Tuesday, July 6, 2021

Time Event (+)
09:00 - 10:00 Connection test
Room 1 (Room 1 - https://us02web.zoom.us/s/85935915598) 		 
10:00 - 11:00 Opening
Main room (Main room - https://us02web.zoom.us/s/85223524848 ) 		 
11:00 - 11:55 Keynote: Sarah Teichman
Chaiwoman: Emmanuelle Becker
Main room (Main room - https://us02web.zoom.us/s/85223524848 ) - TBAMultiMAP: Dimensionality Reduction of Multiple Datasets by Manifold Approximation and Projection 		 
12:00 - 12:15 Plan France Médecine Génomique
Salle principale (Main room - https://us02web.zoom.us/s/85223524848 ) 		 
12:15 - 13:30 Lunch
Gather town (Gather Town) 		 
13:30 - 14:00 GDR BIM
Salle principale (Main room - https://us02web.zoom.us/s/85223524848 ) 		 
14:00 - 15:20 Structurale bioinformatics I (Room 1 - https://us02web.zoom.us/s/85935915598) - Christine Gaspin
Room 1 		(+)  
14:00 - 14:20 › Flexible protein structural alignment for non trivial comparisons - Jean-Christophe Gelly  
14:20 - 14:40 › MEDUSA: deep learning based protein flexibility prediction - Tatiana Galochkina  
14:40 - 15:00 › A Graph-based Similarity Approach to Classify Recurrent Complex Motifs from their Context in RNA Structures - Coline Gianfrotta  
15:00 - 15:20 › Feature extraction for the clustering of small 3D structures: application to RNA fragments - Alix Delannoy  
14:00 - 15:20 Statistics, machine learning & artificial intelligence I (Room 2 - https://us02web.zoom.us/s/87021240668) - Laura Cantini
Room 2 		(+)  
14:00 - 14:20 › Spliceator: A new strategy for genome annotation using deep learning algorithm - Nicolas Scalzitti  
14:20 - 14:40 › MISTIC: A prediction tool to reveal disease- relevant deleterious missense variants - Thomas Weber  
14:40 - 15:00 › Discovery of widespread transcription initiation at microsatellites predictable by sequence- based deep neural network - Mathys Grapotte  
15:00 - 15:20 › Processing of Proton Transfer Reaction Time- of Flight Mass Spectrometry (PTR-TOF-MS) data for untargeted biomarker discovery in exhaled breath: application to COVID-19 intubated ventilated patient - Camille Roquencourt  
14:00 - 15:20 Functional Genomics (Room 3 - https://us02web.zoom.us/j/82493854546) - Nicolas Thierry-Mieg
Room 3 		(+)  
14:00 - 14:20 › Dissection of intercellular communication using the transcriptome-based framework ICELLNET - Lucile Massenet-Regad  
14:20 - 14:40 › Topoisomerase I prevents transcription- replication conflicts at transcription termination sites - Yaqun Liu  
14:40 - 15:00 › Automated Quality Control of NGS Data using Machine Learning - Jean-Fred Fontaine  
15:00 - 15:20 › PenDA, a rank-based method for personalized differential analysis: application to lung cancer - Clémentine Decamps  
15:20 - 15:30 Coffee break
Gather town (Gather Town) 		 
15:30 - 17:00 Posters session 1 (even numbers)
gather town - Session posters 1 (nombres pairs) gather town 		 
17:00 - 17:30 IFB
Salle principale (Main room - https://us02web.zoom.us/s/85223524848 ) 		 

Wednesday, July 7, 2021

Time Event (+)
09:00 - 09:55 Keynote : Jean-Philippe Vert
Chairman: Mahendra Mariadassou
Main room (Main room - https://us02web.zoom.us/s/85223524848 ) - Deep learning for biological sequences 		 
10:00 - 10:40 Databases & data visualisation (Room 1 - https://us02web.zoom.us/s/85935915598) - Sophie Schbath
Room 1 		(+)  
10:00 - 10:20 › CALR-ETdb, the database of calreticulin variants diversity in essential thrombocythemia - Alexandre de Brevern  
10:20 - 10:40 › Genoscapist: online exploration of quantitative profiles along genomes via interactively customized graphical representations - Sandra Dérozier  
10:00 - 10:40 Evolution & phylogenetics (Room 2 - https://us02web.zoom.us/s/87021240668) - Étienne Danchin
Room 2 		(+)  
10:00 - 10:20 › AvP: a software package for automatic phylogenetic detection of candidate horizontal gene transfers. - Georgios Koutsovoulos  
10:20 - 10:40 › ConDor: Site-wise convergence detector in large protein alignments - Morel Marie  
10:00 - 10:40 Computational Systems Biology (Room 3 - https://us02web.zoom.us/j/82493854546) - Elisabeth Remy
Room 3 		(+)  
10:00 - 10:20 › Automatic Synthesis of Boolean Networks from Biological Knowledge and Data - Athénaïs Vaginay  
10:20 - 10:40 › Distinguishing Context Dependent Events in Quotients of Causal Stories - Sebastien Legare  
10:40 - 11:00 Coffee break
Gather town (Gather Town) 		 
11:00 - 12:30 Posters session 2 (odd numbers)
Gather town - Posters session 2 (odd numbers)
Gather town 		 
12:30 - 14:00 Lunch
Gather town (Gather Town) 		 
14:00 - 14:55 Keynote: Julie Reveillaud
Chairwoman: Claudine Médigue
Main room (Main room - https://us02web.zoom.us/s/85223524848 ) - Wolbachia population genomes from individual Culex pipiens ovaries reveal a plasmid-like extrachromosomal circular element 		 
15:00 - 15:15 Sponsor - Illumina
Salle principale (Main room - https://us02web.zoom.us/s/85223524848 ) 		 
15:15 - 15:30 Coffee break
Gather town (Gather Town) 		 
15:30 - 18:00 Symposium: Bioinformatics for microbiomes
Room 1 -
  • Rob Fin : Translating microbiome research outputs into main stream services in MGnify
  • Karoline Faust Development of computational approaches for the prediction and analysis of species interaction networks from metagenomics data
  • Lucie Zinger TBA
  • Présentations flash de posters
 		 
