Jane Lomax

Jane Lomax

Coordinator, Gene Ontology Editorial Office

ORCID iD: 0000-0001-8865-4321

Tel:+44 (0)1223 492 516 / Fax:+44 (0)1223 494 468

Publications

2014

A method for increasing expressivity of Gene Ontology annotations using a compositional approach.
Huntley RP, Harris MA, Alam-Faruque Y, Blake JA, Carbon S, Dietze H, Dimmer EC, Foulger RE, Hill DP, Khodiyar VK, Lock A, Lomax J, Lovering RC, Mutowo-Meullenet P, Sawford T, Van Auken K, Wood V, Mungall CJ.
BMC Bioinformatics Volume 15 (2014) p.155
DOI: 10.1186/1471-2105-15-155

Interdisciplinary perspectives on the development, integration, and application of cognitive ontologies.
Hastings J, Frishkoff GA, Smith B, Jensen M, Poldrack RA, Lomax J, Bandrowski A, Imam F, Turner JA, Martone ME.
Front Neuroinform Volume 8 (2014) p.62
DOI: 10.3389/fninf.2014.00062

An integrated ontology resource to explore and study host-virus relationships.
Masson P, Hulo C, de Castro E, Foulger R, Poux S, Bridge A, Lomax J, Bougueleret L, Xenarios I, Le Mercier P.
PLoS One Volume 9 (2014) p.e108075
DOI: 10.1371/journal.pone.0108075

Genetic resources for advanced biofuel production described with the Gene Ontology.
Torto-Alalibo T, Purwantini E, Lomax J, Setubal JC, Mukhopadhyay B, Tyler BM.
Front Microbiol Volume 5 (2014) p.528
DOI: 10.3389/fmicb.2014.00528

2013

Dovetailing biology and chemistry: integrating the Gene Ontology with the ChEBI chemical ontology.
Hill DP, Adams N, Bada M, Batchelor C, Berardini TZ, Dietze H, Drabkin HJ, Ennis M, Foulger RE, Harris MA, Hastings J, Kale NS, de Matos P, Mungall CJ, Owen G, Roncaglia P, Steinbeck C, Turner S, Lomax J.
BMC Genomics Volume 14 (2013) p.513
DOI: 10.1186/1471-2164-14-513

Gene Ontology annotations and resources.
Gene Ontology Consortium, Blake JA, Dolan M, Drabkin H, Hill DP, Li N, Sitnikov D, Bridges S, Burgess S, Buza T, McCarthy F, Peddinti D, Pillai L, Carbon S, Dietze H, Ireland A, Lewis SE, Mungall CJ, Gaudet P, Chrisholm RL, Fey P, Kibbe WA, Basu S, Siegele DA, McIntosh BK, Renfro DP, Zweifel AE, Hu JC, Brown NH, Tweedie S, Alam-Faruque Y, Apweiler R, Auchinchloss A, Axelsen K, Bely B, Blatter M-, Bonilla C, Bouguerleret L, Boutet E, Breuza L, Bridge A, Chan WM, Chavali G, Coudert E, Dimmer E, Estreicher A, Famiglietti L, Feuermann M, Gos A, Gruaz-Gumowski N, Hieta R, Hinz C, Hulo C, Huntley R, James J, Jungo F, Keller G, Laiho K, Legge D, Lemercier P, Lieberherr D, Magrane M, Martin MJ, Masson P, Mutowo-Muellenet P, O'Donovan C, Pedruzzi I, Pichler K, Poggioli D, Porras Millán P, Poux S, Rivoire C, Roechert B, Sawford T, Schneider M, Stutz A, Sundaram S, Tognolli M, Xenarios I, Foulgar R, Lomax J, Roncaglia P, Khodiyar VK, Lovering RC, Talmud PJ, Chibucos M, Giglio MG, Chang H-, Hunter S, McAnulla C, Mitchell A, Sangrador A, Stephan R, Harris MA, Oliver SG, Rutherford K, Wood V, Bahler J, Lock A, Kersey PJ, McDowall DM, Staines DM, Dwinell M, Shimoyama M, Laulederkind S, Hayman T, Wang S-, Petri V, Lowry T, D'Eustachio P, Matthews L, Balakrishnan R, Binkley G, Cherry JM, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hitz BC, Hong EL, Karra K, Miyasato SR, Nash RS, Park J, Skrzypek MS, Weng S, Wong ED, Berardini TZ, Huala E, Mi H, Thomas PD, Chan J, Kishore R, Sternberg P, Van Auken K, Howe D, Westerfield M.
Nucleic Acids Res Volume 41 (2013) p.d530-5
DOI: 10.1093/nar/gks1050

The Gene Ontology (GO) Cellular Component Ontology: integration with SAO (Subcellular Anatomy Ontology) and other recent developments.
Roncaglia P, Martone ME, Hill DP, Berardini TZ, Foulger RE, Imam FT, Drabkin H, Mungall CJ, Lomax J.
J Biomed Semantics Volume 4 (2013) p.20
DOI: 10.1186/2041-1480-4-20

