Ben Blackburne
I currently work in the Faculty of Life Sciences at the University of Manchester.
Before this, I was at the Wellcome Trust Sanger Institute and the National Institute for Medical Research. I did my PhD at The University of Nottingham.
Current Projects
Rome is a probabilitic method to determine structure variations in DNA from new sequencing data.
Modiphy is a library in Scala for implementing phylogenetic models.
TLF is a Trivial Logging Framework for Scala
Blog Posts
Some recent posts from my blog:
- 03 Sep 2009 Using RJB to manipulate SAM files in Ruby
- 17 Jun 2009 Querying db4o in Scala
Papers
- Mutation spectrum revealed by breakpoint sequencing of human germline CNVs
- Conrad et al.
- Nature Genetics doi:10.1038/ng.564
- Changing Selective Pressure during Antigenic Changes in Human Influenza H3
- Blackburne, B. P., Hay A. H. & Goldstein, R. A.
- PLoS Pathogens 4(5): e1000058
- Assessing the Accuracy of Ancestral Protein Reconstruction Methods
- Williams, P. D., Pollock, D. D., Blackburne, B. P. & Goldstein, R. A.
- PLoS Computational Biology 2 (6): e69.
- Population Dynamics Simulations of Functional Model Proteins
- Blackburne, B.P. & Hirst, J.D.
- Journal of Chemical Physics 123, 154907 (2005).
- Copyright (2005) American Institute of Physics. This article may be downloaded for personal use only. Any other use requires prior permission of the author and the American Institute of Physics.
- Three Dimensional Functional Model Proteins: Structure, Function and Evolution
- Blackburne, B.P. & Hirst, J.D.
- Journal of Chemical Physics 119, 6 3453-3460 (2003).
- Copyright (2003) American Institute of Physics. This article may be downloaded for personal use only. Any other use requires prior permission of the author and the American Institute of Physics.
- Multimeme Algorithms for Protein Structure Prediction
- Krasnogor, N., Blackburne, B.P., Hirst, J.D., and Burke, E.K.,
- Proceedings of Parallel Problem Solving From Nature, 2002, Lecture Notes in Computer Science.
- Evolution of Functional Model Proteins
- Blackburne, B.P. & Hirst, J.D.
- Journal of Chemical Physics, 115, 1935-1942 (2001).
- Copyright (2001) American Institute of Physics. This article may be downloaded for personal use only. Any other use requires prior permission of the author and the American Institute of Physics.
Presentations
SSAHA_pileup is a variation detection pipeline. I gave this presentation about it at AGBT2008.
Contact
- Twitter: bpb
- Jabber: bpb@lysozyme.net
- Email: benjamin.blackburne@manchester.ac.uk