Abstract

Building on a long-running tradition of two separate satellites devoted to network science applied to modelling in biology (NetSciReg) and network medicine (NetMed), this 2020 edition will have as a central theme the importance of mechanistic network models in disease. The hype about BigData and artificial intelligence (AI) in medicine should not make us forget that mechanistic models are key to understanding the biological processes underlying disease.

Importantly, networks are key elements of biological models, be they gene regulatory networks, cell-cell interaction networks, or multi-scale integrative networks.

This meeting is targeted to researchers in the network science field interested in biomedical applications and also to biomedical scientists who are considering network approaches for studying and modelling disease, at either the molecular, cellular, or population level.

Posters Session

Room 1: Boolean Models in Network Medicine

Link: https://meet.jit.si/NetBioMed_Poster1

Poster 1A: A network perspective on macrophage phenotypes in the tumour microenvironment. Malvina Marku and Vera Pancaldi Poster 1B: A Boolean Model of Microglial Phenotype Transitions Under Acute and Chronic Inflammation. Bao Nguyen and Erzsebet Regan

Room 2: Dynamic processes in Biological Networks

Link: https://meet.jit.si/NetBioMed_Poster2

Poster 2A: The cell cycle as a temporal network of protein interactions. Maxime Lucas, Alain Barrat, Bianca Habermann and Laurent Tichit
Poster 2B: Multi-Layer network exploration by Random walk with Restart. Anthony Baptista, Anaïs Baudot and Aitor Gonzalez

Organizers

Speakers

  • 13:10-13:50 Alex Arenas

    A validated single-cell-based strategy to identify diagnostic and therapeutic targets in complex diseases More information

    Universidad Rovira i Virgili, Tarragona, Spain

  • 13:50-14:20 Laurence Calzone

    Modelling immunogenic cell death using a stochastic Boolean approach More information

    Institut Curie, Paris, France

  • 14:20-14:50 Katie Bentley

    Temporal dynamics of angiogenesis: intertwined network dynamics determine the spacing of new blood vessels More information

    The Crick Institute, London, UK

  • 14:50-15:05 Bryan Glazer & Carlos Lopez

    Monte Carlo Tree Search for Biological Model Synthesis

    Vanderbilt University, Tennessee, US

  • 15:30-16:00 Markus List

    Beyond protein-protein interaction networks - implications of alternative splicing and non-coding RNA regulation More information

    Technical University of Munich, Germany

  • 16:00-16:30 Marieke Kuijjer

    Modeling transcriptional and post-transcriptional network rewiring to understand healthy tissues and cancer More information

    Center for Molecular Medicine, Oslo, Norway

  • 16:30-16:45 Diana Garcia-Cortes & Enrique Hernandez-Lemus & Jesus Espinal-Enriquez

    Loss of long-range gene co-expression is a common feature in cancer

    Vanderbilt University, Tennessee, US

  • 16:45-17:15 Manlio De Domenico

    Multilayer modeling of complex interactions in systems biology and systems medicine More information

    Fondazione Bruno Kessler, Trento, Italy

  • 17:15-17:45 Anaïs Baudot

    Mining multi-layer networks to study rare diseases More information

    Marseille Medical Genetics Unit, Marseille, France

Schedule CEST (Paris)

Time Slot Description
13:00-13:10 Opening Remarks -
13:10-13:50 A validated single-cell-based strategy to identify diagnostic and therapeutic targets in complex diseases Keynote: Alex Arenas We performed the first systematic analysis of pathways, potential biomarkers, and drug targets in scRNA- seq data from a complex disease, starting with inflamed joints and lymph nodes from a mouse model of arthritis. We found the involvement of hundreds of pathways, biomarkers, and drug targets that differed greatly between cell types. Analyses of scRNA-seq and GWAS data from human rheumatoid arthritis (RA) supported a similar dispersion of pathogenic mechanisms in different cell types. Thus, systems-level approaches to prioritize biomarkers and drugs are needed. Here, we present a prioritization strategy that is based on constructing network models of disease-associated cell types and interactions using scRNA-seq data from our mouse model of arthritis, as well as human RA, which we term multicellular disease models (MCDMs). We find that the network centrality of MCDM cell types correlates with the enrichment of genes harboring genetic variants associated with RA and thus could potentially be used to prioritize cell types and genes for diagnostics and therapeutics. We validated this hypothesis in a large-scale study of patients with 13 different autoimmune, allergic, infectious, malignant, endocrine, metabolic, and cardiovascular diseases, as well as a therapeutic study of the mouse arthritis model.
Section 1: Modelling in Biological Systems -
13:50-14:20 Modelling immunogenic cell death using a stochastic Boolean approach Invited Speaker Laurence Calzone. Institut Curie, Paris, France
14:20-14:50 Temporal dynamics of angiogenesis: intertwined network dynamics determine the spacing of new blood vessels Invited Speaker Katie Bentley. The Crick Institute, London, UK
14:50-15:05 Monte Carlo Tree Search for Biological Model Synthesis Contributed Talk 1 Bryan Glazer & Carlos Lopez. Vanderbilt University, Tennessee, US
15:05-15:20 Poster Flash Talks -
15:20-15:30 Break -
Section 2: Molecular Networks -
15:30-16:00 Beyond protein-protein interaction networks - implications of alternative splicing and non-coding RNA regulation Invited Speaker Markus List. Technical University of Munich, Germany
16:00-16:30 Modeling transcriptional and post-transcriptional network rewiring to understand healthy tissues and cancer Invited Speaker Marieke Kuijjer. Center for Molecular Medicine, Oslo, Norway
16:30-16:45 Loss of long-range gene co-expression is a common feature in cancer Contributed Talk 2 Diana Garcia-Cortes & Enrique Hernandez-Lemus & Jesus Espinal-Enriquez. National Institute of Genomic Medicine, Mexico, Centro de Ciencias de la Complejidad, UNAM, Mexico
Section 3: Multi-layer Networks in Disease -
16:45-17:15 Multilayer modeling of complex interactions in systems biology and systems medicine Invited Speaker Manlio De Domenico. Fondazione Bruno Kessler, Trento, Italy
17:15-17:45 Mining multi-layer networks to study rare diseases Invited Speaker Anaïs Baudot. Marseille Medical Genetics Unit, Marseille, France
17:45 Closing -
17:45 Posters -

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