2012

The Gene Ontology: enhancements for 2011.
Gene Ontology Consortium.
Nucleic Acids Res Volume 40 (2012) p.d559-64
DOI: 10.1093/nar/gkr1028

2011

Cross-product extensions of the Gene Ontology.
Mungall CJ, Bada M, Berardini TZ, Deegan J, Ireland A, Harris MA, Hill DP, Lomax J.
J Biomed Inform Volume 44 (2011) p.80-86
DOI: 10.1016/j.jbi.2010.02.002

How the gene ontology evolves.
Leonelli S, Diehl AD, Christie KR, Harris MA, Lomax J.
BMC Bioinformatics Volume 12 (2011) p.325
DOI: 10.1186/1471-2105-12-325

2010

Unifying themes in microbial associations with animal and plant hosts described using the gene ontology.
Torto-Alalibo T, Collmer CW, Gwinn-Giglio M, Lindeberg M, Meng S, Chibucos MC, Tseng TT, Lomax J, Biehl B, Ireland A, Bird D, Dean RA, Glasner JD, Perna N, Setubal JC, Collmer A, Tyler BM.
Microbiol Mol Biol Rev Volume 74 (2010) p.479-503
DOI: 10.1128/mmbr.00017-10

Ontology engineering.
Alterovitz G, Xiang M, Hill DP, Lomax J, Liu J, Cherkassky M, Dreyfuss J, Mungall C, Harris MA, Dolan ME, Blake JA, Ramoni MF.
Nat Biotechnol Volume 28 (2010) p.128-130
DOI: 10.1038/nbt0210-128

The Gene Ontology in 2010: extensions and refinements.
Gene Ontology Consortium.
Nucleic Acids Res Volume 38 (2010) p.d331-5
DOI: 10.1093/nar/gkp1018

2009

AmiGO: online access to ontology and annotation data.
Carbon S, Ireland A, Mungall CJ, Shu S, Marshall B, Lewis S, AmiGO Hub, Web Presence Working Group.
Bioinformatics Volume 25 (2009) p.288-289
DOI: 10.1093/bioinformatics/btn615

Survey-based naming conventions for use in OBO Foundry ontology development.
Schober D, Smith B, Lewis SE, Kusnierczyk W, Lomax J, Mungall C, Taylor CF, Rocca-Serra P, Sansone SA.
BMC Bioinformatics Volume 10 (2009) p.125
DOI: 10.1186/1471-2105-10-125

Applying the Gene Ontology in microbial annotation.
Giglio MG, Collmer CW, Lomax J, Ireland A.
Trends Microbiol Volume 17 (2009) p.262-268
DOI: 10.1016/j.tim.2009.04.003

2005

It's all GO for plant scientists.
Clark JI, Brooksbank C, Lomax J.
Plant Physiol Volume 138 (2005) p.1268-1279
DOI: 10.1104/pp.104.058529

Relations in biomedical ontologies.
Smith B, Ceusters W, Klagges B, Köhler J, Kumar A, Lomax J, Mungall C, Neuhaus F, Rector AL, Rosse C.
Genome Biol Volume 6 (2005) p.r46
DOI: 10.1186/gb-2005-6-5-r46

Get ready to GO! A biologist's guide to the Gene Ontology.
Lomax J.
Brief Bioinform Volume 6 (2005) p.298-304
DOI: 10.1093/bib/6.3.298

2004

The Gene Ontology (GO) database and informatics resource.
Harris MA, Clark J, Ireland A, Lomax J, Ashburner M, Foulger R, Eilbeck K, Lewis S, Marshall B, Mungall C, Richter J, Rubin GM, Blake JA, Bult C, Dolan M, Drabkin H, Eppig JT, Hill DP, Ni L, Ringwald M, Balakrishnan R, Cherry JM, Christie KR, Costanzo MC, Dwight SS, Engel S, Fisk DG, Hirschman JE, Hong EL, Nash RS, Sethuraman A, Theesfeld CL, Botstein D, Dolinski K, Feierbach B, Berardini T, Mundodi S, Rhee SY, Apweiler R, Barrell D, Camon E, Dimmer E, Lee V, Chisholm R, Gaudet P, Kibbe W, Kishore R, Schwarz EM, Sternberg P, Gwinn M, Hannick L, Wortman J, Berriman M, Wood V, de la Cruz N, Tonellato P, Jaiswal P, Seigfried T, White R, Gene Ontology Consortium.
Nucleic Acids Res Volume 32 (2004) p.d258-61

Mapping the gene ontology into the unified medical language system.
Lomax J, McCray AT.
Comp Funct Genomics Volume 5 (2004) p.354-361
DOI: 10.1002/cfg.407

2003

Unravelling dispersal patterns in an expanding population of a highly mobile seabird, the northern fulmar (Fulmarus glacialis).
Burg TM, Lomax J, Almond R, Brooke Mde L, Amos W.
Proc Biol Sci Volume 270 (2003) p.979-984
DOI: 10.1098/rspb.2002.2322

Services

GO