Vladimir Reinharz

Publication Activity (10 Years)

Years Active: 2012-2024
Publications (10 Years): 12

Top Topics

Secondary Structure

Computationally Inexpensive

Top Venues

Nucleic Acids Res.

PLoS Comput. Biol.

Briefings Bioinform.

Publications

Gabriel Loyer, Vladimir Reinharz
Concurrent prediction of RNA secondary structures with pseudoknots and local 3D motifs in an integer programming framework. Bioinform. 40 (2) (2024)
Théo Boury, Yann Ponty, Vladimir Reinharz
Automatic Exploration of the Natural Variability of RNA Non-Canonical Geometric Patterns with a Parameterized Sampling Technique. WABI (2023)
Atesmachew Hailegiorgis, Yuji Ishida, Nicholson T. Collier, Michio Imamura, Zhenzhen Shi, Vladimir Reinharz, Masataka Tsuge, Danny Barash, Nobuhiko Hiraga, Hiroshi Yokomichi, Chise Tateno, Jonathan Ozik, Susan L. Uprichard, Kazuaki Chayama, Harel Dahari
Modeling suggests that virion production cycles within individual cells is key to understanding acute hepatitis B virus infection kinetics. PLoS Comput. Biol. 19 (8) (2023)
Coline Gianfrotta, Vladimir Reinharz, Dominique Barth, Alain Denise
A Graph-Based Similarity Approach to Classify Recurrent Complex Motifs from Their Context in RNA Structures. SEA (2021)
Antoine Soulé, Vladimir Reinharz, Roman Sarrazin-Gendron, Alain Denise, Jérôme Waldispühl
Finding recurrent RNA structural networks with fast maximal common subgraphs of edge-colored graphs. PLoS Comput. Biol. 17 (5) (2021)
Roman Sarrazin-Gendron, Hua-Ting Yao, Vladimir Reinharz, Carlos G. Oliver, Yann Ponty, Jérôme Waldispühl
Stochastic Sampling of Structural Contexts Improves the Scalability and Accuracy of RNA 3D Module Identification. RECOMB (2020)
Matan Drory Retwitzer, Vladimir Reinharz, Alexander Churkin, Yann Ponty, Jérôme Waldispühl, Danny Barash
incaRNAfbinv 2.0: a webserver and software with motif control for fragment-based design of RNAs. Bioinform. 36 (9) (2020)
Alexander Churkin, Matan Drory Retwitzer, Vladimir Reinharz, Yann Ponty, Jérôme Waldispühl, Danny Barash
Design of RNAs: comparing programs for inverse RNA folding. Briefings Bioinform. 19 (2) (2018)
Jason Yao, Vladimir Reinharz, François Major, Jérôme Waldispühl
RNA-MoIP: prediction of RNA secondary structure and local 3D motifs from sequence data. Nucleic Acids Res. 45 (Webserver-Issue) (2017)
Jason Yao, Vladimir Reinharz, François Major, Jérôme Waldispühl
RNA-MoIP: prediction of RNA secondary structure and local 3D motifs from sequence data. Nucleic Acids Res. 45 (Webserver-Issue) (2017)
Vladimir Reinharz, Alexander Churkin, Harel Dahari, Danny Barash
A Robust and Efficient Numerical Method for RNA-Mediated Viral Dynamics. Frontiers Appl. Math. Stat. 3 (2017)
Matan Drory Retwitzer, Vladimir Reinharz, Yann Ponty, Jérôme Waldispühl, Danny Barash
incaRNAfbinv: a web server for the fragment-based design of RNA sequences. Nucleic Acids Res. 44 (Webserver-Issue) (2016)
Vladimir Reinharz, Yann Ponty, Jérôme Waldispühl
Using Structural and Evolutionary Information to Detect and Correct Pyrosequencing Errors in Noncoding RNAs. J. Comput. Biol. 20 (11) (2013)
Vladimir Reinharz, Yann Ponty, Jérôme Waldispühl
A Linear Inside-Outside Algorithm for Correcting Sequencing Errors in Structured RNAs. RECOMB (2013)
Vladimir Reinharz, Yann Ponty, Jérôme Waldispühl
A weighted sampling algorithm for the design of RNA sequences with targeted secondary structure and nucleotide distribution. Bioinform. 29 (13) (2013)
Vladimir Reinharz, François Major, Jérôme Waldispühl
Towards 3D structure prediction of large RNA molecules: an integer programming framework to insert local 3D motifs in RNA secondary structure. Bioinform. 28 (12) (2012)