Centro de Ciencias de Benasque Pedro Pascual

Centro de Ciencias de Benasque Pedro Pascual

Monday, July 20
  • 11:00h
  • RNA-binding protein sequence specificity: experiments and models
     Quaid Morris

    Tuesday, July 21
    • 09:00h
    • RNA-Protein Interactions (I)
       
    • RNA-protein interactions and the origin of the genetic code
       Bojan Zagrovic
        TBA
       Rolf Backofen
        TBA
       Ralf Bundschuh

    • 18:00h
    • RNA-seq
       
    • TBA
       Jan Gorodkin
        TBA
       Alain Laederach
        TBA
       Dmitri Pervouchine
        RNAseq Bias Correction (& Isoform Quantification)
       Walter L. Ruzzo

      Wednesday, July 22
      • 11:00h
      • RNA Alignments (I)
         
      • TBA
         Eugenio Mattei
          TBA
         Gaurav Sharma
          TBA
         Jerome Waldispuhl

      • 18:00h
      • 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
        • 09:00h
        • 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

        • 18:00h
        • 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
          • 11:00h
          • 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

          • 17:30h
          • What's new in Rfam?
             Paul Gardner et al.

          • 18:00h
          • 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
            • 11:00h
            • 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

            • 18:00h
            • 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
              • 11:00h
              • 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

              • 18:00h
              • 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
                • 11:00h
                • 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

                • 18:00h
                • 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
                  • 11:00h
                  • 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

                  • 18:00h
                  • 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:

                    • logo CSIC
                    • Gobierno de Aragón
                    • Ministerio de educación y ciencia
                    • DPH
                    • Universidad de Zaragoza
                    • Ayuntamiento de Benasque

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