Ben Blackburne
I currently work in the Faculty of Life Sciences at the University of Manchester in the group of Simon Whelan.
Before this, I worked at the Wellcome Trust Sanger Institute and the National Institute for Medical Research. I did my PhD at The University of Nottingham.
Current Projects
MetAl is a tool in Haskell for measuring the distance between alternative sequence alignments.
Modiphy is a library in Scala for implementing phylogenetic models.
Phyhs is a similar (experimental) library in Haskell.
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
- Measuring the distance between multiple sequence alignments
- Blackburne, B.P. and Whelan, S.
- Bioinformatics doi:10.1093/bioinformatics/btr701
- Phylogenetic substitution models for detecting heterotachy during plastid evolution
- Whelan, S., Blackburne, B.P. and Spencer, M.
- Molecular Biology and Evolution doi:10.1093/molbev/msq215
- 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.
Book Chapter
- Matt Wood and Ben Blackburne. Life in Data: The Story of DNA. In Beautiful Data, Toby Segaran and Jeff Hammerbacher (eds.)
Contact
- Twitter: bpb
- Email: benjamin.blackburne@manchester.ac.uk