Monday 3 October 2016

9:00 - 9:50 Registration, coffee and poster setup

9:50 - 10:00 Opening (the organisers present the edition with 22 talks and 13 spotlights)

Talks: Single cell analysis and modeling (Chair: Martin Hemberg)

• 10:00 -10:25 - Tallulah Andrews and Martin Hemberg. Understanding Nothing: Zeros in single-cell RNASeq.
• 10:25 - 10:50 - Ann Babtie, Thalia Chan and Michael Stumpf. Inferring gene regulatory networks from single cell transcriptomic data.
• 10:50 -11:15 - Damien Arnol, Denis Schapiro, Hartland Jackson, Bernd Bodenmiller, Julio Saez-Rodriguez and Oliver Stegle. Quantifying the impact of the cell microenvironment using single-cell imaging mass cytometry.
• 11:15 -11:40 - Alexis Boukouvalas, James Hensman and Magnus Rattray. Identification of branching using pseudotime estimation.

11:40-12:10 Spotlights I

• Danilo Horta and Oliver Stegle. Generalised Mixed Models for the Genetic Analysis of Count Phenotypes.
• Valentine Svensson. Cell differentiation as a temporal mixture model, with applications to single cell RNA-seq.
• Panagiotis Papastamoulis and Magnus Rattray. Bayesian methods for inferring Differential Transcript Usage from RNA-seq data.
• Dominik Schrempf, Asger Hobolth, Bui Quang Minh, Nicola De Maio and Carolin Kosiol. Discrete multivariate boundary mutation models and their application to tree inference.
• Jimi Cullen, Peter Holland and Jotun Hein. Estimating duplication-creation-loss histories of genes and micro-RNA on known phylogenetic trees.
• Felicity Allen and Leopold Parts. Joint parametric model of gRNA and gene effects in CRISPR/Cas9 screens.

12:10-13:30 - Lunch and posters (panels outside the lecture theatre)

Talks: Bayesian approaches to phenotypes

• 13:30-13:55 - Hannah Meyer, Francesco Paolo Casale, Oliver Stegle and Ewan Birney. LiMMBo: Linear Mixed Model Bootstrapping. A method to handle 100s of phenotypes in multi-trait mapping.
• 13:55-14:20 - Gwenael G.R. Leday and Sylvia Richardson. Bayes factors for gene association networks.
• 14:20-14:45 -  Kaur Alasoo. Fine-mapping condition-specific regulatory variants in human macrophages using ATAC-seq.
• 14:45-15:10 - Christopher Penfold. Gaussian Processes for Branching and Recombination in Developmental Biology.
• 15:10-15:40 - coffee

Talks: Phylogeny developments

• 15:40-16:05 - Michael Golden, Eduardo Garcia-Portugues, Michael Sorensen, Kanti Mardia, Thomas Hamelryck and Jotun Hein. A pairwise probabilistic model of protein sequence and structure evolution.
• 16:05-16:30 - Kris Varun Parag and Oliver Pybus. Optimal Point Process (Snyder). Filtering for the Coalescent and Birth-death Processes.
• 16:30-16:55 - Olga Chernomor, Bui Quang Minh and Arndt von Haeseler. Phylogenetic terraces and efficient phylogenetic inference.

16:55 - 17:00 Vote for MASAMB 2017

17:00-17:35 Spotlights II

• Konstantina Charmpi, Sebastian Röner and Andreas Beyer. Network-based distance measure.
• Carel Peeters. Directed Cyclic Mixed Graph Modeling for Genomic Data Integration.
• Marco Salvatore Nobile, Paolo Cazzaniga, Andrea Tangherloni, Simone Spolaor, Daniela Besozzi and Giancarlo Mauri. High-performance computing in Systems Biology: accelerating the simulation and analysis of large and complex biological systems.
• Marco Lorenzi, Boris Gutman, Paul Thompson, Daniel Alexander, Andre Altmann and Sebastien Ourselin. Enabling secure multivariate large-scale multi-centric analysis through on-line learning: an imaging genetics case study using recursive partial least squares.

17:35-19:00 - Posters and reception (panels outside the lecture theatre)

Tuesday 4 October 2016

9:00 Registration, coffee

Talks: Methodologies for Omics analysis (Chair: Lara Urban)

• 9:00-9:25 - Renaud Tissier, Jeanine Houwing-Duistermaat and Mar Rodriguez-Girondo. Incorporating Pathway Information For prediction in Omic Application.
• 9:25-9:50 - Jonathan Cairns. CHiCAGO: Statistical methodology for signal detection in Capture Hi-C data.
• 9:50-10:15 - Anna Ramisch, Matthew Huska, Martin Vingron and Annalisa Marsico. Predicting enhancers using a small subset of high confidence examples and co-training.

10:15-10:45 coffee

Talks: Methods for Diseases modeling

• 10:45-11:10 - Frank Dondelinger and Sach Mukherjee. Efficient High-Dimensional Disease Outcome Prediction in Heterogeneous Populations.
• 11:10-11:35 - Nicola De Maio, Chieh-Hsi Wu and Daniel Wilson. SCOTTI: Efficient Reconstruction of Transmission within Outbreaks with the Structured Coalescent.
• 11:35-12:00 - Paul Kirk. Statistical modelling reveals that retroviruses integrate into a shared, non-palindromic DNA motif.
• 12:00-12:25 - James Liley, John Todd and Chris Wallace. A genetic test for differential causative pathology in disease subgroups.

12:25- 13:15 lunch

Talks: Functional Modeling Approaches (Chair: Frank Dondelinger)

• 13:15-13:40 - Lee Hazelwood and John Hancock. Functional modelling of planar cell polarity: an approach for identifying molecular function.
• 13:40-14:05 - Sabrina Krause, Carolin Loos and Jan Hasenauer. Efficient Parameter Estimation for ODE Models from Relative Data Using Hierarchical Optimization.
• 14:05-14:30 - Juliane Liepe. Bayesian Methods to study Immune Cell Migration.
• 14:30-14:55 - Max Conway. Metabolic pathway identification via unsupervised methods.

Discussion and Conclusion