Tree Decomposition for Reconstructing Ancestral RNA Sequences of Multiple Families
Summary
book-chapter
Vladimir Reinharz
About
Work
Université du Québec à Montréal
|Professeur régulier
Canada
→
Institute for Basic Science
|Research Fellow
Korea (Republic of)
→
Ben-Gurion University of the Negev
|Postdoctoral fellow
Israel
→
Publications
Modeling of hepatitis B virus kinetics and accumulation of cccDNA in primary human hepatocytes
Published by
JHEP Reports
Summary
journal-article
FASTiso: Fast Algorithm on Search state Tree for subgraph ISOmorphism in graphs of any size and density
Summary
preprint
Parallel Maximal Common Subgraphs with Labels for Molecular Biology
Summary
book-chapter
Parallel maximal common subgraphs with labels for molecular biology
Summary
preprint
Concurrent prediction of RNA secondary structures with pseudoknots and local 3D motifs in an integer programming framework
Published by
Bioinformatics
Summary
journal-article
Concurrent prediction of RNA secondary structures with pseudoknots and local 3D motifs in an Integer Programming framework
Summary
preprint
Advances in Parameter Estimation and Learning from Data for Mathematical Models of Hepatitis C Viral Kinetics
Published by
Mathematics
Summary
journal-article
Advances in Parameter Estimation and Learning from Data for Mathematical Models of Hepatitis C Viral Kinetics
Published by
Mathematics
Summary
journal-article
Finding recurrent RNA structural networks with fast maximal common subgraphs of edge-colored graphs
Published by
PLOS Computational Biology
Summary
journal-article
αβDCA method identifies unspecific binding but specific disruption of the group I intron by the StpA chaperone
Published by
RNA
Summary
journal-article
Efficient Methods for Parameter Estimation of Ordinary and Partial Differential Equation Models of Viral Hepatitis Kinetics
Published by
Mathematics
Summary
journal-article
Efficient Methods for Parameter Estimation of Ordinary and Partial Differential Equation Models of Viral Hepatitis Kinetics
Published by
Mathematics
Summary
journal-article
incaRNAfbinv 2.0: a webserver and software with motif control for fragment-based design of RNAs
Published by
Bioinformatics
Summary
journal-article
Finding recurrent RNA structural networks with fast maximal common subgraphs of edge-colored graphs
Summary
preprint
Stochastic Sampling of Structural Contexts Improves the Scalability and Accuracy of RNA 3D Module Identification
Summary
book-chapter
Stochastic Sampling of Structural Contexts Improves the Scalability and Accuracy of RNA 3D Module Identification
Summary
preprint
Unspecific binding but specific disruption of the group I intron by the StpA chaperone
Summary
preprint
A Parameter Estimation Method for Multiscale Models of Hepatitis C Virus Dynamics
Published by
Bulletin of Mathematical Biology
Summary
journal-article
Augmented base pairing networks encode RNA-small molecule binding preferences
Summary
preprint
Mining for recurrent long-range interactions in RNA structures reveals embedded hierarchies in network families.
Published by
Nucleic acids research
Summary
journal-article
Numerical schemes for solving and optimizing multiscale models with age of hepatitis C virus dynamics.
Published by
Mathematical biosciences
Summary
journal-article
The necessary emergence of structural complexity in self-replicating RNA populations
Summary
other
RNA-MoIP: prediction of RNA secondary structure and local 3D motifs from sequence data.
Published by
Nucleic acids research
Summary
journal-article
Design of RNAs: comparing programs for inverse RNA folding
Published by
Briefings in Bioinformatics
Summary
journal-article
A Robust and Efficient Numerical Method for RNA-Mediated Viral Dynamics
Published by
Frontiers in Applied Mathematics and Statistics
Summary
journal-article
Reconstruction of ancestral RNA sequences under multiple structural constraints
Published by
BMC Genomics
Summary
journal-article
Combining structure probing data on RNA mutants with evolutionary information reveals RNA-binding interfaces
Published by
Nucleic Acids Research
Summary
journal-article
incaRNAfbinv: a web server for the fragment-based design of RNA sequences
Published by
Nucleic Acids Research
Summary
journal-article
Modeling and Predicting RNA Three-Dimensional Structures
Published by
RNA Bioinformatics
Summary
other
A Linear Inside-Outside Algorithm for Correcting Sequencing Errors in Structured RNAs
Published by
Research in Computational Molecular Biology
Summary
other
A weighted sampling algorithm for the design of RNA sequences with targeted secondary structure and nucleotide distribution
Published by
Bioinformatics
Summary
journal-article
Using Structural and Evolutionary Information to Detect and Correct Pyrosequencing Errors in Noncoding RNAs
Published by
Journal of Computational Biology
Summary
journal-article
Towards 3D structure prediction of large RNA molecules: an integer programming framework to insert local 3D motifs in RNA secondary structure
Published by
Bioinformatics
Summary
journal-article