Mathieu Blanchette (computational biologist) – Wikipedia

Computational biologist and professor

Mathieu Daniel Blanchette is a computational biologist and Associate Professor in the School of Computer Science at McGill University. His research focuses on developing new algorithms for the detection of functional regions in DNA sequences.[1][3][4][5][6][7][8][9][10]


Blanchette studied mathematics and computer science at Bachelor of Science (1997) level, before studying computer science at Master of Science (1998) level, both at the Université de Montréal. He gained his PhD from the University of Washington in 2002, under the supervision of Martin Tompa.[2][11] His thesis, titled Algorithms for phylogenetic footprinting,[2] presented the first reasonable algorithm for gene order phylogeny and elaborated on phylogenetic footprinting.[12] Following this, he worked as a postdoctoral researcher at the Center for Biomolecular Science and Engineering at the University of California, Santa Cruz, working with David Haussler.[11][12]


Blanchette became Associate Professor in the McGill University School of Computer Science in 2002. His research[1][4][5] focuses on developing computational methods for detecting functional regions in DNA sequences. His postdoctoral work developed algorithms for reconstructing ancestral mammalian genomes. His recent work continues this path, particularly with regard to developing algorithms for inferring gene regulation.[3][12][13][14][15]

Awards and honours[edit]

Blanchette was awarded the ISCB Overton Prize in 2006, recognising his “fundamental, highly cited contributions in several areas of bioinformatics”.[12] He was awarded a Sloan Research Fellowship in 2007.[16]

Blanchette has served on the Editorial Board of the journal Genome Research and as of 2014, serves on the Editorial Board of the journal Algorithms for Molecular Biology.[11][17]


  1. ^ a b c Mathieu Blanchette publications indexed by Google Scholar Edit this at Wikidata
  2. ^ a b c Blanchette, Mathieu Daniel (2002). Algorithms for Phylogenetic Footprinting (PhD thesis). University of Washington. ProQuest 305515226.
  3. ^ a b “Mathieu Blanchette – Assistant Professor, School of Computer Science, McGill University”. Retrieved 2 March 2014.
  4. ^ a b Mathieu Blanchette at DBLP Bibliography Server Edit this at Wikidata
  5. ^ a b Blanchette, Mathieu’s publications indexed by the Scopus bibliographic database. (subscription required)
  6. ^ Blanchette, M.; Kent, W. J.; Riemer, C.; Elnitski, L.; Smit, A. F.; Roskin, K. M.; Baertsch, R.; Rosenbloom, K.; Clawson, H.; Green, E. D.; Haussler, D.; Miller, W. (2004). “Aligning Multiple Genomic Sequences with the Threaded Blockset Aligner”. Genome Research. 14 (4): 708–715. doi:10.1101/gr.1933104. PMC 383317. PMID 15060014.
  7. ^ Thomas, J. W.; Touchman, J. W.; Blakesley, R. W.; Bouffard, G. G.; Beckstrom-Sternberg, S. M.; Margulies, E. H.; Blanchette, M; Siepel, A. C.; Thomas, P. J.; McDowell, J. C.; Maskeri, B; Hansen, N. F.; Schwartz, M. S.; Weber, R. J.; Kent, W. J.; Karolchik, D; Bruen, T. C.; Bevan, R; Cutler, D. J.; Schwartz, S; Elnitski, L; Idol, J. R.; Prasad, A. B.; Lee-Lin, S. Q.; Maduro, V. V.; Summers, T. J.; Portnoy, M. E.; Dietrich, N. L.; Akhter, N; et al. (2003). “Comparative analyses of multi-species sequences from targeted genomic regions”. Nature. 424 (6950): 788–93. Bibcode:2003Natur.424..788T. doi:10.1038/nature01858. PMID 12917688. S2CID 2419233.
  8. ^ Blanchette, M; Tompa, M (2002). “Discovery of regulatory elements by a computational method for phylogenetic footprinting”. Genome Research. 12 (5): 739–48. doi:10.1101/gr.6902. PMC 186562. PMID 11997340.
  9. ^ Guillemette, B; Bataille, A. R.; Gévry, N; Adam, M; Blanchette, M; Robert, F; Gaudreau, L (2005). “Variant histone H2A.Z is globally localized to the promoters of inactive yeast genes and regulates nucleosome positioning”. PLOS Biology. 3 (12): e384. doi:10.1371/journal.pbio.0030384. PMC 1275524. PMID 16248679. open access
  10. ^ Margulies, E. H.; Blanchette, M; NISC Comparative Sequencing Program; Haussler, D; Green, E. D. (2003). “Identification and characterization of multi-species conserved sequences”. Genome Research. 13 (12): 2507–18. doi:10.1101/gr.1602203. PMC 403793. PMID 14656959.
  11. ^ a b c “CompleteCV-2015” (PDF). Retrieved 26 April 2021.
  12. ^ a b c d Maisel, M. (2006). “ISCB Honors Michael S. Waterman and Mathieu Blanchette”. PLOS Computational Biology. 2 (8): e105. Bibcode:2006PLSCB…2..105M. doi:10.1371/journal.pcbi.0020105. PMC 1526462. open access
  13. ^ Blanchette, M; Green, E. D.; Miller, W; Haussler, D (2004). “Reconstructing large regions of an ancestral mammalian genome in silico”. Genome Research. 14 (12): 2412–23. doi:10.1101/gr.2800104. PMC 534665. PMID 15574820.
  14. ^ Blanchette, M (2012). “Exploiting ancestral mammalian genomes for the prediction of human transcription factor binding sites”. BMC Bioinformatics. 13 Suppl 19: S2. doi:10.1186/1471-2105-13-S19-S2. PMC 3526440. PMID 23281809. open access
  15. ^ Chen, X; Blanchette, M (2007). “Prediction of tissue-specific cis-regulatory modules using Bayesian networks and regression trees”. BMC Bioinformatics. 8 Suppl 10: S2. doi:10.1186/1471-2105-8-S10-S2. PMC 2230503. PMID 18269696. open access
  16. ^ “McGill gets four Sloans”. Retrieved 2 March 2014.
  17. ^ “Algorithms for Molecular Biology – Editorial Board”. Retrieved 2 March 2014.