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. 2010. The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants. Nucleic Acids Research 38(6), 1767-1771.
• Cock, P.J.A. and Whitworth, D.E. 2010. Evolution of relative reading frame bias in unidirectional prokaryotic gene overlaps. Molecular Biology and Evolution 27(4), 753-756.
• 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
Raspberry leaf blotch virus a new virus isolated from raspberry (Rubus idaeus)	1.1 MB
Functional analysis of pioneer effectors from Globodera pallida	963.1 KB