Richard M. Durbin

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Richard Durbin
Richard Durbin, Wellcome-Sanger, Cambridge, UK (2698443141).jpg
Richard Durbin in his office at WTSI
Born Richard Michael Durbin
(1960-12-30) 30 December 1960 (age 53)[1]
Nationality British
Fields Genomics
Bioinformatics
Human genetics
Computational biology[2]
Institutions University of Cambridge
Laboratory of Molecular Biology
Harvard University
Wellcome Trust Sanger Institute
Highgate School
King's College, Cambridge
Alma mater St John's College, Cambridge
Thesis Studies on the development and organisation of the nervous system of Caenorhabditis elegans (1987)
Doctoral advisor John G. White[3]
Doctoral students Ewan Birney[4]
Other notable students Sean Eddy
Heng Li
(postdocs)
Known for bioinformatics and computational biology
Notable awards EMBO member (2009)[5]
Mullard Award (1994)
Fellow of the Royal Society (2004)
Doctor of Philosophy[3]
Spouse Julie Ahringer[1]
Website
sanger.ac.uk/research/faculty/rdurbin

Richard Michael Durbin, FRS, born (1960-12-30) 30 December 1960 (age 53),[1] is a British computational biologist. He is joint head of Human genetics at the Wellcome Trust Sanger Institute and leader of the Genome Informatics group.[6][7]

Education[edit]

Durbin was educated at The Hall School Hampstead[citation needed] and Highgate School in London.[1] After competing in the 1978/9 International Mathematical Olympiad,[8] he went on to study at the University of Cambridge graduating in 1982[9] with a first class honours degree on the Cambridge Mathematical Tripos. After graduating, he continued to study for a PhD[3] at St John's College, Cambridge[1] studying the development and organisation of the nervous system of Caenorhabditis elegans[10] whilst working at the Laboratory of Molecular Biology (LMB) in Cambridge.

Research[edit]

Durbin's early work included developing the primary instrument software for one of the first X-ray crystallography area detectors [11] and the MRC Biorad confocal microscope, alongside contributions to neural modelling.[12][13]

He then led the informatics for the C. elegans genome project,[14] and alongside Jean Thierry-Mieg developed the genome database AceDB, which evolved into the WormBase web resource. Following this he played an important role in data collection for and interpretation of the human genome sequence.[15]

He has developed numerous methods for computational sequence analysis.[16][17] These include gene finding (e.g. GeneWise) with Ewan Birney[18] and Hidden Markov models for protein and nucleic acid alignment and matching (e.g. HMMER) with Sean Eddy and Graeme Mitchison. A standard textbook "Biological Sequence Analysis" coauthored with Sean Eddy, Anders Krogh and Graeme Mitchison[19] describes some of this work. Using these methods Durbin worked with colleagues to build a series of important genomic data resources, including the protein family database Pfam,[20] the genome database Ensembl,[21] and the gene family database TreeFam.[22]

More recently Durbin has returned to sequencing and has developed low coverage approaches to population genome sequencing, applied first to yeast,[23][24] and has been one of the leaders in the application of new sequencing technology to study human genome variation.[25][26] Durbin currently co-leads the international 1000 Genomes Project to characterise variation down to 1% allele frequency as a foundation for human genetics.

Awards[edit]

Durbin was a joint winner of the Mullard Award of the Royal Society in 1994 (for work on the confocal microscope), won the Lord Lloyd of Kilgerran Award of the Foundation for Science and Technology in 2004, and was elected a Fellow of the Royal Society in 2004[2][27][28] and a member of the European Molecular Biology Organization (EMBO) in 2009.

Durbin's candidacy for the Royal Society reads:

"Durbin is distinguished for his powerful contribution to computational biology. In particular, he played a leading role in establishing the new field of bioinformatics. This allows the handling of biological data on an unprecedented scale, enabling genomics to prosper. He led the analysis of the C. elegans genome, and with Thierry-Mieg developed the database software ACEDB. In the international genome project he led the analysis of protein coding genes. He introduced key computational tools in software and data handling. His Pfam database allowed the identification of domains in new protein sequences; it used hidden Markov models to which approach generally he brought rigour and which led to covariance models for RNA sequence.."[29]

Personal[edit]

Durbin is the son of James Durbin and is married to Julie Ahringer, a scientist at the Gurdon Institute. They have two children.[1]

References[edit]

