default search action
Google
Google Scholar
Semantic Scholar
Internet Archive Scholar
CiteSeerX
ORCIDMathieu Blanchette
Person information
- affiliation: McGill University, Montreal, Canada
Refine list
refinements active!
zoomed in on ?? of ?? records
view refined list in
export refined list as
showing all ?? records
2020 – today
- 2024
[j40]Arnaud Chol, Roman Sarrazin-Gendron, Eric Lécuyer, Mathieu Blanchette
, Jérôme Waldispühl:
PERFUMES: pipeline to extract RNA functional motifs and exposed structures. Bioinform. 40(2) (2024)- [j39]Chrisostomos Drogaris, Yanlin Zhang, Eric Zhang, Elena Nazarova, Roman Sarrazin-Gendron, Sélik Wilhelm-Landry, Yan Cyr, Jacek Majewski, Mathieu Blanchette, Jérôme Waldispühl:
ARGV: 3D genome structure exploration using augmented reality. BMC Bioinform. 25(1): 277 (2024) - [c36]Eddie Cai, Roman Sarrazin-Gendron, Renata Mutalova, Parham Ghasemloo Gheidari, Alexander Butyaev, Gabriel Richard, Sébastien Caisse, Rob Knight, Mathieu Blanchette, Attila Szantner, Jérôme Waldispühl:
Learning the Game: Decoding the Differences between Novice and Expert Players in a Citizen Science Game with Millions of Players. FDG 2024: 31 - [c35]Ming-Yang Zhou, Zichao Yan, Elliot Layne, Nikolay Malkin, Dinghuai Zhang, Moksh Jain, Mathieu Blanchette, Yoshua Bengio:
PhyloGFN: Phylogenetic inference with generative flow networks. ICLR 2024 - [i5]Elliot Layne, Jason S. Hartford, Sébastien Lachapelle, Mathieu Blanchette, Dhanya Sridhar:
Leveraging Structure Between Environments: Phylogenetic Regularization Incentivizes Disentangled Representations. CoRR abs/2405.20482 (2024) - [i4]Lazar Atanackovic, Xi Zhang, Brandon Amos, Mathieu Blanchette, Leo J. Lee, Yoshua Bengio, Alexander Tong, Kirill Neklyudov:
Meta Flow Matching: Integrating Vector Fields on the Wasserstein Manifold. CoRR abs/2408.14608 (2024) - 2023
- [j38]Yanlin Zhang, Mathieu Blanchette:
Reference panel-guided super-resolution inference of Hi-C data. Bioinform. 39(Supplement-1): 386-393 (2023) - [j37]Yanlin Zhang, Christopher J. F. Cameron, Mathieu Blanchette:
Posterior inference of Hi-C contact frequency through sampling. Frontiers Bioinform. 3 (2023) - [c34]Renata Mutalova, Roman Sarrazin-Gendron, Eddie Cai, Gabriel Richard, Parham Ghasemloo Gheidari, Sébastien Caisse, Rob Knight, Mathieu Blanchette, Attila Szantner, Jérôme Waldispühl:
Playing the System: Can Puzzle Players Teach us How to Solve Hard Problems? CHI 2023: 679:1-679:15 - [c33]Renata Mutalova, Roman Sarrazin-Gendron, Parham Ghasemloo Gheidari, Eddie Cai, Gabriel Richard, Sébastien Caisse, Rob Knight, Mathieu Blanchette, Attila Szantner, Jérôme Waldispühl:
Player-Guided AI outperforms standard AI in Sequence Alignment Puzzles. CI 2023: 53-62 - [i3]Mingyang Zhou, Zichao Yan, Elliot Layne, Nikolay Malkin, Dinghuai Zhang, Moksh Jain, Mathieu Blanchette, Yoshua Bengio:
PhyloGFN: Phylogenetic inference with generative flow networks. CoRR abs/2310.08774 (2023) - 2021
- [c32]Zichao Yan, William L. Hamilton, Mathieu Blanchette:
Neural representation and generation for RNA secondary structures. ICLR 2021 - [i2]Zichao Yan, William L. Hamilton, Mathieu Blanchette:
Neural representation and generation for RNA secondary structures. CoRR abs/2102.00925 (2021) - 2020
- [j36]Jeremy Georges-Filteau, Richard C. Hamelin, Mathieu Blanchette:
Mycorrhiza: genotype assignment using phylogenetic networks. Bioinform. 36(1): 212-220 (2020) - [j35]Zichao Yan, William L. Hamilton, Mathieu Blanchette:
Graph neural representational learning of RNA secondary structures for predicting RNA-protein interactions. Bioinform. 36(Supplement-1): i276-i284 (2020) - [j34]Dongjoon Lim, Mathieu Blanchette:
EvoLSTM: context-dependent models of sequence evolution using a sequence-to-sequence LSTM. Bioinform. 36(Supplement-1): i353-i361 (2020) - [j33]Louis Philip Benoit Bouvrette, Samantha Bovaird, Mathieu Blanchette, Eric Lécuyer:
oRNAment: a database of putative RNA binding protein target sites in the transcriptomes of model species. Nucleic Acids Res. 48(Database-Issue): D166-D173 (2020) - [c31]Faizy Ahsan, Alexandre Drouin, François Laviolette, Doina Precup, Mathieu Blanchette:
Phylogenetic Manifold Regularization: A semi-supervised approach to predict transcription factor binding sites. BIBM 2020: 62-66 - [i1]Jeremy Georges-Filteau, Richard C. Hamelin, Mathieu Blanchette:
Mycorrhiza: Genotype Assignment usingPhylogenetic Networks. CoRR abs/2010.09483 (2020)
2010 – 2019
- 2019
- [j32]Krister M. Swenson, Mathieu Blanchette:
Large-scale mammalian genome rearrangements coincide with chromatin interactions. Bioinform. 35(14): i117-i126 (2019) - [j31]Zichao Yan, Eric Lécuyer, Mathieu Blanchette:
Prediction of mRNA subcellular localization using deep recurrent neural networks. Bioinform. 35(14): i333-i342 (2019) - 2018
- [c30]Jaspal Singh, Ramchalam Kinattinkara Ramakrishnan, Mathieu Blanchette:
Detection of Errors in Multi-genome Alignments Using Machine Learning Approaches. BIBE 2018: 47-53 - [c29]Ramchalam Kinattinkara Ramakrishnan, Jaspal Singh, Mathieu Blanchette:
RLALIGN: A Reinforcement Learning Approach for Multiple Sequence Alignment. BIBE 2018: 61-66 - [e1]Mathieu Blanchette, Aïda Ouangraoua:
Comparative Genomics - 16th International Conference, RECOMB-CG 2018, Magog-Orford, QC, Canada, October 9-12, 2018, Proceedings. Lecture Notes in Computer Science 11183, Springer 2018, ISBN 978-3-030-00833-8 [contents] - 2017
- [j30]Emmanuel Noutahi, Virginie Calderon, Mathieu Blanchette, B. Franz Lang, Nadia El-Mabrouk:
CoreTracker: accurate codon reassignment prediction, applied to mitochondrial genomes. Bioinform. 33(21): 3331-3339 (2017) - [c28]Akash Singh, Faizy Ahsan, Mathieu Blanchette, Jérôme Waldispühl:
Lessons from an Online Massive Genomics Computer Game. HCOMP 2017: 177-186 - 2016
- [j29]Krister M. Swenson, Pijus Simonaitis, Mathieu Blanchette:
Models and algorithms for genome rearrangement with positional constraints. Algorithms Mol. Biol. 11: 13 (2016) - [c27]Faizy Ahsan, Doina Precup, Mathieu Blanchette:
Prediction of Cell Type Specific Transcription Factor Binding Site Occupancy. BCB 2016: 497-498 - [r2]Mathieu Blanchette:
Substring Parsimony. Encyclopedia of Algorithms 2016: 2129-2131 - 2015
- [j28]Pablo Cingolani, Rob Sladek, Mathieu Blanchette:
BigDataScript: a scripting language for data pipelines. Bioinform. 31(1): 10-16 (2015) - [c26]Krister M. Swenson, Mathieu Blanchette:
Models and Algorithms for Genome Rearrangement with Positional Constraints. WABI 2015: 243-256 - 2014
- [c25]Jérôme Waldispühl, Mathieu Blanchette:
Phylo and Open-Phylo: A Human-Computing Platform for Comparative Genomics. HCOMP 2014: 73-74 - 2013
- [j27]Yang Zhang, Yann Ponty, Mathieu Blanchette, Eric Lécuyer, Jérôme Waldispühl:
SPARCS: a web server to analyze (un)structured regions in coding RNA sequences. Nucleic Acids Res. 41(Webserver-Issue): 480-485 (2013) - 2012
- [j26]Mathieu Blanchette:
Exploiting ancestral mammalian genomes for the prediction of human transcription factor binding sites. BMC Bioinform. 13(S-19): S2 (2012) - [j25]Yves Gagnon, Mathieu Blanchette, Nadia El-Mabrouk:
A flexible ancestral genome reconstruction method based on gapped adjacencies. BMC Bioinform. 13(S-19): S4 (2012) - [c24]Mathieu Blanchette, Ethan Kim, Adrian Vetta:
