| 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 | 894 | 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 | 308 | 2012 |
| 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 | 116 | 2018 |
| 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 | 100 | 2019 |
| 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 | 86 | 2011 |
| 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 | 80 | 2020 |
| 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 | 73 | 2013 |
| 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 | 67 | 2018 |
| 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 | 63 | 2020 |
| 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 | 62 | 2012 |
| Efficient algorithms for probing the RNA mutation landscape J Waldispühl, S Devadas, B Berger, P Clote PLoS computational biology 4 (8), e1000124, 2008 | 62 | 2008 |
| 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 | 50 | 2012 |
| 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 | 50 | 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 | 49 | 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 | 48 | 2018 |
| Leveling up citizen science J Waldispühl, A Szantner, R Knight, S Caisse, R Pitchford Nature Biotechnology 38 (10), 1124-1126, 2020 | 47 | 2020 |
| 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 (10), R116, 2013 | 47 | 2013 |
| 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 | 39 | 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 | 37 | 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 | 36 | 2007 |
Vladimir ReinharzAssistant Professor, Computer Science Department, Université du Québec à MontréalVerified email at uqam.ca
