Computational Analysis of RNA Structure and Function
2015, Jul 19 -- Jul 31
Organizers:
E. Rivas (Harvard University)
E. Westhof (University of Strasbourg)
2015, Jul 19 -- Jul 31
Organizers:
E. Rivas (Harvard University)
E. Westhof (University of Strasbourg)
RNA-binding protein sequence specificity: experiments and models | |
Quaid Morris |
RNA-Protein Interactions (I) | |
RNA-protein interactions and the origin of the genetic code | |
Bojan Zagrovic | |
TBA | |
Rolf Backofen | |
TBA | |
Ralf Bundschuh | |
RNA-seq | |
TBA | |
Jan Gorodkin | |
TBA | |
Alain Laederach | |
TBA | |
Dmitri Pervouchine | |
RNAseq Bias Correction (& Isoform Quantification) | |
Walter L. Ruzzo |
RNA Alignments (I) | |
TBA | |
Eugenio Mattei | |
TBA | |
Gaurav Sharma | |
TBA | |
Jerome Waldispuhl | |
RNA 2D Structure (I) | |
TBA | |
David Mathews | |
RNA secondary structure prediction beyond thermodynamics | |
Elena Rivas | |
Detection of thermodynamically stable RNAs in long sequences | |
Ruslan Soldatov | |
Sparse RNA folding revisited: space-efficient minimum free energy prediction | |
Sebastian Will |
Databases and Analysis of Structure (I) | |
From sequence/structure analysis to sequence design of RNA | |
Kiyoshi Asai | |
The computational analysis and validation of RNA 3D structure quality | |
Piotr Lukasiak | |
RNApolis for RNA structure analysis | |
Marta Szachniuk | |
Torsion angle-based RNA 3D structure assessment in RNApolis | |
Tomas Zok | |
RNA 2D Structure (I) | |
Computational Riboswitch Detection Using Inverse RNA Folding | |
Danny Barash | |
RNAiFold: Complete Inverse Folding for Synthetic Design | |
Juan A. Garcia-Marin | |
Combinatorial RNA Design: Designability and Structure-Approximating Algorithm Towards a theory of RNA design | |
Yann Ponty | |
Computational RNA Design | |
Peter Stadler | |
TBA | |
Jerome Waldispuhl |
Genomics and non-coding RNAs (I) | |
TBA | |
Sean Eddy | |
TBA | |
Hanah Margalit | |
TBA | |
Michelle Meyer | |
De novo prediction of structured RNAs from genomes using coarse-grained dot plots | |
Yuki Kato | |
What's new in Rfam? | |
Paul Gardner et al. | |
RNA Homoloy and Covariation | |
TBA | |
Eric Nawrocki | |
Significant covariation evidence in long and short RNAs | |
Elena Rivas | |
A max-margin model for predicting residue-base contacts in protein-RNA interactions | |
Kengo Sato | |
TBA | |
Rolf Backofen |
Miscellaneous | |
TBA | |
François Major | |
TBA | |
Tom Jones | |
Dynamic Programming for Lazy Bastards | |
Peter Stadler | |
TBA | |
Antoine Soule | |
Constraints in RNA Secondary structure prediction | |
Ronny Lorenz | |
Databases and Analysis of Structure (II) | |
Biases in the Annotation of Nonsense-Mediated Decay Events | |
Dmitri Pervouchine | |
Extracting and clustering interaction motifs in RNA structures | |
Alain Denise | |
Introduction to RNAcentral | |
Anton Petrov | |
ClaRNA, RNA Bricks, and Brickworx: databases and online tools for RNA 3D structure analysis | |
Janusz Bujnicki | |
Identifiers and servers to facilitate visualization and data exchange | |
Craig Zirbel |
RNA-Protein Interactions (II) | |
Understanding RNA-Protein interactions, Evolution & Cancer | |
Maria Chatzou | |
RAIN: RNA--protein Association and Interaction Networks | |
Alexander Junge | |
TBA | |
Vladimir Reinharz | |
The predictions of RNA binding probabilities in nucleic acids binding proteins | |
Eric Westhof | |
RNA-RNA Interactions | |
Stochastic interactions between ncRNAs and mRNAs inhibit translation and are selected against | |
Paul Gardner | |
Old and new hypotheses about eukaryotic RNA-RNA interactions | |
Dmitri Pervouchine | |
RNA kinetics | |
Andrey Mironov | |
A comprehensive prediction of RNA-RNA interactions in human transcriptome | |
Kiyosi Asai |
RNA Alignments (II) | |
Foldalign 2.5 | |
Jackob Hull Havgaard | |
RNAalignClust: Sequence-structure-based clustering of multiple alignments | |
Alexander Junge | |
Fast multiple alignment | |
Andrey Mironov | |
SPARSE: Quadratic Time SA&F of RNAs without Sequence-Based Heuristics | |
Sebastian Will | |
RNA 3D Structure | |
TBA | |
*Janusz Bujnicki | |
Coarse Grain 3D RNA Structure Prediction | |
Ivo Hofacker | |
RNA-Puzzles | |
Eric Westhof | |
Identifying novel sequence variants of RNA 3D motifs | |
Craig Zirbel |
RNA 2D Structure (II) | |
TBA | |
Daniel Aalberts | |
TBA | |
Sharon Aviran | |
ParasoR: Genome-wide computational analysis of local RNA secondary structures | |
Risa Kawaguchi | |
TBA | |
*Michael Zucker | |
Genomics and Non-Coding RNAs (II) | |
TBA | |
Michelle Meyer | |
TBA | |
Stefan Seemann | |
TBA | |
*Zasha Weinberg | |
TBA | |
Daniel Gautheret |