Clique Cover on Sparse Networks. ALENEX 2012: 93-102 - 2011
- [j24]Javad Sadri, Abdoulaye Baniré Diallo, Mathieu Blanchette:
Predicting site-specific human selective pressure using evolutionary signatures. Bioinform. 27(13): 266-274 (2011) - [j23]Mathieu Rousseau, James Fraser, Maria A. Ferraiuolo, Josee Dostie, Mathieu Blanchette:
Three-dimensional modeling of chromatin structure from interaction frequency data using Markov chain Monte Carlo sampling. BMC Bioinform. 12: 414 (2011) - [j22]Emmanuel Mongin, Ken Dewar, Mathieu Blanchette:
Mapping Association between Long-Range cis-Regulatory Regions and Their Target Genes Using Synteny. J. Comput. Biol. 18(9): 1115-1130 (2011) - [j21]Glenn Hickey, Mathieu Blanchette:
A Probabilistic Model for Sequence Alignment with Context-Sensitive Indels. J. Comput. Biol. 18(11): 1449-1464 (2011) - [j20]Glenn Hickey, Mathieu Blanchette, Paz Carmi, Anil Maheshwari, Norbert Zeh:
An Approximation Algorithm for the Noah's Ark Problem with Random Feature Loss. IEEE ACM Trans. Comput. Biol. Bioinform. 8(2): 551-556 (2011) - [c23]Glenn Hickey, Mathieu Blanchette:
A Probabilistic Model for Sequence Alignment with Context-Sensitive Indels. RECOMB 2011: 85-103 - 2010
- [j19]Ethan Kim, Ashish Sabharwal, Adrian Vetta, Mathieu Blanchette:
Predicting direct protein interactions from affinity purification mass spectrometry data. Algorithms Mol. Biol. 5: 34 (2010) - [j18]Abdoulaye Baniré Diallo, Vladimir Makarenkov, Mathieu Blanchette:
Ancestors 1.0: a web server for ancestral sequence reconstruction. Bioinform. 26(1): 130-131 (2010) - [j17]Mathieu Lavallée-Adam, Benoit Coulombe, Mathieu Blanchette:
Detection of Locally Over-Represented GO Terms in Protein-Protein Interaction Networks. J. Comput. Biol. 17(3): 443-457 (2010) - [j16]James R. Wagner, Bing Ge, Dmitry Pokholok, Kevin L. Gunderson, Tomi Pastinen, Mathieu Blanchette:
Computational Analysis of Whole-Genome Differential Allelic Expression Data in Human. PLoS Comput. Biol. 6(7) (2010) - [c22]Glenn Hickey, Mathieu Blanchette:
A Practical Algorithm for Estimation of the Maximum Likelihood Ancestral Reconstruction Error. Pacific Symposium on Biocomputing 2010: 31-42 - [c21]Emmanuel Mongin, Ken Dewar, Mathieu Blanchette:
Mapping Association between Long-Range Cis-Regulatory Regions and Their Target Genes Using Comparative Genomics. RECOMB-CG 2010: 216-227 - [c20]Denis Bertrand, Yves Gagnon, Mathieu Blanchette, Nadia El-Mabrouk:
Reconstruction of Ancestral Genome Subject to Whole Genome Duplication, Speciation, Rearrangement and Loss. WABI 2010: 78-89
2000 – 2009
- 2009
- [j15]Abdoulaye Baniré Diallo, Dunarel Badescu, Mathieu Blanchette, Vladimir Makarenkov:
A Whole Genome Study and Identification of Specific Carcinogenic Regions of the Human Papilloma Viruses. J. Comput. Biol. 16(10): 1461-1473 (2009) - [j14]Denis Bertrand, Mathieu Blanchette, Nadia El-Mabrouk:
Genetic Map Refinement Using a Comparative Genomic Approach. J. Comput. Biol. 16(10): 1475-1486 (2009) - [c19]Mathieu Lavallée-Adam, Benoit Coulombe, Mathieu Blanchette:
Detection of Locally Over-Represented GO Terms in Protein-Protein Interaction Networks. RECOMB 2009: 302-320 - 2008
- [j13]François Fauteux, Mathieu Blanchette, Martina V. Stromvik:
Seeder: discriminative seeding DNA motif discovery. Bioinform. 24(20): 2303-2307 (2008) - [j12]Martin A. Smith, Mathieu Blanchette, Barbara Papadopoulou:
Improving the prediction of mRNA extremities in the parasitic protozoan Leishmania. BMC Bioinform. 9 (2008) - [c18]Dunarel Badescu, Abdoulaye Baniré Diallo, Mathieu Blanchette, Vladimir Makarenkov:
