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Peter Cock

Staff picture: Peter Cock
Controlling Weeds, Pests and Diseases
Information and Computational Sciences
Bioinformatician / Computational Biologist
peter.cock@hutton.ac.uk
+44 (0)344 928 5428 (*)

The James Hutton Institute
Invergowrie
Dundee DD2 5DA
Scotland UK

 

I joined the Institute in 2008, where I have been doing comparative genetics and other bioinformatics work, with a particular focus on viruses and nematodes (for example, a project to sequence the potato cyst nematode Globodera pallida, an economically important plant pest here in Scotland).

Current research interests

My applied work on particular plant pathogens requires programming and scripting. My language of choice is Python, and since my PhD I have used and contributed to the Biopython libraries. Biology is becoming increasingly a big-data science, with technologies like microarrays and now high throughput sequencing, and dealing with this kind of data and associated tools and file formats forms a large part of my work. I have therefore spend some of my time to Bioinformatics file format standardisation efforts.

I try to release most of my code as open source, mostly on GitHub but I also use Bitbucket. I also serve on the board of the Open Bioinformatics Foundation (OBF) as secretary and as co-chair of the OBF organised Bioinformatics Open Source Conference (BOSC).

I started writing an (external) blog Blasted Bioinformatics!? on the hands-on computational side of my work in 2011.

Past research

I completed my PhD at the University of Warwick's MOAC Doctoral Training Centre, titled Two-component regulation: modelling, predicting and identifying protein-protein interactions and assessing signalling networks of bacteria.

Bibliography

  • Cock, P.; Pritchard, L., (2014) Galaxy as a platform for identifying candidate pathogen effectors., In: Birch, P.R.J., Jones, J.T. & Bos, J.I.B. (eds.). Plant-Pathogen Interactions: Methods and Protocols. Methods in Molecular Biology, Volume 1127. Humana Press, New York, 2nd ed. Chapter 1, 3-15.
  • Whitworth, D.E.; Cock, P.J.A., (2008) Two-component signal transduction systems of the Myxobacteria., In: Whitworth, D.E. (ed.). Myxobacteria: Multicellularity and Differentiation. ASM Press, Washington, D.C., pp169-190.

Printed from /staff/peter-cock on 12/12/18 04:07:01 PM

The James Hutton Research Institute is the result of the merger in April 2011 of MLURI and SCRI. This merger formed a new powerhouse for research into food, land use, and climate change.