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Penny Coggill

Research Interests

I worked in Stephan Beck's Immunogenomics group at the Sanger Institute taking over the every-day running of a large collaborative gene-mapping project for the human MHC to track down haplotypic variations that mihgt inform the causes of seven auto-immune diseases. Eight different haplotypes had been chosen, from subjects whose alleles were essentially consanguineous; I mapped these libraries of BAC clones, fingerprinted them, and selected an overlapping set of BACs  for a final sequenced tile-path across the whole MHC for each of the eight haplotypes. I also assisted in the gene-annotation. The same approach was used to map, sequence and annotate the gorilla MHC, and both the human and the gorilla LRC genes. I am now analysing multiple sequence alignments of immunological proteins.

Keywords

KIR ; gene-annotation ; MHC ; protein sequence alignments

Key Publications

Siddle HV, Deakin JE, Coggill P, Whilming LG, Harrow J, Kaufman J, Beck S, Belov K. The tammar wallaby major histocompatibility complex shows evidence of past genomic instability. BMC Genomics. 2011 Aug 19;12:421. doi: 10.1186/1471-2164-12-421.

Chang C, Coggill P, Bateman A, Finn RD, Cymborowski M, Otwinowski Z, Minor W, Volkart L, Joachimiak A.The structure of pyogenecin immunity protein, a novel bacteriocin-like immunity protein from Streptococcus pyogenes. BMC Struct Biol. 2009 Dec 17;9:75. doi: 10.1186/1472-6807-9-75.

Averdam A, Petersen B, Rosner C, Neff J, Roos C, Eberle M, Aujard F, Münch C, Schempp W, Carrington M, Shiina T, Inoko H, Knaust F, Coggill P, Sehra H, Beck S, Abi-Rached L, Reinhardt R, Walter L. A novel system of polymorphic and diverse NK cell receptors in primates. PLoS Genet. 2009 Oct;5(10):e1000688. doi: 10.1371/journal.pgen.1000688.

Siddle HV, Deakin JE, Coggill P, Hart E, Cheng Y, Wong ES, Harrow J, Beck S, Belov K. MHC-linked and un-linked class I genes in the wallaby. BMC Genomics. 2009 Jul 14;10:310. doi: 10.1186/1471-2164-10-310.

Horton R, Gibson R, Coggill P, Miretti M, Allcock RJ, Almeida J, Forbes S, Gilbert JG, Halls K, Harrow JL, Hart E, Howe K, Jackson DK, Palmer S, Roberts AN, Sims S, Stewart CA, Traherne JA, Trevanion S, Wilming L, Rogers J, de Jong PJ, Elliott JF, Sawcer S, Todd JA, Trowsdale J, Beck S. Variation analysis and gene annotation of eight MHC haplotypes: the MHC Haplotype Project. Immunogenetics. 2008 Jan;60(1):1-18.

Finn RD, Tate J, Mistry J, Coggill PC, Sammut SJ, Hotz HR, Ceric G, Forslund K, Eddy SR, Sonnhammer EL, Bateman A. The Pfam protein families database. Nucleic Acids Res. 2008 Jan;36(Database issue):D281-8.