Web, Core Bioinformatics and Software Action Team | Information Communications Technology

Web, Core Bioinformatics and Software Action Team | Information Communications Technology

Web, Core Bioinformatics and Software Action Team

Core Software ServicesSanger Institute, Genome Research Limited

Our Research and Approach

Core Software Services encompasses: the Core Sanger Web Team; Core Bioinformatics (CoreBio); SoftWare Action Team (SWAT) and the Decipher Web Team at the Sanger Institute. As a group the team is involved in the day to day service provision and maintenance of the 50 plus public domains at the Sanger Institute including www.sanger.ac.uk and for developing and realising software projects to deliver the in silico science produced by the various Faculty teams.

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People

Bevan, Andrew
Dr Paul Bevan, MBCS
Group Leader

I manage and oversee the provision of core software services at the Sanger Institute.

Key Projects, Collaborations, Tools & Data

Partners and Funders

We partner with other academic institutes mainly at the consortium level. All our core activities are funded by the Wellcome Trust with some consortia projects funded by biomedical charities.
External Partners and Funders

Publications

  • Genetic diagnosis of developmental disorders in the DDD study: a scalable analysis of genome-wide research data.

    Wright CF, Fitzgerald TW, Jones WD, Clayton S, McRae JF et al.

    Lancet (London, England) 2015;385;9975;1305-14

  • Large-scale discovery of novel genetic causes of developmental disorders.

    Deciphering Developmental Disorders Study

    Nature 2015;519;7542;223-8

  • DECIPHER: database for the interpretation of phenotype-linked plausibly pathogenic sequence and copy-number variation.

    Bragin E, Chatzimichali EA, Wright CF, Hurles ME, Firth HV et al.

    Nucleic acids research 2014;42;Database issue;D993-D1000

  • DECIPHER: web-based, community resource for clinical interpretation of rare variants in developmental disorders.

    Swaminathan GJ, Bragin E, Chatzimichali EA, Corpas M, Bevan AP et al.

    Human molecular genetics 2012;21;R1;R37-44

  • Ensembl variation resources.

    Chen Y, Cunningham F, Rios D, McLaren WM, Smith J et al.

    BMC genomics 2010;11;293

  • Using caching and optimization techniques to improve performance of the Ensembl website.

    Parker A, Bragin E, Brent S, Pritchard B, Smith JA and Trevanion S

    BMC bioinformatics 2010;11;239

  • Ensembl's 10th year.

    Flicek P, Aken BL, Ballester B, Beal K, Bragin E et al.

    Nucleic acids research 2010;38;Database issue;D557-62

  • DECIPHER: Database of Chromosomal Imbalance and Phenotype in Humans Using Ensembl Resources.

    Firth HV, Richards SM, Bevan AP, Clayton S, Corpas M et al.

    American journal of human genetics 2009;84;4;524-33

  • Ensembl 2009.

    Hubbard TJ, Aken BL, Ayling S, Ballester B, Beal K et al.

    Nucleic acids research 2009;37;Database issue;D690-7

  • TranscriptSNPView: a genome-wide catalog of mouse coding variation.

    Cunningham F, Rios D, Griffiths M, Smith J, Ning Z et al.

    Nature genetics 2006;38;8;853

  • Ensembl 2006.

    Birney E, Andrews D, Caccamo M, Chen Y, Clarke L et al.

    Nucleic acids research 2006;34;Database issue;D556-61

  • Ensembl 2005.

    Hubbard T, Andrews D, Caccamo M, Cameron G, Chen Y et al.

    Nucleic acids research 2005;33;Database issue;D447-53

  • An overview of Ensembl.

    Birney E, Andrews TD, Bevan P, Caccamo M, Chen Y et al.

    Genome research 2004;14;5;925-8

  • The Ensembl Web site: mechanics of a genome browser.

    Stalker J, Gibbins B, Meidl P, Smith J, Spooner W et al.

    Genome research 2004;14;5;951-5

  • Ensembl 2004.

    Birney E, Andrews D, Bevan P, Caccamo M, Cameron G et al.

    Nucleic acids research 2004;32;Database issue;D468-70

  • DNA microarrays for comparative genomic hybridization based on DOP-PCR amplification of BAC and PAC clones.

    Fiegler H, Carr P, Douglas EJ, Burford DC, Hunt S et al.

    Genes, chromosomes & cancer 2003;36;4;361-74

  • Ensembl 2002: accommodating comparative genomics.

    Clamp M, Andrews D, Barker D, Bevan P, Cameron G et al.

    Nucleic acids research 2003;31;1;38-42

  • A physical map of the mouse genome.

    Gregory SG, Sekhon M, Schein J, Zhao S, Osoegawa K et al.

    Nature 2002;418;6899;743-50

  • The Ensembl genome database project.

    Hubbard T, Barker D, Birney E, Cameron G, Chen Y et al.

    Nucleic acids research 2002;30;1;38-41