Literature DB >> 20807877

An international bioinformatics infrastructure to underpin the Arabidopsis community.

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Abstract

The future bioinformatics needs of the Arabidopsis community as well as those of other scientific communities that depend on Arabidopsis resources were discussed at a pair of recent meetings held by the Multinational Arabidopsis Steering Committee and the North American Arabidopsis Steering Committee. There are extensive tools and resources for information storage, curation, and retrieval of Arabidopsis data that have been developed over recent years primarily through the activities of The Arabidopsis Information Resource, the Nottingham Arabidopsis Stock Centre, and the Arabidopsis Biological Resource Center, among others. However, the rapid expansion in many data types, the international basis of the Arabidopsis community, and changing priorities of the funding agencies all suggest the need for changes in the way informatics infrastructure is developed and maintained. We propose that there is a need for a single core resource that is integrated into a larger international consortium of investigators. We envision this to consist of a distributed system of data, tools, and resources, accessed via a single information portal and funded by a variety of sources, under shared international management of an International Arabidopsis Informatics Consortium (IAIC). This article outlines the proposal for the development, management, operations, and continued funding for the IAIC.

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Year:  2010        PMID: 20807877      PMCID: PMC2947164          DOI: 10.1105/tpc.110.078519

Source DB:  PubMed          Journal:  Plant Cell        ISSN: 1040-4651            Impact factor:   11.277


  2 in total

1.  Models for financial sustainability of biological databases and resources.

Authors:  Christina Chandras; Thomas Weaver; Michael Zouberakis; Damian Smedley; Klaus Schughart; Nadia Rosenthal; John M Hancock; George Kollias; Paul N Schofield; Vassilis Aidinis
Journal:  Database (Oxford)       Date:  2009-10-23       Impact factor: 3.451

2.  Genomic information infrastructure after the deluge.

Authors:  Julian Parkhill; Ewan Birney; Paul Kersey
Journal:  Genome Biol       Date:  2010-07-26       Impact factor: 13.583

  2 in total
  9 in total

1.  Taking the next step: building an Arabidopsis information portal.

Authors: 
Journal:  Plant Cell       Date:  2012-06-29       Impact factor: 11.277

2.  The Arabidopsis information resource: Making and mining the "gold standard" annotated reference plant genome.

Authors:  Tanya Z Berardini; Leonore Reiser; Donghui Li; Yarik Mezheritsky; Robert Muller; Emily Strait; Eva Huala
Journal:  Genesis       Date:  2015-08-04       Impact factor: 2.487

3.  From bench to bountiful harvests: a road map for the next decade of Arabidopsis research.

Authors:  Irene Lavagi; Mark Estelle; Wolfram Weckwerth; Jim Beynon; Ruth M Bastow
Journal:  Plant Cell       Date:  2012-06-29       Impact factor: 11.277

4.  The Plant Organelles Database 2 (PODB2): an updated resource containing movie data of plant organelle dynamics.

Authors:  Shoji Mano; Tomoki Miwa; Shuh-ichi Nishikawa; Tetsuro Mimura; Mikio Nishimura
Journal:  Plant Cell Physiol       Date:  2010-11-28       Impact factor: 4.927

5.  Arabidopsis bioinformatics resources: The current state, challenges, and priorities for the future.

Authors: 
Journal:  Plant Direct       Date:  2019-01-04

6.  Building a successful international research community through data sharing: The case of the Wheat Information System (WheatIS).

Authors:  Taner Z Sen; Mario Caccamo; David Edwards; Hadi Quesneville
Journal:  F1000Res       Date:  2020-06-05

7.  PhosPhAt goes kinases--searchable protein kinase target information in the plant phosphorylation site database PhosPhAt.

Authors:  Monika Zulawski; Rostyslav Braginets; Waltraud X Schulze
Journal:  Nucleic Acids Res       Date:  2012-11-20       Impact factor: 16.971

8.  The 3,000 rice genomes project: new opportunities and challenges for future rice research.

Authors:  Jia-Yang Li; Jun Wang; Robert S Zeigler
Journal:  Gigascience       Date:  2014-05-28       Impact factor: 6.524

9.  Making open data work for plant scientists.

Authors:  Sabina Leonelli; Nicholas Smirnoff; Jonathan Moore; Charis Cook; Ruth Bastow
Journal:  J Exp Bot       Date:  2013-09-16       Impact factor: 6.992

  9 in total

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