An Evolutionary Study of the Human Papillomavirus Genomes. RECOMB-CG 2008: 128-142 - [c17]Denis Bertrand, Mathieu Blanchette, Nadia El-Mabrouk:
A Phylogenetic Approach to Genetic Map Refinement. RECOMB-CG 2008: 198-210 - [r1]Mathieu Blanchette:
Substring Parsimony. Encyclopedia of Algorithms 2008 - 2007
- [j11]Xiaoyu Chen, Mathieu Blanchette:
Prediction of tissue-specific cis-regulatory modules using Bayesian networks and regression trees. BMC Bioinform. 8(S-10) (2007) - [j10]Guillaume Blin, Eric Blais, Danny Hermelin, Pierre Guillon, Mathieu Blanchette, Nadia El-Mabrouk:
Gene Maps Linearization Using Genomic Rearrangement Distances. J. Comput. Biol. 14(4): 394-407 (2007) - [j9]Abdoulaye Baniré Diallo, Vladimir Makarenkov, Mathieu Blanchette:
Exact and Heuristic Algorithms for the Indel Maximum Likelihood Problem. J. Comput. Biol. 14(4): 446-461 (2007) - [j8]Vincent Ferretti, Christian Poitras, Dominique Bergeron, Benoit Coulombe, François Robert, Mathieu Blanchette:
PReMod: a database of genome-wide mammalian cis-regulatory module predictions. Nucleic Acids Res. 35(Database-Issue): 122-126 (2007) - 2006
- [j7]Leonid Chindelevitch, Zhentao Li, Eric Blais, Mathieu Blanchette:
On the Inference of Parsimonious Indel Evolutionary Scenarios. J. Bioinform. Comput. Biol. 4(3): 721-744 (2006) - [j6]Fei Fang, Mathieu Blanchette:
FootPrinter3: phylogenetic footprinting in partially alignable sequences. Nucleic Acids Res. 34(Web-Server-Issue): 617-620 (2006) - [c16]Eric Blais, Mathieu Blanchette:
Common Substrings in Random Strings. CPM 2006: 129-140 - [c15]Guillaume Blin, Eric Blais, Pierre Guillon, Mathieu Blanchette, Nadia El-Mabrouk:
Inferring Gene Orders from Gene Maps Using the Breakpoint Distance. Comparative Genomics 2006: 99-112 - [c14]Éric Gaul, Mathieu Blanchette:
Ordering Partially Assembled Genomes Using Gene Arrangements. Comparative Genomics 2006: 113-128 - [c13]Abdoulaye Baniré Diallo, Vladimir Makarenkov, Mathieu Blanchette:
Finding Maximum Likelihood Indel Scenarios. Comparative Genomics 2006: 171-185 - [p1]Abdoulaye Baniré Diallo, Vladimir Makarenkov, Mathieu Blanchette, François-Joseph Lapointe:
A New Efficient Method for Assessing Missing Nucleotides in DNA Sequences in the Framework of a Generic Evolutionary Model. Data Science and Classification 2006: 333-340 - 2004
- [j5]Saurabh Sinha, Mathieu Blanchette, Martin Tompa:
PhyME: A probabilistic algorithm for finding motifs in sets of orthologous sequences. BMC Bioinform. 5: 170 (2004) - [c12]Gill Bejerano, David Haussler, Mathieu Blanchette:
Into the heart of darkness: large-scale clustering of human non-coding DNA. ISMB/ECCB (Supplement of Bioinformatics) 2004: 40-48 - [c11]Amol Prakash, Mathieu Blanchette, Saurabh Sinha, Martin Tompa:
Motif Discovery in Heterogeneous Sequence Data. Pacific Symposium on Biocomputing 2004: 348-359 - [c10]Anne Bergeron, Mathieu Blanchette, Annie Chateau, Cédric Chauve:
Reconstructing Ancestral Gene Orders Using Conserved Intervals. WABI 2004: 14-25 - 2003
- [j4]Mathieu Blanchette, Martin Tompa:
FootPrinter: a program designed for phylogenetic footprinting. Nucleic Acids Res. 31(13): 3840-3842 (2003) - [c9]Mathieu Blanchette, Samson Kwong, Martin Tompa:
An Empirical Comparison of Tools for Phylogenetic Footprinting. BIBE 2003: 69-78 - [c8]Mathieu Blanchette:
A comparative analysis method for detecting binding sites in coding regions. RECOMB 2003: 57-66 - 2002
- [j3]Mathieu Blanchette, Benno Schwikowski, Martin Tompa:
Algorithms for Phylogenetic Footprinting. J. Comput. Biol. 9(2): 211-223 (2002) - 2001
- [c7]Mathieu Blanchette:
Evolutionary Puzzles: An Introduction to Genome Rearrangement. International Conference on Computational Science (2) 2001: 1003-1011 - [c6]Mathieu Blanchette, Saurabh Sinha:
