Programme
Computational RNA Biology
11-13 November 2014
Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
Oral Presentations
If you are an invited speaker, or your abstract has been selected for an oral presentation,
please give an electronic version of your talk to an AV technician in the Kendrew Lecture
Theatre, the morning of your talk.
Poster Presentations
Posters will be displayed throughout the conference in the Chestnut Suite. Your abstract
page number indicates your poster boards number.
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Tuesday, 11 November
12:30-13:45
Registration
Conference Centre Foyer
13:45-14:00
Walk up to Kendrew Lecture Theatre
Meet in the Conference Centre Foyer
14:00-14:10
Welcome and Introduction
Alex Bateman
EMBL-EBI, UK
14:10-15:00
Keynote Lecture
Pseudo-temporal ordering of individual cells reveals regulators of
differentiation
John Rinn
Harvard University, USA
15:00-16:00
Session 1: Long non-coding RNAs
Chair: Alex Bateman
15:00 Computational approaches to revealing lncRNA function
Chris Ponting
University of Oxford, UK
15:30 Evolutionary dynamics and tissue specificity of human long noncoding
RNAs in six mammals
Stefan Washietl
Massachusetts Institute of Technology, USA
16:00-16:30
Afternoon Tea
Kendrew Lecture Theatre Foyer
16:30-17:45
Session 1: Long non-coding RNAs continued
Chair: Sean Eddy
16:30 Secondary structures of intact long non-coding RNAs in plants and
animals
Karissa Sanbonmatsu
Los Alamos National Laboratory, USA
17:00 Long non-coding RNA expression in naive and activated B cells
Jethro Johnson
CGAT, UK
17:15 Transposable elements modulate human gene abundance and
splicing via specific RNA-protein interactions
David Kelley
Harvard University, USA
17:30 Discussion/Summary
18:00-19:00
Poster Session I (odd numbers) with drinks reception
Chestnut Suite
19:00
Dinner
Hall Restaurant
Wednesday, 12 November
09:00-09:50
Keynote Lecture
Catching monsters in RNA land: Mapping atypical transcripts
Peter Stadler
University of Leipzig, Germany
09:50-11:00
Session 2: Small RNA regulation
Chair: Anton Enright
09:50 Identification of miRNA transcription start sites
Artemis Hatzigeorgiou
Alexander Fleming Biomedical Sciences Research Centre, Greece
10:20 Evolution and expression of insect microRNAs
Sam Griffiths-Jones
University of Manchester, UK
10:50 Regulation of microRNA expression in human primary cells
Michiel de Hoon
RIKEN, Japan
11:05-11:30
Morning Coffee
Kendrew Lecture Theatre Foyer
11:30-13:00
Session 2: Small RNA regulation continued
11:30 Competing endogenous RNAs: A novel microRNA-based mechanism
of gene regulation
Andrea Pagnani
Politecnico di Torino, Italy
12:00 Predictive computational approaches to analyze regulatory RNAs
Uwe Ohler
Max-Delbrueck-Center for Molecular Medicine, Germany
12:30 Ancient and novel small RNA pathways compensate for the loss of
piRNAs in multiple independent nematode lineages
Peter Sarkies
MRC Clinical Sciences Centre, UK
12:45 Discussion/Summary
13:00-14:30
Lunch
Hall Restaurant
14:30-16:00
Session 3: RNA Biology and Disease
Chair: Mihaela Zhavolan
14:30 Transgenerational epigenetic inheritance and RNAe
Eric Miska
University of Cambridge
15:00 Patterns of alternative splicing regulation in cancer
Eduardo Eyras
Pompeu Fabra University of Barcelona, Spain
15:30 Detection of widespread physiological intron retention
William Ritchie
University of Sydney, Australia
15:45 Comparative assessment of methods for the inference of transcript
isoform abundance based on RNA-SEQ data
Foivos Gypas
Biozentrum, University of Basel and Swiss Institute of Bioinformatics,
Switzerland
16:00-16:30
Afternoon Tea
Kendrew Lecture Theatre Foyer
16:30-18:15
Session 3: RNA Biology and Disease continued
16:30 Computational biology of RNA editing
Christoph Dietrich
Max Planck Institute for Biology of Ageing, Germany
17:00 RNAcentral: An international database of ncRNA sequences
Anton Petrov
EMBL-EBI, UK
17:15 Representing ncRNAs for eukaryotic RefSeq genomes – the
importance of data archives and meta-data
Kim Pruitt
NIH/NLM/NCBI, USA
17:30 A structure-function dissection of the mechanism of action of the
gurken RNA localisation signal
Kirsty Gill
University of Oxford, UK
17:45 Discussion/Summary
18:30-19:30
Poster session II (even numbers) with drinks reception
Chestnut Suite
19:30
Conference Dinner
Hall Restaurant
Thursday, 13 November
09:00-10:00
Session 4: RNA Structure
Chair: Sean Eddy
09:00 Unraveling principles of cap-independent translation in human genes
and viruses using thousands of designed regulatory sequences
Shira Weingarten Gabbay
The Weizmann Institute of Science, Israel
09:30 ChemModSeq it! Probing RNA structural rearrangements during the
assembly of the eukaryotic 40S ribosomal subunit
Elena Burlacu
University of Edinburgh, UK
09:45 Modeling structural RNA families with infernal
Eric Nawrocki
HHMI Janelia Farm Research Campus, USA
10:00-10:30
Morning Coffee
Kendrew Lecture Theatre Foyer
10:30-12:00
Session 4: RNA Structure continued
10:30 RNA folding prediction: the continued need for interaction between
biologists and mathematicians
Christine Heitsch
Georgia Tech, USA
11:00 RNA synthetic biology: Novel tools for computational design of RNA
Peter Clote
Boston College, USA
11:30 The RNA folding problem in context of virus assembly
Eric Dykeman
University of York, UK
11:45 Discussion/Summary
12:00-13:30
Lunch
Hall Restaurant
13:30-15:30
Session 5: RNA Interactions
Chair: Artemis Hatzigeorgiou
13:30 Modelling microRNA regulation and its role in noise buffering
Matteo Osella
University of Torino, Italy
14:00 RNA 3D structure modeling and structure-based RNA sequence
design
Janusz M. Bujnicki
International Institute of Molecular and Cell Biology in Warsaw, Poland
14:30 Characterizing the cytosine-5 RNA methylation landscape mediated
by NSUN2 and NSUN6
Sabine Dietmann
WT-MRC Cambridge Stem Cell Institute, UK
14:45 Analysis of single nucleotide resolution clip methods for assigning
microRNA-mRNA interaction sites
Hans-Hermann Wessels
Max Delbrueck Centre for Molecular Medicine, Germany
15:00 Discussion/Summary
15:30-15:45
Closing Remarks
16:15
Coaches depart to Cambridge, LHR via STN