Amie Radenbaugh, Shanker Singh, Vanessa Swing, Christophe Tissier, Peifen Zhang, Eva Huala
    Nucleic acids research 2008:36(Database issue)
    758 Citations (Google Scholar as of 2017-03-24)

    Abstract: The Arabidopsis Information Resource (TAIR, http://arabidopsis.org) is the model organism database for the fully sequenced and intensively studied model plant Arabidopsis thaliana. Data in TAIR is derived in large part from manual curation of the Arabidopsis research literature and direct submissions from the research community. New developments at TAIR include the addition of the GBrowse genome viewer to the TAIR site, a redesigned home page, navigation structure and portal pages to make the site more intuitive and easier to use, the launch of several TAIR web services and a new genome annotation release (TAIR7) in April 2007. A combination of manual and computational methods were used to generate this release, which contains 27,029 protein-coding genes, 3889 pseudogenes or transposable elements and 1123 ncRNAs (32,041 genes in all, 37,019 gene models). A total of 681 new genes and 1002 new splice variants were added. Overall, 10,098 loci (one-third of all loci from the previous TAIR6 release) were updated for the TAIR7 release.

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200 OK2016-04-15
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200 OK2016-04-08
200 OK2016-04-05
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200 OK2016-03-28
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200 OK2016-03-21
200 OK2016-03-18
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200 OK2016-03-14
200 OK2016-03-11
200 OK2016-03-09
200 OK2016-03-07
200 OK2016-03-04
200 OK2016-03-02
200 OK2016-02-29
200 OK2016-02-26
200 OK2016-02-24
200 OK2016-02-22
200 OK2016-02-19
200 OK2016-02-17
200 OK2016-02-15
200 OK2016-02-14
200 OK2016-02-12
200 OK2016-02-10
200 OK2016-02-08
200 OK2016-02-07
200 OK2016-02-05
200 OK2016-02-03
200 OK2016-02-01
200 OK2016-01-31
200 OK2016-01-29
200 OK2016-01-27
200 OK2016-01-25
200 OK2016-01-24
200 OK2016-01-22
200 OK2016-01-20
200 OK2016-01-18
200 OK2016-01-17
200 OK2016-01-15
200 OK2016-01-13
200 OK2016-01-11
200 OK2016-01-10
200 OK2016-01-08
200 OK2016-01-06
200 OK2016-01-04

Tags

DNA Expression Interaction and Network Literature Metabolic and Signaling Pathway Phenotype Protein RNA Standard, Ontology and Nomenclature
Arabidopsis thaliana
gene structure and function annotation

Record metadata

  • Created on: 2015-07-27
  • Curated by:
    • Shixiang Sun [2017-03-24]
    • Guangyu Wang [2016-03-31]
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