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PMID: 24234449 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

FlyBase 102--advanced approaches to interrogating FlyBase.

Nucleic acids research ·Vol. 42 ·No. Database issue ·2014-01-00 ·Pages D780-8

St Pierre SE, Ponting L, Stefancsik R, McQuilton P, FlyBase Consortium

Abstract

FlyBase (http://flybase.org) is the leading website and database of Drosophila genes and genomes. Whether you are using the fruit fly Drosophila melanogaster as an experimental system or wish to understand Drosophila biological knowledge in relation to human disease or to other model systems, FlyBase can help you successfully find the information you are looking for. Here, we demonstrate some of our more advanced searching systems and highlight some of our new tools for searching the wealth of data on FlyBase. The first section explores gene function in FlyBase, using our TermLink tool to search with Controlled Vocabulary terms and our new RNA-Seq Search tool to search gene expression. The second section of this article describes a few ways to search genomic data in FlyBase, using our BLAST server and the new implementation of GBrowse 2, as well as our new FeatureMapper tool. Finally, we move on to discuss our most powerful search tool, QueryBuilder, before describing pre-computed cuts of the data and how to query the database programmatically.

MeSH Terms

Animals Databases, Genetic Drosophila/genetics Drosophila melanogaster/genetics Gene Expression Profiling Gene Ontology Genes, Insect Genome, Insect Internet Phenotype Sequence Analysis, RNA

Authors & Affiliations

5 authors, click to expand affiliations / ORCID

St Pierre Susan E

The Biological Laboratories, Harvard University, 16 Divinity Avenue, Cambridge, MA 02138, USA and Department of Genetics, University of Cambridge, Downing Street, Cambridge CB2 3EH, UK.

Ponting Laura

Stefancsik Raymund

McQuilton Peter

FlyBase Consortium

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Article Info

Journal

Nucleic acids research

Abbr.

Nucleic Acids Res

ISSN

1362-4962

DOI

10.1093/nar/gkt1092

Published

2014-01-00

Epub

2013-00-13

Pages

D780-8

Language

English

Region

England

NLM ID

0411011

PMCID

PMC3964969

Subset

Grants

NHGRI NIH HHS · U41 HG000739 · United States

Medical Research Council · G1000968 · United Kingdom

NHGRI NIH HHS · P41 HG00739 · United States

External Links

PubMed source DOI: 10.1093/nar/gkt1092 PMC Full Text View journal details

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