databases > DOI:10.25504/FAIRsharing.x6d6sx

ready Bgee DataBase for Gene Expression Evolution

Abbreviation:Bgee

General Information
Bgee is a database to retrieve and compare gene expression patterns in multiple animal species, produced from multiple data types (RNA-Seq, Affymetrix, in situ hybridization, and EST data). Bgee is based exclusively on curated "normal", healthy, expression data (e.g., no gene knock-out, no treatment, no disease), to provide a comparable reference of normal gene expression. Bgee produces calls of presence/absence of expression, and of differential over-/under-expression, integrated along with information of gene orthology, and of homology between organs. This allows comparisons of expression patterns between species.




How to cite this record FAIRsharing.org: Bgee; Bgee DataBase for Gene Expression Evolution; DOI: https://doi.org/10.25504/FAIRsharing.x6d6sx; Last edited: March 15, 2019, 12:35 p.m.; Last accessed: Mar 19 2019 10:07 a.m.


This record is maintained by marcrr  ORCID

Record updated: March 15, 2019, 11:57 a.m. by The FAIRsharing Team.

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Data Access




Publications

Uncovering hidden duplicated content in public transcriptomics data.

Rosikiewicz M., Comte A., Niknejad A., Robinson-Rechavi M., Bastian FB.,
Database (Oxford) 2013

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Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon.

Haendel MA,Balhoff JP,Bastian FB,Blackburn DC,Blake JA,Bradford Y,Comte A,Dahdul WM,Dececchi TA,Druzinsky RE,Hayamizu TF,Ibrahim N,Lewis SE,Mabee PM,Niknejad A,Robinson-Rechavi M,Sereno PC,Mungall CJ
J Biomed Semantics 2014

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vHOG, a multispecies vertebrate ontology of homologous organs groups.

Niknejad A,Comte A,Parmentier G,Roux J,Bastian FB,Robinson-Rechavi M
Bioinformatics 2012

View Paper (PubMed) View Publication

Bgee: Integrating and Comparing Heterogeneous Transcriptome Data Among Species

Frederic Bastian, Gilles Parmentier, Julien Roux, Sebastien Moretti, Vincent Laudet, Marc Robinson-Rechavi
Lecture Notes in Computer Science 2008

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BgeeDB, an R package for retrieval of curated expression datasets and for gene list expression localization enrichment tests.

Komljenovic A,Roux J,Wollbrett J,Robinson-Rechavi M,Bastian FB
F1000Res 2016

View Paper (PubMed) View Publication

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Grant Number(s)

  • 31003A 133011/1 (Swiss National Science Foundation (SNSF), Switzerland)

  • 31003A_153341 (Swiss National Science Foundation (SNSF), Switzerland)

  • DBI -1062350 (National Science Foundation (NSF), USA)

  • DBI-0641025 (National Science Foundation (NSF), USA)

  • DBI-1062404 (National Science Foundation (NSF), USA)

  • DBI-1062542 (National Science Foundation (NSF), USA)

  • EF-0423641 (The National Evolutionary Synthesis Center (NESCent), USA)

  • EF-0905606 (The National Evolutionary Synthesis Center (NESCent), USA)