The Statistical Methods for Post Genomic Data workshop will take place in Ghent on 2-3 February 2023.

It is an annual meeting dedicated to statistical methods for post genomic data analysis. The aim of the workshop is to present work from mathematical to applied statistics, but also new areas in high throughput biology that could need new statistical developments. (For more information about the SMPGD conferences, see the official website.)

The workshop is usually organized around 3 to 4 invited speakers, and 3 to 4 invited sessions, and one session of contributed abstracts (oral presentations and posters). As SMPGD is especially interested in the statistical, mathematical, algorithmics or modelling questions raised by modern biology, presentations are expected to focus on these points.

The Book of Abstracts is here !

THURSDAY February 2nd

• 9h Registration

• 9h45 Opening

Microbiome data analysis (organized by Mahendra Mariadassou, INRAE Jouy, FR)

• 10h-10h45 : Keynote speaker : Hélène Morlon (Institut de Biologie de l'Ecole Normale Superieure, ENS CNRS, Paris, FR) Analyzing the evolution of the microbiota using metabarcoding data
  

• 10h45-11h15 FREE TIME

• 11h15-11h45 : Karoline Faust (Microbial Systems Biology,Rega institute, KU Leuven, Leuven, BE) From hairballs to hypotheses: microbial network analysis [Abstract]
  

• 11h45-12h15 : Camille Champion (MetaGenoPolis, INRAE Jouy-en-Josas, FR) Microbial network inferences and clustering [Abstract]

Contributed

• 12h15-12h30 : Marina Gomtsyan et al. Variable selection in sparse multivariate GLARMA models: Application to germination control by environment

• 12h30-13h45 : LUNCH

Logical modelling for quantitative data (organized by Loic Paulevé, Univ. Bordeaux, FR)

• 13h45-14h30 : Keynote speaker : Hans Kestler (Institute of Medical Systems Biology, Ulm University, Ulm, DE), Integrating data into Boolean networks — how do we handle the growth in complexity?

• 14h30-15h : Clémence Réda (Inserm Neurodiderot, FR), NORDic: a package for the automated identification of disease-associated Boolean networks and master regulators
• 15h00-15h30 : FREE TIME
• 15h30-16h : Eirini Tsirvouli (NTNU, Norway), Integration of Logical Modeling and Omics Data to Predict Drug Responses and Enhance Understanding of Disease Mechanisms

• 16h-16h30 : Gustavo Magaña López (LaBRI, Université de Bordeaux), scBoolSeq: linking scRNA-seq data and Boolean models

Contributed

• 16h30-16h45 : Matthieu Najm et al. Representation and quantification of Module Activity from omics data with rROMA

• 16h45-17h : Ulysse Herbach et al. Gene expression and regulatory networks: bridging the gap between mechanistic modeling and machine learning

FRIDAY February 3rd

Spatial Transcriptomics (organized by Yvan Saeys, Univ. Ghent, BE)

• 9h00-09h45 : Keynote speaker Davide Risso (University of Padova, IT) Statistical modeling of gene expression profiles in spatial transcriptomics

• 09h45-10h15 : Giovanni Palla (Institute of Computational Biology, Helmholtz Munich, DE) SpatialData: a FAIR framework for spatial omics data in Python
  

• 10h15-10h45 : Helena Crowell (Statistical BioInformatics, University of Zurich, CH) Inflammatory bowel disease at single-cell and sub-cellular spatial resolution
• 10h45-11h15 : FREE TIME

Contributed

• 11h15-11h30 : Lorette Noiret et al. From spatial transcriptomics to tissue morphogenesis

• 11h30-11h45 : Lotte Pollaris et al. SPArrOW: a workflow for subcellular resolution spatial transcriptomics assays

• 11h45-12h00 : Benjamin Hivert et al. Post-clustering difference testing: valid inference and practical considerations

• 12h00-12h15 : Jeroen Gilis et al. Robust differential expression analysis at the sub-gene level

• 12h15-12h30 : Anthony Ozier-lafontaine et al. From single-cell differential expression analysis to differential transcriptome analysis with kernel based testing

• 12h30-14h00 : LUNCH

Interpretable Machine Learning

• 14h00-14h45 : Damien Garreau (Univ. Côte d'Azur, Nice, FR) Interpretability in machine learning, the case of LIME

Contributed

• 14h45-15h00: Mitja Briscik et al. Improvement of variables interpretability in kernel PCA

• 15h00-15h15 : David Hirst et al. Matrix factorization applied to multi-omics datasets with transfer learning

• 15h15-15h30 : Marie Breeur et al. Optimal transport for automatic alignment of non-targeted metabolomic data

• 15h30-15h45 CLOSING

• The registration is free but mandatory. Registration closes 15 January 2023
  
• Abstracts are limited to 500 words 
• Deadline for submitting a contribution (talks and posters) :15 December 2022
• Author notification : January 2023
  

Practical information on reaching the venue has been updated!

Important: The workshop is currently planned as an in-person onsite event. Most measures in Belgium have also been lifted. For now, we kindly ask attendees to follow basic regulations (e.g. washing hands) and to stay home in case of symptoms. Changes in the pandemic situation in the next few months might require additional measures that will be posted here.

SMPGD Steering committee

• Alice Cleynen (Univ Montpellier)
• Tristan Mary-Huard (INRAE, AgroParisTech)
• Franck Picard (ENS Lyon, CNRS)

Local organizing committee:

• Lieven Clement (Ghent University)
• Yvan Saeys (VIB, Ghent University)
• Ruth Seurinck (VIB, Ghent University)

  Pictures credit : Stad Gent