Yann Ponty

Faculty member of the Bioinformatics group
Computer Science department (LIX) of École Polytechnique
Member of the INRIA/LIX AMIB team

Research interest(s):

• RNA folding, design, and evolution
• RNA/RNA, RNA/Proteins, and Proteins/Proteins interactions
• Random generation and enumerative combinatory
• Discrete Algorithms (Dynamic programming)
• RNA visualization

Recent Papers:

• Duchemin, W., Anselmetti, Y., Patterson, M., Ponty, Y., Bérard, S., Chauve, C., Scornavacca, C., Daubin, V., and Tannier, E. (2017) DeCoSTAR: Reconstructing the ancestral organization of genes or genomes using reconciled phylogenies. Genome biology and evolution 9, 1312-1319.
• Churkin, A., Retwitzer, M.D., Reinharz, V., Ponty, Y., Waldispühl, J., and Barash, D. (2017) Design of RNAs: comparing programs for inverse RNA folding. Briefings in bioinformatics, bbw120.
• Haleš, J., Héliou, A., Maňuch, J., Ponty, Y., and Stacho, L. (2016) Combinatorial RNA Design: Designability and Structure-Approximating Algorithm in Watson–Crick and Nussinov–Jacobson Energy Models. Algorithmica, 1-22.
• Drory Retwitzer, M., Reinharz, V., Ponty, Y., Waldispühl, J., and Barash, D. (2016) incaRNAfbinv: a web server for the fragment-based design of RNA sequences. Nucleic acids research 44, W308-W314.
• Reinharz, V., Ponty, Y., and Waldispühl, J. (2016) Combining structure probing data on RNA mutants with evolutionary information reveals RNA-binding interfaces. Nucleic acids research 44, e104-e104.
• Zhang, Y., Ponty, Y., Blanchette, M., Lécuyer, E., and Waldispühl, J. (2013) SPARCS: a web server to analyze (un) structured regions in coding RNA sequences. Nucleic acids research 41, W480-W485.
• Reinharz, V., Ponty, Y., and Waldispühl, J. (2013) Using structural and evolutionary information to detect and correct pyrosequencing errors in noncoding RNAs. Journal of Computational Biology 20, 905-919.