Literature DB >> 21924170

Data extraction, transformation, and dissemination through ZFIN.

Douglas G Howe1, Ken Frazer, David Fashena, Leyla Ruzicka, Yvonne Bradford, Sridhar Ramachandran, Barbara J Ruef, Ceri Van Slyke, Amy Singer, Monte Westerfield.   

Abstract

The publication of a research article is the beginning of the digital life of its associated data. In this article, we will present an overview of how data are incorporated into ZFIN, with a particular emphasis on helping researchers make their work accessible to online databases.
Copyright © 2011 Elsevier Inc. All rights reserved.

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Year:  2011        PMID: 21924170      PMCID: PMC6322538          DOI: 10.1016/B978-0-12-374814-0.00017-3

Source DB:  PubMed          Journal:  Methods Cell Biol        ISSN: 0091-679X            Impact factor:   1.441


  10 in total

1.  A transposon-mediated gene trap approach identifies developmentally regulated genes in zebrafish.

Authors:  Koichi Kawakami; Hisashi Takeda; Noriko Kawakami; Makoto Kobayashi; Naoto Matsuda; Masayoshi Mishina
Journal:  Dev Cell       Date:  2004-07       Impact factor: 12.270

2.  The zebrafish genome project: sequence analysis and annotation.

Authors:  Kerstin Jekosch
Journal:  Methods Cell Biol       Date:  2004       Impact factor: 1.441

3.  The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration.

Authors:  Barry Smith; Michael Ashburner; Cornelius Rosse; Jonathan Bard; William Bug; Werner Ceusters; Louis J Goldberg; Karen Eilbeck; Amelia Ireland; Christopher J Mungall; Neocles Leontis; Philippe Rocca-Serra; Alan Ruttenberg; Susanna-Assunta Sansone; Richard H Scheuermann; Nigam Shah; Patricia L Whetzel; Suzanna Lewis
Journal:  Nat Biotechnol       Date:  2007-11       Impact factor: 54.908

4.  Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources.

Authors:  Da Wei Huang; Brad T Sherman; Richard A Lempicki
Journal:  Nat Protoc       Date:  2009       Impact factor: 13.491

5.  The Sequence Ontology: a tool for the unification of genome annotations.

Authors:  Karen Eilbeck; Suzanna E Lewis; Christopher J Mungall; Mark Yandell; Lincoln Stein; Richard Durbin; Michael Ashburner
Journal:  Genome Biol       Date:  2005-04-29       Impact factor: 13.583

6.  GeneTools--application for functional annotation and statistical hypothesis testing.

Authors:  Vidar Beisvag; Frode K R Jünge; Hallgeir Bergum; Lars Jølsum; Stian Lydersen; Clara-Cecilie Günther; Heri Ramampiaro; Mette Langaas; Arne K Sandvik; Astrid Laegreid
Journal:  BMC Bioinformatics       Date:  2006-10-24       Impact factor: 3.169

7.  The Vertebrate Genome Annotation (Vega) database.

Authors:  J L Ashurst; C-K Chen; J G R Gilbert; K Jekosch; S Keenan; P Meidl; S M Searle; J Stalker; R Storey; S Trevanion; L Wilming; T Hubbard
Journal:  Nucleic Acids Res       Date:  2005-01-01       Impact factor: 16.971

8.  An ontology for cell types.

Authors:  Jonathan Bard; Seung Y Rhee; Michael Ashburner
Journal:  Genome Biol       Date:  2005-01-14       Impact factor: 13.583

9.  GOEAST: a web-based software toolkit for Gene Ontology enrichment analysis.

Authors:  Qi Zheng; Xiu-Jie Wang
Journal:  Nucleic Acids Res       Date:  2008-05-16       Impact factor: 16.971

10.  AmiGO: online access to ontology and annotation data.

Authors:  Seth Carbon; Amelia Ireland; Christopher J Mungall; ShengQiang Shu; Brad Marshall; Suzanna Lewis
Journal:  Bioinformatics       Date:  2008-11-25       Impact factor: 6.937

  10 in total
  2 in total

1.  Introducing Explorer of Taxon Concepts with a case study on spider measurement matrix building.

Authors:  Hong Cui; Dongfang Xu; Steven S Chong; Martin Ramirez; Thomas Rodenhausen; James A Macklin; Bertram Ludäscher; Robert A Morris; Eduardo M Soto; Nicolás Mongiardino Koch
Journal:  BMC Bioinformatics       Date:  2016-11-17       Impact factor: 3.169

2.  Zebrafish information network, the knowledgebase for Danio rerio research.

Authors:  Yvonne M Bradford; Ceri E Van Slyke; Leyla Ruzicka; Amy Singer; Anne Eagle; David Fashena; Douglas G Howe; Ken Frazer; Ryan Martin; Holly Paddock; Christian Pich; Sridhar Ramachandran; Monte Westerfield
Journal:  Genetics       Date:  2022-04-04       Impact factor: 4.562

  2 in total

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