Current Research

• I joined the Plant Pathology group at SCRI in 2008, where I have been doing comparative genetics and other bioinformatics work, with a particular focus on viruses and nematodes (e.g. a project to sequence the potato cyst nematode Globodera pallida).

Research History

• PhD Title: Two-component regulation: modelling, predicting and identifying protein-protein interactions and assessing signalling networks of bacteria.

Recent Publications

• Cock, P.J.A., Fields, C.J., Goto, N., Heuer, M.L., and Rice, P.M. 2009. The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants. Nucleic Acids Research. (doi:10.1093/nar/gkp1137)
• Cock, P.J.A. and Whitworth, D.E. 2009. Evolution of relative reading frame bias in unidirectional prokaryotic gene overlaps. Molecular Biology and Evolution. (doi:10.1093/molbev/msp302)
• Jones, J., et al. 2009. Identification and functional characterisation of effectors in Expressed Sequence Tags from various life cycle stages of the potato cyst nematode Globodera pallida. Molecular Plant Pathology 10(6), 815-828.
• Cock, P.J.A., Antao, T. Chang, J.T., Chapman, B.A., Cox, C.J., Dalke, A., Friedberg, I., Hamelryck, T., Kauff, F., Wilczynski, B., and de Hoon, M.J.L. 2009. Biopython: freely available Python tools for computational molecular biology and bioinformatics. Bioinformatics 25(11), 1422-1423.
• Whitworth, D.E. and Cock, P.J.A. 2009. Evolution of prokaryotic two-component systems: insights from comparative genomics. Amino Acids 37(3), 459-466.
• Whitworth, D.E. and Cock, P.J.A. 2008. Two-component systems of the myxobacteria: structure, diversity and evolutionary relationships. Microbiology 154(2), 360-372.
• Whitworth, D.E. and Cock, P.J.A. 2008. Myxobacterial Two-Component Systems. Chapter 10 in Myxobacteria: Multicellularity and Differentiation (2007, D.E. Whitworth, ed), ASM Press, ISBN: 978-1-55581-420-5.
• Cock, P.J.A. and Whitworth, D.E. 2007. Evolution of prokaryotic two-component system signalling pathways: gene fusions and fissions. Molecular Biology and Evolution 24(11), 2355-2357.
• Cock, P.J.A. and Whitworth, D.E. 2007. Evolution of gene overlaps: relative reading frame bias in prokaryotic two-component system genes. Journal Of Molecular Evolution 64(4), 457-462.

Posters

(View all posters)

Attachment	Size
Bioinformatic Analysis of Palindromes in Bacterial Genome Sequences	412.45 KB
Investigations of the expression of the multipartite mtDNA of Globodera pallida	2.37 MB