Scientific Publications

Citing Ensembl Genomes

To cite the use of Ensembl Genomes, please quote this paper:

Paul J. Kersey, Daniel M. Staines, Daniel Lawson, Eugene Kulesha, Paul Derwent, Jay C. Humphrey, Daniel S. T. Hughes, Stephan Keenan, Arnaud Kerhornou, Gautier Koscielny, Nicholas Langridge, Mark D. McDowall, Karine Megy, Uma Maheswari, Michael Nuhn, Michael Paulini, Helder Pedro, Iliana Toneva, Derek Wilson, Andrew Yates and Ewan Birney
Ensembl Genomes: an integrative resource for genome-scale data from non-vertebrate species
Nucleic acids research, 40 (D1): D91-D97
PMID: 22067447
doi:10.1093/nar/gkr895

Citing Ensembl BioMarts

To cite the use of Ensembl BioMarts, please quote this paper:

R. J. Kinsella, A. Kähäri, S. Haider, J. Zamora, G. Proctor, G. Spudich, J. Almeida-King, D. Staines, P. Derwent, A. Kerhornou, P. Kersey, P. Flicek
Ensembl BioMarts: a hub for data retrieval across taxonomic space
Database, 2011
PMID: 21785142
doi:10.1093/database/bar030

Other publications associated with the Ensembl Genomes project

J. Chan, R. Kishore, P. Sternberg, K. Van Auken
The Gene Ontology: enhancements for 2011
Nucleic Acids Research, 40 (D1): D559-D564
PMID: 22102568
doi:10.1093/nar/gkr1028

K. Howe, P. Davis, M. Paullini, M.A. Tuli, G. Williams, K. Yook, R. Durbin, P. Kersey, P. Sternberg
WormBase: Annotating many nematode genomes
Worm
doi:10.4161/worm.195748

K. Yook, T.W. Harris, T. Bieri, A. Cabunoc, J. Chan, W.J. Chen, P. Davis, N. de la Cruz, A. Duong, R. Fang
WormBase 2012: more genomes, more data, new website
Nucleic acids research, 40 (D1): D735-D741
PMID: 22067452
doi:10.1093/nar/gkr954

V. Wood, M.A. Harris, M.D. McDowall, K. Rutherford, B.W. Vaughan, D.M. Staines, M. Aslett, A. Lock, J. Bähler, P.J. Kersey
PomBase: a comprehensive online resource for fission yeast
Nucleic acids research, 40 (D1): D695-D699
PMID: 22039153
doi:10.1093/nar/gkr853

X. Gan, O. Stegle, J. Behr, J.G. Steffen, P. Drewe, K.L. Hildebrand, R. Lyngsoe, S.J. Schultheiss, E.J. Osborne, V.T. Sreedharan
Multiple reference genomes and transcriptomes for Arabidopsis thaliana
Nature, 477 (7365): 419-423
PMID: 21874022
doi:10.1038/nature10414

R.J. Kinsella, A. Kähäri, S. Haider, J. Zamora, G. Proctor, G. Spudich, J. Almeida-King, D. Staines, P. Derwent, A. Kerhornou
Ensembl BioMarts: a hub for data retrieval across taxonomic space
Database: the journal of biological databases and curation
PMID: 21785142
doi:10.1093/database/bar030

K. Youens-Clark, E. Buckler, T. Casstevens, C. Chen, G. DeClerck, P. Derwent, P. Dharmawardhana, P. Jaiswal, P. Kersey, A.S. Karthikeyan
Gramene database in 2010: updates and extensions
Nucleic acids research, 39 (suppl 1): D1085-D1094
PMID: 21076153
doi:10.1093/nar/gkq1148

R. Bastow, J. Beynon, M. Estelle, J. Friesner, E. Grotewold, I. Lavagi, K. Lindsey, B. Meyers, N. Provart, P. Benfey
An international bioinformatics infrastructure to underpin the Arabidopsis community
Plant Cell, 22 (8): 2530-2536
PMID: 20807877
doi:10.1105/tpc.110.078519

P.J. Kersey, D. Lawson, E. Birney, P.S. Derwent, M. Haimel, J. Herrero, S. Keenan, A. Kerhornou, G. Koscielny, A. Kähäri
Ensembl Genomes: extending Ensembl across the taxonomic space
Nucleic acids research, 38 (suppl 1): D563-D569
PMID: 19884133
doi:10.1093/nar/gkp871

A list of publications linked to the Ensembl project is available here.