  1. ^ a b c d e f "DURBIN, Richard Michael". Who's Who 2013, A & C Black, an imprint of Bloomsbury Publishing plc, 2013; online edn, Oxford University Press. (subscription required)
  2. ^ a b List of publications from Google Scholar
  3. ^ a b c Durbin, Richard (1987). Studies on the development and organisation of the nervous system of Caenorhabditis elegans (PhD thesis). University of Cambridge. 
  4. ^ Birney, Ewan (2000). Sequence alignment in bioinformatics (PhD thesis). University of Cambridge. 
  5. ^ http://www.biochemist.org/society/page.htm?item=37150 EMBO welcomes 66 leading life scientists as members
  6. ^ "Dr Richard Durbin - Wellcome Trust Sanger Institute". Archived from the original on 2012-03-05. 
  7. ^ Richard M. Durbin from the Scopus bibliographic database
  8. ^ Richard M. Durbin's results at the International Mathematical Olympiad
  9. ^ "The BioInformer nr. 1, 1997 -- Interview with Dr. Richard Durbin". Archived from the original on 2011-07-30. Retrieved 2011-07-30. 
  10. ^ Durbin, Richard (1987). Studies on the development and organisation of the nervous system of Caenorhabditis elegans (Ph.D. thesis). University of Cambridge. 
  11. ^ Durbin, R. M.; Burns, R.; Moulai, J.; Metcalf, P.; Freymann, D.; Blum, M.; Anderson, J. E.; Harrison, S. C.; Wiley, D. C. (1986). "Protein, DNA, and virus crystallography with a focused imaging proportional counter". Science 232 (4754): 1127–1132. doi:10.1126/science.3704639. PMID 3704639.  edit
  12. ^ Durbin, R.; Willshaw, D. (1987). "An analogue approach to the travelling salesman problem using an elastic net method". Nature 326 (6114): 689–691. doi:10.1038/326689a0. PMID 3561510.  edit
  13. ^ Durbin, R.; Mitchison, G. (1990). "A dimension reduction framework for understanding cortical maps". Nature 343 (6259): 644–647. doi:10.1038/343644a0. PMID 2304536.  edit
  14. ^ c. Elegans Sequencing, C. (1998). "Genome sequence of the nematode C. Elegans: A platform for investigating biology". Science 282 (5396): 2012–2018. doi:10.1126/science.282.5396.2012. PMID 9851916.  edit
  15. ^ Lander, E. S.; Linton, M.; Birren, B.; Nusbaum, C.; Zody, C.; Baldwin, J.; Devon, K.; Dewar, K.; Doyle, M.; Fitzhugh, W.; Funke, R.; Gage, D.; Harris, K.; Heaford, A.; Howland, J.; Kann, L.; Lehoczky, J.; Levine, R.; McEwan, P.; McKernan, K.; Meldrim, J.; Mesirov, J. P.; Miranda, C.; Morris, W.; Naylor, J.; Raymond, C.; Rosetti, M.; Santos, R.; Sheridan, A. et al. (Feb 2001). "Initial sequencing and analysis of the human genome". Nature 409 (6822): 860–921. doi:10.1038/35057062. ISSN 0028-0836. PMID 11237011.  edit
  16. ^ Simpson, J. T.; Durbin, R. (2011). "Efficient de novo assembly of large genomes using compressed data structures". Genome Research 22 (3): 549–556. doi:10.1101/gr.126953.111. PMC 3290790. PMID 22156294.  edit
  17. ^ Eilbeck, K.; Lewis, S. E.; Mungall, C. J.; Yandell, M.; Stein, L.; Durbin, R.; Ashburner, M. (2005). "The Sequence Ontology: A tool for the unification of genome annotations". Genome Biology 6 (5): R44. doi:10.1186/gb-2005-6-5-r44. PMC 1175956. PMID 15892872.  edit
  18. ^ Birney, E.; Durbin, R. (2000). "Using GeneWise in the Drosophila annotation experiment". Genome Research 10 (4): 547–548. doi:10.1101/gr.10.4.547. PMC 310858. PMID 10779496.  edit
