Karen Brooks | Computer Biologist - Senior Genome Analyst

This person is a member of Sanger Institute Alumni.

Brooks, Karen

I work to improve helminth genome assemblies using various software tools to exploit available sequence and optical map datasets. I also work to improve structural and functional gene model annotation.

Publications

  • The genomes of four tapeworm species reveal adaptations to parasitism.

    Tsai IJ, Zarowiecki M, Holroyd N, Garciarrubio A, Sánchez-Flores A et al.

    Nature 2013;496;7443;57-63

  • Evolutionary dynamics of Clostridium difficile over short and long time scales.

    He M, Sebaihia M, Lawley TD, Stabler RA, Dawson LF et al.

    Proceedings of the National Academy of Sciences of the United States of America 2010;107;16;7527-32

  • Genomic evidence for the evolution of Streptococcus equi: host restriction, increased virulence, and genetic exchange with human pathogens.

    Holden MT, Heather Z, Paillot R, Steward KF, Webb K et al.

    PLoS pathogens 2009;5;3;e1000346

  • Telomeric expression sites are highly conserved in Trypanosoma brucei.

    Hertz-Fowler C, Figueiredo LM, Quail MA, Becker M, Jackson A et al.

    PloS one 2008;3;10;e3527

  • The genome of the simian and human malaria parasite Plasmodium knowlesi.

    Pain A, Böhme U, Berry AE, Mungall K, Finn RD et al.

    Nature 2008;455;7214;799-803

  • Comparative genome analysis of Salmonella Enteritidis PT4 and Salmonella Gallinarum 287/91 provides insights into evolutionary and host adaptation pathways.

    Thomson NR, Clayton DJ, Windhorst D, Vernikos G, Davidson S et al.

    Genome research 2008;18;10;1624-37

  • The complete genome sequence and comparative genome analysis of the high pathogenicity Yersinia enterocolitica strain 8081.

    Thomson NR, Howard S, Wren BW, Holden MT, Crossman L et al.

    PLoS genetics 2006;2;12;e206

  • The multidrug-resistant human pathogen Clostridium difficile has a highly mobile, mosaic genome.

    Sebaihia M, Wren BW, Mullany P, Fairweather NF, Minton N et al.

    Nature genetics 2006;38;7;779-86

  • The genome of the African trypanosome Trypanosoma brucei.

    Berriman M, Ghedin E, Hertz-Fowler C, Blandin G, Renauld H et al.

    Science (New York, N.Y.) 2005;309;5733;416-22

  • Genome sequence of the enterobacterial phytopathogen Erwinia carotovora subsp. atroseptica and characterization of virulence factors.

    Bell KS, Sebaihia M, Pritchard L, Holden MT, Hyman LJ et al.

    Proceedings of the National Academy of Sciences of the United States of America 2004;101;30;11105-10

  • Genomic plasticity of the causative agent of melioidosis, Burkholderia pseudomallei.

    Holden MT, Titball RW, Peacock SJ, Cerdeño-Tárraga AM, Atkins T et al.

    Proceedings of the National Academy of Sciences of the United States of America 2004;101;39;14240-5

  • Sequence of Plasmodium falciparum chromosomes 1, 3-9 and 13.

    Hall N, Pain A, Berriman M, Churcher C, Harris B et al.

    Nature 2002;419;6906;527-31

  • The genome sequence of Schizosaccharomyces pombe.

    Wood V, Gwilliam R, Rajandream MA, Lyne M, Lyne R et al.

    Nature 2002;415;6874;871-80

  • Complete genome sequence of a multiple drug resistant Salmonella enterica serovar Typhi CT18.

    Parkhill J, Dougan G, James KD, Thomson NR, Pickard D et al.

    Nature 2001;413;6858;848-52

  • Genome sequence of Yersinia pestis, the causative agent of plague.

    Parkhill J, Wren BW, Thomson NR, Titball RW, Holden MT et al.

    Nature 2001;413;6855;523-7

  • Complete DNA sequence of a serogroup A strain of Neisseria meningitidis Z2491.

    Parkhill J, Achtman M, James KD, Bentley SD, Churcher C et al.

    Nature 2000;404;6777;502-6

  • The complete nucleotide sequence of chromosome 3 of Plasmodium falciparum.

    Bowman S, Lawson D, Basham D, Brown D, Chillingworth T et al.

    Nature 1999;400;6744;532-8

  • Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence.

    Cole ST, Brosch R, Parkhill J, Garnier T, Churcher C et al.

    Nature 1998;393;6685;537-44

  • The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.

    Bowman S, Churcher C, Badcock K, Brown D, Chillingworth T et al.

    Nature 1997;387;6632 Suppl;90-3

  • The nucleotide sequence of Saccharomyces cerevisiae chromosome IX.

    Churcher C, Bowman S, Badcock K, Bankier A, Brown D et al.

    Nature 1997;387;6632 Suppl;84-7

Brooks, Karen