Separating real motifs from their artifacts. ISMB (Supplement of Bioinformatics) 2001: 30-38 - [c5]Mathieu Blanchette:
Algorithms for phylogenetic footprinting. RECOMB 2001: 49-58 - 2000
- [c4]Mathieu Blanchette, Benno Schwikowski, Martin Tompa:
An Exact Algorithm to Identify Motifs in Orthologous Sequences from Multiple Species. ISMB 2000: 37-45
1990 – 1999
- 1999
- [j2]David Sankoff, Mathieu Blanchette:
Phylogenetic Invariants for Genome Rearrangements. J. Comput. Biol. 6(3/4): 431-445 (1999) - [c3]David Sankoff, Mathieu Blanchette:
Probability models for genome rearrangement and linear invariants for phylogenetic inference. RECOMB 1999: 302-309 - 1998
- [j1]David Sankoff, Mathieu Blanchette:
Multiple Genome Rearrangement and Breakpoint Phylogeny. J. Comput. Biol. 5(3): 555-570 (1998) - [c2]David Sankoff, Mathieu Blanchette:
Multiple genome rearrangements. RECOMB 1998: 243-247 - 1997
- [c1]David Sankoff, Mathieu Blanchette:
The Median Problem for Breakpoints in Comparative Genomics. COCOON 1997: 251-264
Coauthor Index
manage site settings
To protect your privacy, all features that rely on external API calls from your browser are turned off by default. You need to opt-in for them to become active. All settings here will be stored as cookies with your web browser. For more information see our F.A.Q.
Unpaywalled article links
Add open access links from 
to the list of external document links (if available).
Privacy notice: By enabling the option above, your browser will contact the API of unpaywall.org to load hyperlinks to open access articles. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Unpaywall privacy policy.
Archived links via Wayback Machine
For web page which are no longer available, try to retrieve content from the 
of the Internet Archive (if available).
Privacy notice: By enabling the option above, your browser will contact the API of archive.org to check for archived content of web pages that are no longer available. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Internet Archive privacy policy.
Reference lists
Add a list of references from 
, 
, and 
to record detail pages.
load references from crossref.org and opencitations.net
Privacy notice: By enabling the option above, your browser will contact the APIs of crossref.org, opencitations.net, and semanticscholar.org to load article reference information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Crossref privacy policy and the OpenCitations privacy policy, as well as the AI2 Privacy Policy covering Semantic Scholar.
Citation data
Add a list of citing articles from and to record detail pages.
load citations from opencitations.net
Privacy notice: By enabling the option above, your browser will contact the API of opencitations.net and semanticscholar.org to load citation information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the OpenCitations privacy policy as well as the AI2 Privacy Policy covering Semantic Scholar.
OpenAlex data
Load additional information about publications from 
.
Privacy notice: By enabling the option above, your browser will contact the API of openalex.org to load additional information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the information given by OpenAlex.
last updated on 2024-10-07 22:17 CEST by the dblp team
all metadata released as open data under CC0 1.0 license
see also: Terms of Use | Privacy Policy | Imprint
dblp was originally created in 1993 at:
since 2018, dblp has been operated and maintained by:
the dblp computer science bibliography is funded and supported by:
