Vladimir Reinharz

Work

Université du Québec à Montréal

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Professeur régulier

Canada

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Institute for Basic Science

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Research Fellow

Korea (Republic of)

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Ben-Gurion University of the Negev

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Postdoctoral fellow

Israel

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Publications

Tree Decomposition for Reconstructing Ancestral RNA Sequences of Multiple Families

book-chapter

Modeling of hepatitis B virus kinetics and accumulation of cccDNA in primary human hepatocytes

JHEP Reports

journal-article

FASTiso: Fast Algorithm on Search state Tree for subgraph ISOmorphism in graphs of any size and density

preprint

Parallel Maximal Common Subgraphs with Labels for Molecular Biology

book-chapter

Parallel maximal common subgraphs with labels for molecular biology

preprint

Concurrent prediction of RNA secondary structures with pseudoknots and local 3D motifs in an integer programming framework

Bioinformatics

journal-article

Concurrent prediction of RNA secondary structures with pseudoknots and local 3D motifs in an Integer Programming framework

preprint

Advances in Parameter Estimation and Learning from Data for Mathematical Models of Hepatitis C Viral Kinetics

Mathematics

journal-article

Advances in Parameter Estimation and Learning from Data for Mathematical Models of Hepatitis C Viral Kinetics

Mathematics

journal-article

Finding recurrent RNA structural networks with fast maximal common subgraphs of edge-colored graphs

PLOS Computational Biology

journal-article

αβDCA method identifies unspecific binding but specific disruption of the group I intron by the StpA chaperone

RNA

journal-article

Efficient Methods for Parameter Estimation of Ordinary and Partial Differential Equation Models of Viral Hepatitis Kinetics

Mathematics

journal-article

Efficient Methods for Parameter Estimation of Ordinary and Partial Differential Equation Models of Viral Hepatitis Kinetics

Mathematics

journal-article

incaRNAfbinv 2.0: a webserver and software with motif control for fragment-based design of RNAs

Bioinformatics

journal-article

Finding recurrent RNA structural networks with fast maximal common subgraphs of edge-colored graphs

preprint

Stochastic Sampling of Structural Contexts Improves the Scalability and Accuracy of RNA 3D Module Identification

book-chapter

Stochastic Sampling of Structural Contexts Improves the Scalability and Accuracy of RNA 3D Module Identification

preprint

Unspecific binding but specific disruption of the group I intron by the StpA chaperone

preprint

A Parameter Estimation Method for Multiscale Models of Hepatitis C Virus Dynamics

Bulletin of Mathematical Biology

journal-article

Augmented base pairing networks encode RNA-small molecule binding preferences

preprint

Mining for recurrent long-range interactions in RNA structures reveals embedded hierarchies in network families.

Nucleic acids research

journal-article

Numerical schemes for solving and optimizing multiscale models with age of hepatitis C virus dynamics.

Mathematical biosciences

journal-article

The necessary emergence of structural complexity in self-replicating RNA populations

other

RNA-MoIP: prediction of RNA secondary structure and local 3D motifs from sequence data.

Nucleic acids research

journal-article

Design of RNAs: comparing programs for inverse RNA folding

Briefings in Bioinformatics

journal-article

A Robust and Efficient Numerical Method for RNA-Mediated Viral Dynamics

Frontiers in Applied Mathematics and Statistics

journal-article

Reconstruction of ancestral RNA sequences under multiple structural constraints

BMC Genomics

journal-article

Combining structure probing data on RNA mutants with evolutionary information reveals RNA-binding interfaces

Nucleic Acids Research

journal-article

incaRNAfbinv: a web server for the fragment-based design of RNA sequences

Nucleic Acids Research

journal-article

Modeling and Predicting RNA Three-Dimensional Structures

RNA Bioinformatics

other

A Linear Inside-Outside Algorithm for Correcting Sequencing Errors in Structured RNAs

Research in Computational Molecular Biology

other

A weighted sampling algorithm for the design of RNA sequences with targeted secondary structure and nucleotide distribution

Bioinformatics

journal-article

Using Structural and Evolutionary Information to Detect and Correct Pyrosequencing Errors in Noncoding RNAs

Journal of Computational Biology

journal-article

Towards 3D structure prediction of large RNA molecules: an integer programming framework to insert local 3D motifs in RNA secondary structure

Bioinformatics

journal-article