Computational Analysis of RNA Structure and Function
2015, Jul 19 -- Jul 31
Organizers:
E. Rivas (Harvard University)
E. Westhof (University of Strasbourg)
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SCIENTIFIC ACTIVITY
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OTHER ACTIVITIES
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ORGANIZERS
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VISITORS
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OUTREACH
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CENTER
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NEWS
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INSTITUTIONAL INFO
Monday, July 20
Tuesday, July 21
Wednesday, July 22
Thursday, July 23
Friday, July 24
Monday, July 27
Tuesday, July 28
Wednesday, July 29
Thursday, July 30
| RNA-binding protein sequence specificity: experiments and models | |
| Quaid Morris |
Tuesday, July 21
| 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 |
Wednesday, July 22
| 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 |
Thursday, July 23
| 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 |
Friday, July 24
| 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 |
Monday, July 27
| 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 |
Tuesday, July 28
| 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 |
Wednesday, July 29
| 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 |
Thursday, July 30
| 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 |
This session has received financial support from the following institutions:
