Dr Jane Lomax | Senior Bioinformatician

This person is a member of Sanger Institute Alumni.

Lomax, Jane

I am a bioinformatician for WormBase in the Parasite Genomics group, working specifically on parasitic nematodes. I work with the parasite research community to bring new data into WormBase and help develop new tools and presentations of the data and educate the community on their use. I also curate and process many different types of data for inclusion in WormBase. My interests are in standards for data annotation, metadata standards and biomedical ontologies, data-mining, micro-and macroparsite genomics, metagenomics and Next Generation Sequencing technologies.

Before working at WTSI I co-ordinated development of the Gene Ontology, a major bioinformatics project to standardise the description of functional data, at the European Bioinformatics Institute and was involved in many efforts relating to ontologies and standards such as the Open Biomedical Foundries (OBO). Prior to this I researched the population genetics of filarial nematodes at the Univeristy of Cambridge focussing on study population of Wuchereria bancrofti in Papua New Guinea.

Publications

  • Representing virus-host interactions and other multi-organism processes in the Gene Ontology.

    Foulger RE, Osumi-Sutherland D, McIntosh BK, Hulo C, Masson P et al.

    BMC microbiology 2015;15;146

  • A method for increasing expressivity of Gene Ontology annotations using a compositional approach.

    Huntley RP, Harris MA, Alam-Faruque Y, Blake JA, Carbon S et al.

    BMC bioinformatics 2014;15;155

  • TermGenie - a web-application for pattern-based ontology class generation.

    Dietze H, Berardini TZ, Foulger RE, Hill DP, Lomax J et al.

    Journal of biomedical semantics 2014;5;48

  • Dovetailing biology and chemistry: integrating the Gene Ontology with the ChEBI chemical ontology.

    Hill DP, Adams N, Bada M, Batchelor C, Berardini TZ et al.

    BMC genomics 2013;14;513

  • Cross-product extensions of the Gene Ontology.

    Mungall CJ, Bada M, Berardini TZ, Deegan J, Ireland A et al.

    Journal of biomedical informatics 2011;44;1;80-6

  • Ontology engineering.

    Alterovitz G, Xiang M, Hill DP, Lomax J, Liu J et al.

    Nature biotechnology 2010;28;2;128-30

  • Get ready to GO! A biologist's guide to the Gene Ontology.

    Lomax J

    Briefings in bioinformatics 2005;6;3;298-304

  • Relations in biomedical ontologies.

    Smith B, Ceusters W, Klagges B, Köhler J, Kumar A et al.

    Genome biology 2005;6;5;R46

  • The Gene Ontology (GO) database and informatics resource.

    Harris MA, Clark J, Ireland A, Lomax J, Ashburner M et al.

    Nucleic acids research 2004;32;Database issue;D258-61

  • Mapping the gene ontology into the unified medical language system.

    Lomax J and McCray AT

    Comparative and functional genomics 2004;5;4;354-61

  • Quality assurance of the gene ontology using abstraction networks.

    Ochs C, Perl Y, Halper M, Geller J and Lomax J

    Journal of bioinformatics and computational biology 2016;14;3;1642001

  • Representing virus-host interactions and other multi-organism processes in the Gene Ontology.

    Foulger RE, Osumi-Sutherland D, McIntosh BK, Hulo C, Masson P et al.

    BMC microbiology 2015;15;146

  • A method for increasing expressivity of Gene Ontology annotations using a compositional approach.

    Huntley RP, Harris MA, Alam-Faruque Y, Blake JA, Carbon S et al.

    BMC bioinformatics 2014;15;155

  • TermGenie - a web-application for pattern-based ontology class generation.

    Dietze H, Berardini TZ, Foulger RE, Hill DP, Lomax J et al.

    Journal of biomedical semantics 2014;5;48

  • Dovetailing biology and chemistry: integrating the Gene Ontology with the ChEBI chemical ontology.

    Hill DP, Adams N, Bada M, Batchelor C, Berardini TZ et al.

    BMC genomics 2013;14;513

  • Cross-product extensions of the Gene Ontology.

    Mungall CJ, Bada M, Berardini TZ, Deegan J, Ireland A et al.

    Journal of biomedical informatics 2011;44;1;80-6

  • 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 et al.

    Microbiology and molecular biology reviews : MMBR 2010;74;4;479-503

  • Ontology engineering.

    Alterovitz G, Xiang M, Hill DP, Lomax J, Liu J et al.

    Nature biotechnology 2010;28;2;128-30

  • Applying the Gene Ontology in microbial annotation.

    Giglio MG, Collmer CW, Lomax J and Ireland A

    Trends in microbiology 2009;17;7;262-8

  • AmiGO: online access to ontology and annotation data.

    Carbon S, Ireland A, Mungall CJ, Shu S, Marshall B et al.

    Bioinformatics (Oxford, England) 2009;25;2;288-9

  • Get ready to GO! A biologist's guide to the Gene Ontology.

    Lomax J

    Briefings in bioinformatics 2005;6;3;298-304

  • It's all GO for plant scientists.

    Clark JI, Brooksbank C and Lomax J

    Plant physiology 2005;138;3;1268-79

  • Relations in biomedical ontologies.

    Smith B, Ceusters W, Klagges B, Köhler J, Kumar A et al.

    Genome biology 2005;6;5;R46

  • The Gene Ontology (GO) database and informatics resource.

    Harris MA, Clark J, Ireland A, Lomax J, Ashburner M et al.

    Nucleic acids research 2004;32;Database issue;D258-61

  • Mapping the gene ontology into the unified medical language system.

    Lomax J and McCray AT

    Comparative and functional genomics 2004;5;4;354-61

  • 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 and Amos W

    Proceedings. Biological sciences / The Royal Society 2003;270;1518;979-84

Lomax, Jane