JOBIM 2020 - Sciencesconf.org

Mar. 30

Mer. 01

Jeu. 02

Ven. 03

09:00

10:00

11:00

12:00

13:00

14:00

15:00

16:00

17:00

Test de connexion initial

11:00 - 12:30 (1h30)

Test de connexion initial

Salle 2: User Connection Test

jobim2020-contact@lirmm.fr

Ouverture

13:00 - 14:00 (1h)

Ouverture

Salle 1: Opening, Keynote Flora Jay

› ouverture de JOBIM 2020 - - 13:00-13:10 (10min)

› discours des invités d'honneur et créateurs de JOBIM Marie-France Sagot et Olivier Gascuel - - 13:10-13:50 (40min)

› le mot de la SFBI - - 13:50-13:55 (05min)

Keynote: Flora Jay

14:00 - 15:00 (1h)

Keynote: Flora Jay

Salle 1: Opening, Keynote Flora Jay

Creating Artificial Genomes using Generative Networks

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15:00 - 15:10 (10min)

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Phylogénie et Evolution
Réseaux et Systèmes

15:10 - 16:10 (1h)

Phylogénie et Evolution

Salle 2: Evolution and Phylogeny

› A Fast Likelihood Method to Reconstruct and Visualize Ancestral Scenarios - Anna Zhukova 15:10-15:30 (20min)

› Quantifying transmission dynamics of acute hepatitis C virus infections in a heterogeneous population using sequence data - Gonché Danesh 15:30-15:50 (20min)

› Evolution of replication origins in vertebrate genomes: rapid turnover despite selective constraints - Florian Massip 15:50-16:10 (20min)

15:10 - 16:10 (1h)

Réseaux et Systèmes

Salle 3: Network and Systems

› Inferring ligand-receptor interactions from single-cell and bulk transcriptomic data - Jacques Colinge 15:10-15:30 (20min)

› Formalizing and enriching phenotype signatures using Boolean networks - Meline Wery 15:30-15:50 (20min)

› Inferring biochemical reactions and metabolite structures using a molecular transformation approach - Gabriel Markov 15:50-16:10 (20min)

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16:10 - 16:30 (20min)

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Posters & démos

16:30 - 17:30 (1h)

Posters & démos

Salle virtuelle des posters

Keynote: Kjell Petersen

9:00 - 10:00 (1h)

Keynote: Kjell Petersen

Salle 1: Keynote Kjell Petersen

E-infrastructure, platforms and services provided by Elixir Norway

Posters & démos

10:00 - 11:00 (1h)

Posters & démos

Salle virtuelle des posters

Session plateformes et services en bioinformatique
Statistiques et Apprentissage Automatique

11:00 - 12:40 (1h40)

Session plateformes et services en bioinformatique

Salle 2: Platforms and Services in Bioinformatics

› Ensembl 2020, data growth - Species Quick Release Processing - Marc Chakiachvili 11:00-11:20 (20min)

› nf-core, a community effort for collaborative, peer-reviewed analysis pipelines - Maxime Garcia 11:20-11:40 (20min)

› Fostering Open Science and FAIR practices among the IFB infrastructures : the OpenLink and maDMP4LS projects - Julien Seiler / Olivier Collin 11:40-12:00 (20min)

› What's new on IFB NNCR Cluster(s) ? - Gildas Le Corguillé / Julien Seiler 12:00-12:20 (20min)

› Bio2M platform: find everything in your RNA-Seq data - Anthony Boureux 12:20-12:40 (20min)

11:00 - 12:20 (1h20)

Statistiques et Apprentissage Automatique

Salle 3: Statistics and Machine Learning

› Consensus clustering applied to multi-omic disease subtyping - Marie-Galadriel Briere 11:00-11:20 (20min)

› Bringing ABC inference to the machine learning realm : AbcRanger,an optimized random forests library for ABC - François-David Collin 11:20-11:40 (20min)

› On the accuracy in high‐dimensional linear models and its application to genomic selection - Charles-Elie Rabier 11:40-12:00 (20min)

› Towards CNNs Representations for Small Data Classification - Khawla Seddiki 12:00-12:20 (20min)

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12:40 - 14:00 (1h20)

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Keynote: Martin Weigt

14:00 - 15:00 (1h)

Keynote: Martin Weigt

Salle 1: Keynote Martin Weigt, Mini-symposium Long Reads

Protein sequence landscapes: from data-driven models to evolution-guided sequence design

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15:00 - 15:10 (10min)

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Mini Symp. Long reads
Mini Symp. Deep learning
Mini Symp. RNA structure

15:10 - 17:40 (2h30)

Mini Symp. Long reads

Salle 1: Keynote Martin Weigt, Mini-symposium Long Reads

Programme

› Long reads in the wide - Jean-Marc Aury, Commissariat à l'Energie Atomique (CEA), Genoscope, Institut de Biologie François-Jacob - Vincent Lacroix, ERABLE, Laboratoire de Biométrie et Biologie Evolutive UMR5558 - Hélène Touzet, 2. Univ. Lille, CNRS, Inserm, CHU Lille, Institut Pasteur de Lille, US 41 - UMS 2014 - PLBS, bilille, F-59000 Lille, France., 3. Univ. Lille, CNRS, Centrale Lille, UMR 9189 - CRIStAL - Centre de Recherche en Informatique Signal et Automatique de Lille, F-59000 Lille, France. 15:10-17:40 (2h30)

15:10 - 17:40 (2h30)

