22nd Annual Workshop on Mathematical and Statistical Aspects of Molecular Biology
Magnus-Haus, Berlin - Germany, April 10-11th 2012






  Abstract submission





  Getting about / maps


A printable version of the programme is available here. For a printable list of the talks' abstracts, please click here. For a printable list of the posters' abstracts, please click here.

Tuesday April 10th 2012
11:00 - 13:30 Registration
12:00 - 13:20 Lunch break
13:20 - 13:30 Introduction by Martin Vingron
Evolution + Systems Biology
Chair: Peter Arndt
13:30 - 13:50 Richard Golstein - Modelling epistasis in protein evolution: The evolutionary Stokes shift
13:50 - 14:10 Jaime Irano - Effect of genomic population dynamics on the genealogy of insertion sequences
14:10 - 14:30 Carina Mugal - The evolution of GC content in avian genomes
14:30 - 14:50 Elke Schaper - Statistical evaluation of tandem repeat detection algorithms and tandem repeat classification
14:50 - 15:10 Adam MacLean - Population dynamics of normal and leukaemia stem cells in the haematopoietic stem cell niche
15:10 - 15:30 Juliane Liepe - Bayesian experimental design to probe cellular decision making processes
15:30 - 16:30 Coffee break + Poster session / discussion
Medical applications
Chair: Gabriele Schweikert
16:30 - 16:50 Erika Cule - Ridge regression for risk prediction with applications to genetic data
16:50 - 17:10 Alexander Zien - Transfer Learning for Cancer Theranostics
17:10 - 17:30 Navodit Misra - Learning Gene Networks Underlying Somatic Mutations in Cancer
17:30 - 17:50 Tomas Martin-Bertelsen - Application of Random Survival Forests on Gene Set Scores for Gastric Cancer Prognosis and Biological Interpretation
17:50 - 18:15 Applications and vote for MASAMB 2013's location
20:00 - 00:00 Dinner
Wednesday April 11th 2012
Next Generation Sequencing I
Chair: Martin Vingron
09:00 - 09:20 Michael Nothnagel - Assessing technology-specific error signatures in next-generation sequencing, with an application to the 1000 Genomes Project data
09:20 - 09:40 Hugues Richard - Fiona: A tool for automatic correction of sequencing errors in genome sequencing experiments
09:40 - 10:00 Marcel Schulz - A probabilistic method for RNA-Seq read error correction
10:00 - 10:20 Thorsten Dickhaus - The allele distribution in next-generation sequencing data sets is accurately described as the result of a stochastic branching process
10:20 - 10:50 Coffee break
Next Generation Sequencing II
Chair: Hugues Richard
10:50 - 11:10 Michael Love - Normalization of DNase-seq data for classification of cell types
11:10 - 11:30 Gabriele Schweikert - Detection of statistical significant differences in ChIP-seq data
11:30 - 11:50 Yanchun Bao - A Bayesian bidirectional Hidden Markov model for ChIP sequencing data
11:50 - 12:00 Group photo
12:00 - 13:20 Lunch break
Chair: Roland Krause
13:20 - 13:40 Mirauta Bogdan - Sequencial Monte Carlo - Particle Gibbs inference of Transcriptional Landscape from RNA-Seq Data
13:40 - 14:00 Ciira Maina - Modeling RNA Pol-II Dynamics
14:00 - 14:30 Julien Gagneur & Oliver Stegle - Joint models of gene expression and global phenotypes in the context of genetic and environmental variations
14:30 - 14:50 Nicolo Fusi - Finding topics in diseases through the analysis of RNA-seq data
14:50 - 15:50 Coffee break + Poster session / discussion
General statistics
Chair: Thorsten Dickhaus
15:50 - 16:10 Vladislav Vyshemirsky - Evidential model ranking without likelihoods
16:10 - 16:30 Andre Beinrucker - The Effect of Subsample Size in Stability Selection
16:30 - 16:50 Sven Rahmann - Using Log-Concave Functions to Describe Peaks in Spectrometry Data
16:50 - 17:00 Closing remarks by Martin Vingron

Talk format

Each slot is 20 minutes, however we recommend you keep 2 minutes free at the end for questions / change of microphone etc. Due to a tight shedule, we will have to be strict about time.

We will provide a PC with Windows XP. Microsoft Office 2007 and Acrobat Reader 9. Nevertheless the files should preferably be platform-independent, ie in pdf format. Even if PowerPoint documents are supported, the layout formatting might come out differently when going from Mac or Linux to Windows due to incompatible versions of Office.

Please have a copy of your talk ready on a USB stick at the beginning of the break before your session. The speakers of the session "Evolution + Systems Biology" should come forward at 13:10 at the latest. The speakers of the session "Next Generation Sequencing I" should come forward at 08:50.

Poster format

Posters should ideally be of size A0 (841mm x 1189mm), and oriented "portrait".

Programme committee

Neil Lawrence, Sheffield University, Sheffield, UK
Magnus Rattray, Sheffield University, Sheffield, UK
Arndt von Haeseler, Centre for Integrative Bioinformatics, Vienna, Austria
Dirk Husmeier, Glasgow University, Glasgow, UK
Nick Goldman, European Bioinformatics Institute, Cambridge, UK
Alexander Zien, Molecular Health, Heidelberg, Germany
Hugues Richard, Paris VI (Pierre et Marie Curie) University, Paris, France
Martin Vingron, MPI for Molecular Genetics, Berlin, Germany
Peter Arndt, MPI for Molecular Genetics, Berlin, Germany
Julia Lasserre, MPI for Molecular Genetics, Berlin, Germany
Alena Mysickova, MPI for Molecular Genetics, Berlin, Germany

List of talks

List of posters