  19. ^ Durbin, Richard M.; Eddy, Sean R.; Krogh, Anders; Mitchison, Graeme (1998), Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids (1st ed.), Cambridge: Cambridge University Press, doi:10.2277/0521629713, ISBN 0-521-62971-3 
  20. ^ Sonnhammer, E. L. L.; Eddy, S. R.; Durbin, R. (1997). "Pfam: A comprehensive database of protein domain families based on seed alignments". Proteins: Structure, Function, and Genetics 28 (3): 405–420. doi:10.1002/(SICI)1097-0134(199707)28:3<405::AID-PROT10>3.0.CO;2-L. PMID 9223186.  edit
  21. ^ Hubbard, T.; Barker, D.; Birney, E.; Cameron, G.; Chen, Y.; Clark, L.; Cox, T.; Cuff, J.; Curwen, V.; Down, T.; Durbin, R.; Eyras, E.; Gilbert, J.; Hammond, M.; Huminiecki, L.; Kasprzyk, A.; Lehvaslaiho, H.; Lijnzaad, P.; Melsopp, C.; Mongin, E.; Pettett, R.; Pocock, M.; Potter, S.; Rust, A.; Schmidt, E.; Searle, S.; Slater, G.; Smith, J.; Spooner, W.; Stabenau, A. (2002). "The Ensembl genome database project". Nucleic Acids Research 30 (1): 38–41. doi:10.1093/nar/30.1.38. PMC 99161. PMID 11752248.  edit
  22. ^ Li, H.; Coghlan, A.; Ruan, J.; Coin, L. J.; Hériché, J. K.; Osmotherly, L.; Li, R.; Liu, T.; Zhang, Z.; Bolund, L.; Wong, G. K.; Zheng, W.; Dehal, P.; Wang, J.; Durbin, R. (2006). "TreeFam: A curated database of phylogenetic trees of animal gene families". Nucleic Acids Research 34 (90001): D572–D580. doi:10.1093/nar/gkj118. PMC 1347480. PMID 16381935.  edit
  23. ^ Liti, G.; Carter, D. M.; Moses, A. M.; Warringer, J.; Parts, L.; James, S. A.; Davey, R. P.; Roberts, I. N.; Burt, A.; Koufopanou, V.; Tsai, I. J.; Bergman, C. M.; Bensasson, D.; O'Kelly, M. J. T.; Van Oudenaarden, A.; Barton, D. B. H.; Bailes, E.; Nguyen, A. N.; Jones, M.; Quail, M. A.; Goodhead, I.; Sims, S.; Smith, F.; Blomberg, A.; Durbin, R.; Louis, E. J. (2009). "Population genomics of domestic and wild yeasts". Nature 458 (7236): 337–341. doi:10.1038/nature07743. PMC 2659681. PMID 19212322.  edit
  24. ^ Warringer, J.; Zörgö, E.; Cubillos, F. A.; Zia, A.; Gjuvsland, A.; Simpson, J. T.; Forsmark, A.; Durbin, R.; Omholt, S. W.; Louis, E. J.; Liti, G.; Moses, A.; Blomberg, A. (2011). "Trait variation in yeast is defined by population history". In Kruglyak, Leonid. PLoS genetics 7 (6): e1002111. doi:10.1371/journal.pgen.1002111. PMC 3116910. PMID 21698134.  edit
  25. ^ Bentley, D. R.; Balasubramanian, S.; Swerdlow, H. P.; Smith, G. P.; Milton, J.; Brown, C. G.; Hall, K. P.; Evers, D. J.; Barnes, C. L.; Bignell, H. R.; Boutell, J. M.; Bryant, J.; Carter, R. J.; Keira Cheetham, R.; Cox, A. J.; Ellis, D. J.; Flatbush, M. R.; Gormley, N. A.; Humphray, S. J.; Irving, L. J.; Karbelashvili, M. S.; Kirk, S. M.; Li, H.; Liu, X.; Maisinger, K. S.; Murray, L. J.; Obradovic, B.; Ost, T.; Parkinson, M. L.; Pratt, M. R. (2008). "Accurate whole human genome sequencing using reversible terminator chemistry". Nature 456 (7218): 53–59. doi:10.1038/nature07517. PMC 2581791. PMID 18987734.  edit
  26. ^ Li, H.; Durbin, R. (2011). "Inference of human population history from individual whole-genome sequences". Nature 475 (7357): 493–496. doi:10.1038/nature10231. PMID 21753753.  edit
  27. ^ List of publications from Microsoft Academic Search
  28. ^ List of publications from the DBLP Bibliography Server
  29. ^ "Library and Archive Catalogue". London: The Royal Society. Retrieved 2013-11-14. 

External links[edit]