Jérôme Waldispühl

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Vladimir ReinharzAssistant Professor, Computer Science Department, Université du Québec à MontréalAdresse e-mail validée de uqam.ca
Yann PontyResearch director at CNRS & Ecole PolytechniqueAdresse e-mail validée de lix.polytechnique.fr
Mathieu BlanchetteProfessor of Computer Science, McGill UniversityAdresse e-mail validée de cs.mcgill.ca
Bonnie BergerMITAdresse e-mail validée de mit.edu
Carlos OliverMax Planck Institute of BiochemistryAdresse e-mail validée de biochem.mpg.de
Peter CloteBoston CollgeAdresse e-mail validée de bc.edu
Srinivas DevadasEdwin Sibley Webster Professor of Electrical Engineering and Computer Science, MITAdresse e-mail validée de mit.edu
Vincent MalletCNRS, LIXAdresse e-mail validée de mail.mcgill.ca
Charles W. O'DonnellPostdoctoral Fellow - MIT, HarvardAdresse e-mail validée de mit.edu
Roman Sarrazin-GendronPhD Student in Computer Science, McGill UniversityAdresse e-mail validée de mail.mcgill.ca
Alfred KamSchool of Computer Science and McGill Centre for Bioinformatics, McGill University, Montreal, Quebec, CanadaAdresse e-mail validée de mail.mcgill.ca
Eleyine ZarourRadiology resident, University of MontrealAdresse e-mail validée de umontreal.ca
Nicolas MoitessierMcGill UniversityAdresse e-mail validée de mcgill.ca
Mohamed Raef SmaouiAssistant Professor, Computer Science Dept., Kuwait UniversityAdresse e-mail validée de ku.edu.kw
Clarence LeungMcGill UniversityAdresse e-mail validée de mail.mcgill.ca
Francois MajorUniversite de MontrealAdresse e-mail validée de umontreal.ca
Mieszko LisThe University of British ColumbiaAdresse e-mail validée de ece.ubc.ca
Matan Drory RetwitzerSr. Manager, Data ScienceAdresse e-mail validée de mammothbiosci.com
Danny BarashBen-Gurion UniversityAdresse e-mail validée de bgu.ac.il
William L HamiltonAssistant Professor of Computer Science, McGill University and MilaAdresse e-mail validée de cs.mcgill.ca

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Jérôme Waldispühl

Associate Professor of Computer Science, McGill University

Adresse e-mail validée de mcgill.ca - Page d'accueil

RNA Bioinformatics Citizen Science Crowdsourcing Algorithms


Titre Trier par citations Trier par année Trier par titre	Citée par Citée par	Année
American gut: an open platform for citizen science microbiome research D McDonald, E Hyde, JW Debelius, JT Morton, A Gonzalez, G Ackermann, ... Msystems 3 (3), 10.1128/msystems. 00031-18, 2018	649	2018
Phylo: a citizen science approach for improving multiple sequence alignment A Kawrykow, G Roumanis, A Kam, D Kwak, C Leung, C Wu, E Zarour, ... PloS one 7 (3), e31362, 2012	286	2012
A method for probing the mutational landscape of amyloid structure CW O'Donnell, J Waldispühl, M Lis, R Halfmann, S Devadas, S Lindquist, ... Bioinformatics 27 (13), i34-i42, 2011	75	2011
Design of RNAs: comparing programs for inverse RNA folding A Churkin, MD Retwitzer, V Reinharz, Y Ponty, J Waldispühl, D Barash Briefings in bioinformatics 19 (2), 350-358, 2018	69	2018
Towards 3D structure prediction of large RNA molecules: an integer programming framework to insert local 3D motifs in RNA secondary structure V Reinharz, F Major, J Waldispühl Bioinformatics 28 (12), i207-i214, 2012	61	2012
Challenges and current status of computational methods for docking small molecules to nucleic acids J Luo, W Wei, J Waldispühl, N Moitessier European journal of medicinal chemistry 168, 414-425, 2019	60	2019
A weighted sampling algorithm for the design of RNA sequences with targeted secondary structure and nucleotide distribution V Reinharz, Y Ponty, J Waldispühl Bioinformatics 29 (13), i308-i315, 2013	59	2013
`OptiMol`: Optimization of Binding Affinities in Chemical Space for Drug Discovery J Boitreaud, V Mallet, C Oliver, J Waldispuhl Journal of Chemical Information and Modeling 60 (12), 5658-5666, 2020	57	2020
Efficient algorithms for probing the RNA mutation landscape J Waldispühl, S Devadas, B Berger, P Clote PLoS computational biology 4 (8), e1000124, 2008	55	2008
Mining for recurrent long-range interactions in RNA structures reveals embedded hierarchies in network families V Reinharz, A Soulé, E Westhof, J Waldispühl, A Denise Nucleic acids research 46 (8), 3841-3851, 2018	53	2018
Predicting transmembrane β‐barrels and interstrand residue interactions from sequence J Waldispühl, B Berger, P Clote, JM Steyaert PROTEINS: Structure, Function, and Bioinformatics 65 (1), 61-74, 2006	48	2006
Computational assembly of polymorphic amyloid fibrils reveals stable aggregates MR Smaoui, F Poitevin, M Delarue, P Koehl, H Orland, J Waldispühl Biophysical journal 104 (3), 683-693, 2013	46	2013
A global sampling approach to designing and reengineering RNA secondary structures A Levin, M Lis, Y Ponty, CW O’Donnell, S Devadas, B Berger, ... Nucleic acids research 40 (20), 10041-10052, 2012	45	2012
Open-Phylo: a customizable crowd-computing platform for multiple sequence alignment D Kwak, A Kam, D Becerra, Q Zhou, A Hops, E Zarour, A Kam, ... Genome biology 14, 1-12, 2013	41	2013
Ten simple rules to create a serious game, illustrated with examples from structural biology M Baaden, O Delalande, N Ferey, S Pasquali, J Waldispühl, A Taly PLoS computational biology 14 (3), e1005955, 2018	39	2018
Leveling up citizen science J Waldispühl, A Szantner, R Knight, S Caisse, R Pitchford Nature Biotechnology 38 (10), 1124-1126, 2020	38	2020
Modeling ensembles of transmembrane β‐barrel proteins J Waldispühl, CW O'Donnell, S Devadas, P Clote, B Berger Proteins: Structure, Function, and Bioinformatics 71 (3), 1097-1112, 2008	37	2008
transFold: a web server for predicting the structure and residue contacts of transmembrane beta-barrels J Waldispühl, B Berger, P Clote, JM Steyaert Nucleic acids research 34 (suppl_2), W189-W193, 2006	36	2006
Computing the partition function and sampling for saturated secondary structures of RNA, with respect to the Turner energy model J Waldispühl, P Clote Journal of Computational Biology 14 (2), 190-215, 2007	35	2007
Augmented base pairing networks encode RNA-small molecule binding preferences C Oliver, V Mallet, RS Gendron, V Reinharz, WL Hamilton, N Moitessier, ... Nucleic acids research 48 (14), 7690-7699, 2020	34	2020

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