Mini Symp. Deep learning

Salle 2: Mini-symposium Deep Learning for Omics

Programme

› Deep learning for omics - Laurent Jacob, Laboratoire de Biométrie et Biologie Evolutive - Raphaël Mourad, Laboratoire de Biologie Cellulaire et Moléculaire du Contrôle de la Prolifération - Vera Pancaldi, Centre de Recherche en Cancérologie de Toulouse - Elissar Nasseredine, CBI, Toulouse - Vincent Rocher, Syndicat interdépartemental pour l'assainissement de l'agglomération parisienne - Mathys Grapotte, Sanofi-Aventis R&D, Institut de Génétique Moléculaire de Montpellier, Laboratoire dÍnformatique de Robotique et de Microélectronique de Montpellier - Arnaud Abreu, Laboratoire des sciences de língénieur, de línformatique et de límagerie 15:10-17:40 (2h30)

15:10 - 17:40 (2h30)

Mini Symp. RNA structure

Salle 3: Mini-symposium RNA Structure

Programme

› RNA structure, design and interaction with proteins - Petr Sulc, Rockefeller University - Samuela Pasquali, Cibles Thérapeutiques et conception de médicaments - Fabrice Leclerc, Institut de Biologie Intégrative de la Cellule - Sebastian Will, Laboratoire dínformatique de l\'École polytechnique [Palaiseau] 15:10-17:40 (2h30)

Keynote: Johannes Söding

9:00 - 10:00 (1h)

Keynote: Johannes Söding

Salle 1: Keynote Johannes Söding

Methods for the analysis of big data in metagenomics and systems medicine

Posters & démos

10:00 - 11:00 (1h)

Posters & démos

Salle virtuelle des posters

Génomique Fonctionnelle
NGS & Algorithmique

11:00 - 12:00 (1h)

Génomique Fonctionnelle

Salle 2: Functional Genomics

› Automated Inference of Gene Regulatory Networks Using Explicit Regulatory Modules - Clemence Reda 11:00-11:20 (20min)

› Chromosight: a computer vision based program for pattern recognition in chromosome contact maps - Cyril Matthey-Doret 11:20-11:40 (20min)

› Reproducibility first: mining CLIP-seq data to understand the Exon Junction Complex - Toni Paternina 11:40-12:00 (20min)

11:00 - 12:40 (1h40)

NGS & Algorithmique

Salle 3: NGS and Algorithmics

› Long-read error correction: a survey and qualitative comparison - Pierre Morisse 11:00-11:20 (20min)

› UMI-VarCal: a new UMI-based variant caller that efficiently improves low-frequency variant detection in paired-end sequencing NGS libraries - Vincent SATER 11:20-11:40 (20min)

› Towards a better understanding of the low discovery rate of short-read based insertion variant callers - Wesley Delage 11:40-12:00 (20min)

› Overcoming uncollapsed haplotypes in long-read assemblies of non-model organisms - Nadège Guiglielmoni 12:00-12:20 (20min)

› REINDEER: efficient indexing of k-mer presence and abundance in sequencing datasets - Camille Marchet 12:20-12:40 (20min)

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12:40 - 14:00 (1h20)

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Keynote: Andrea Rau

14:00 - 15:00 (1h)

Keynote: Andrea Rau

Salle 1: Keynote Andrea Rau

Integrative and interactive analyses of multi-omics data

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15:00 - 15:10 (10min)

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AG SFBI

15:10 - 16:30 (1h20)

AG SFBI

Salle 2: SFBI Meeting, GDR-BIM, IFB, JeBIF

Présentation GDR-BIM

16:30 - 16:55 (25min)

Présentation GDR-BIM

Salle 2: SFBI Meeting, GDR-BIM, IFB, JeBIF

Présentation IFB

16:55 - 17:20 (25min)

Présentation IFB

Salle 2: SFBI Meeting, GDR-BIM, IFB, JeBIF

Présentation JeBIF

17:20 - 17:30 (10min)

Présentation JeBIF

Salle 2: SFBI Meeting, GDR-BIM, IFB, JeBIF

Médecine Computationnelle
Protéines & Structure

9:00 - 10:20 (1h20)

Médecine Computationnelle

Salle 1: Computational Medicine

› Guidelines for cell-type heterogeneity quantification based on a comparative analysis of reference-free DNA methylation deconvolution software - Clémentine Decamps 09:00-09:20 (20min)

› Designing a statistical and user friendly application to analyse cell imaging - Rachel Torchet 09:20-09:40 (20min)

› PRECISE: A domain adaptation approach to transfer predictors of drug response from pre-clinical models to tumors - Soufiane Mourragui 09:40-10:00 (20min)

› Using the Human Cell Atlas for tracking SARS-CoV-2 entry factors - Christophe Becavin 10:00-10:20 (20min)

9:00 - 11:00 (2h)

Protéines & Structure

Salle 2: Proteins and Structure

› Local conformations in ordered and intrinsically disordered proteins - Alexandre G. de Brevern 09:00-09:20 (20min)

› A new mechanism of glucose transport by GluT1 discovered in molecular dynamics simulations - Tatiana Galochkina 09:20-09:40 (20min)

› ComPotts: Optimal alignment of coevolutionary models for protein sequences - Hugo Talibart 09:40-10:00 (20min)

› Docking of RNA Hairpin on Protein Using a Fragment-Based Method - Antoine Moniot 10:00-10:20 (20min)

› Computational methods for RNA complexes secondary structure prediction - Fariza Tahi 10:20-10:40 (20min)

› InterPro: the protein classification database - Typhaine Paysan-Lafosse 10:40-11:00 (20min)

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11:00 - 11:15 (15min)

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Keynote: Nuria Lopez-Bigas

11:15 - 12:15 (1h)

Keynote: Nuria Lopez-Bigas

Salle 3: Keynote Nuria Lopez-Bigas, Closing

Computational analysis of cancer genomes

Clôture

12:15 - 12:30 (15min)

Clôture

Salle 3: Keynote Nuria Lopez-Bigas, Closing