Yann Ponty
Yann Ponty
CNRS-Ecole Polytechnique-Inria Saclay
Verified email at lix.polytechnique.fr - Homepage
TitleCited byYear
VARNA: Interactive drawing and editing of the RNA secondary structure
K Darty, A Denise, Y Ponty
Bioinformatics 25 (15), 1974, 2009
7272009
GenRGenS: software for generating random genomic sequences and structures
Y Ponty, M Termier, A Denise
Bioinformatics 22 (12), 1534-1535, 2006
772006
DIAL: a web server for the pairwise alignment of two RNA three-dimensional structures using nucleotide, dihedral angle and base-pairing similarities
F Ferrè, Y Ponty, WA Lorenz, P Clote
Nucleic acids research 35 (suppl_2), W659-W668, 2007
732007
Estimating seed sensitivity on homogeneous alignments
G Kucherov, L Noé, Y Ponty
Proceedings. Fourth IEEE Symposium on Bioinformatics and Bioengineering, 387-394, 2004
442004
Asymptotics of RNA shapes
WA Lorenz, Y Ponty, P Clote
Journal of Computational Biology 15 (1), 31-63, 2008
432008
Multi-dimensional Boltzmann Sampling of Languages
Y Ponty, O Bodini
Discrete Mathematics & Theoretical Computer Science, 2010
39*2010
ecceTERA: comprehensive gene tree-species tree reconciliation using parsimony
E Jacox, C Chauve, GJ Szöllősi, Y Ponty, C Scornavacca
Bioinformatics 32 (13), 2056-2058, 2016
372016
Protein-protein interactions in a crowded environment: an analysis via cross-docking simulations and evolutionary information
A Lopes, S Sacquin-Mora, V Dimitrova, E Laine, Y Ponty, A Carbone
PLoS Computational Biology, 2013
332013
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
322013
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
302012
Efficient sampling of RNA secondary structures from the Boltzmann ensemble of low-energy
Y Ponty
Journal of Mathematical Biology 56 (1-2), 107-127, 2008
282008
Controlled non-uniform random generation of decomposable structures
A Denise, Y Ponty, M Termier
Theoretical Computer Science 411 (40-42), 3527-3552, 2010
242010
Using the Fast Fourier Transform to accelerate the computational search for RNA conformational switches
E Senter, S Sheikh, I Dotu, Y Ponty, P Clote
PLOS ONE 7 (12), e50506, 2012
222012
A combinatorial framework for designing (pseudoknotted) RNA algorithms
Y Ponty, C Saule
International Workshop on Algorithms in Bioinformatics, 250-269, 2011
202011
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, 2017
182017
Expected distance between terminal nucleotides of RNA secondary structures
P Clote, Y Ponty, JM Steyaert
Journal of mathematical biology 65 (3), 581-599, 2012
172012
An unbiased adaptive sampling algorithm for the exploration of RNA mutational landscapes under evolutionary pressure
J Waldispühl, Y Ponty
Journal of Computational Biology 18 (11), 1465-1479, 2011
172011
Culminating paths
M Bousquet-Mélou, Y Ponty
Discrete Mathematics & Theoretical Computer Science (DMTCS) 10 (2), 125-152, 2008
172008
Random generation of structured genomic sequences
A Denise, Y Ponty, M Termier
Proceedings of RECOMB 2003 3, 2003
172003
DeCoSTAR: Reconstructing the ancestral organization of genes or genomes using reconciled phylogenies
W Duchemin, Y Anselmetti, M Patterson, Y Ponty, S Bérard, C Chauve, ...
Genome Biology and Evolution 9 (5), 1312-1319, 2017
162017
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