15:30 - 18:00 Symposium Post selection inference: valid double-dipping
Room 2 -
  • Yuval Benjamini Selective inference for region detection with high- throughput genomic assays
  • Mitra Ebrahimpoor Inflated False Discovery Rate due to Volcano Plots: Problem and Solutions
  • Pause
  • Antoine Villié Post-Selection Inference for Sequence Motifs
  • Lucy Gao Valid DifferentialAnalysis for Groups Defined via Clustering
 		 

Thursday, July 8, 2021

Time Event (+)
09:00 - 09:55 Keynote : Thomas Schiex
Chairwoman: Gwenaelle André-Leroux
Salle principale (Main room - https://us02web.zoom.us/s/85223524848 ) - Computer-aided protein design 		 
10:00 - 11:00 Algorithms & sequence data structures I (Room 1 - https://us02web.zoom.us/s/85935915598) - Raluca Uricaru
Room 1 		(+)  
10:00 - 10:20 › UMI-Gen: a UMI-based read simulator for variant calling evaluation - Vincent Sater  
10:20 - 10:40 › QUARTIC: QUick pArallel algoRithms for high- Throughput sequencIng data proCessing - Frédéric Jarlier  
10:40 - 11:00 › GraphUnzip: unzipping assembly graphs with long reads and Hi-C - Roland Faure  
10:00 - 11:00 Meta-omics & microbial genomics (Room 2 - https://us02web.zoom.us/s/87021240668) - Damien Éveillard
Room 2 		(+)  
10:00 - 10:20 › No microbe is an island: metabolic complementarity in the microbiota and identification of key players - Clémence Frioux  
10:20 - 10:40 › Shallow Shotgun Metagenomics as a cost- effective and accurate alternative to WGS for taxonomic profiling and clinical diagnosis - Benoit Goutorbe  
10:40 - 11:00 › panRGP: a pangenome-based method to predict genomic islands and explore their diversity - Adelme Bazin  
10:00 - 11:00 Platfom services and activities (Room 3 - https://us02web.zoom.us/j/82493854546) - Erwan Corre
Room 3 		(+)  
10:00 - 10:20 › Best practices of software development with Nextflow to support daily production in oncology - Fabrice Allain  
10:20 - 10:40 › ToulligQC 2: fast and comprehensive quality controlfor Oxford Nanoporesequencing data - Laurent Jourdren  
10:40 - 10:50 › Galaxy Genome Annotation (GGA) environment in the cloud - Romain Dallet  
10:50 - 11:00 › A digital space for EMERGEN, the French plan for SARS-CoV-2 genomic surveillance and research - Jacques van Helden  
11:00 - 11:15 Coffee break
Gather town (Gather Town) 		 
11:15 - 11:30 Association des Jeunes Bioinformaticiens de France (JeBiF)
Main room (Main room - https://us02web.zoom.us/s/85223524848 ) 		 
11:30 - 12:30 Assemblée Générale de la Société Française de Bioinformatique (SFBI)
Main room (Main room - https://us02web.zoom.us/s/85223524848 ) 		 
12:30 - 14:00 Lunch
Gather town (Gather Town) 		 
14:00 - 14:55 Keynote : Carole Goble
Chairwoman: Sarah Cohen-Boulaka
Salle principale (Main room - https://us02web.zoom.us/s/85223524848 ) - FAIR Computational Workflows 		 
15:00 - 15:15 Sponsor - Genopole d’Evry
Main room (Main room - https://us02web.zoom.us/s/85223524848 ) 		 
15:15 - 15:30 Coffee break
Gather town (Gather Town) 		 
15:30 - 18:00 Symposium: Open Science and Interoperability in Bioinformatics
Room 1 - https://us02web.zoom.us/s/85935915598 -
  • Sarah Cohen-Boulakia Introduction aux concepts de la Science Ouverte et de l'Interopérabilité appliqués à la Bioinformatique
  • Frank Michel Annoter les pages web liées à la biodiversité avec des informations structurées pour les rendre plus découvrables et réutilisables
  • Philippe Rocca-Serra Operating Fair principles: the FAIR cookbook project
  • Cyril Pommier Standards d'échanges et concepts FAIR pour la Communauté Plantes
  • Laura Furlong The DisGeNET knowledge platform: facilitating the access and use of disease genomics data
  • Oliver Collin & Konogan Bouhry maDMP: vers un écosystème intégré pour la gestion des données de la Recherche
  • Pause
  • Flash presentations: T.Rosnet, J. Seiler, P.Poulain, H. Chiapello
  • Table ronde
 		 
15:30 - 18:00 Where are we in the search for DNA motifs involved in transcriptional regulation?
Room 2 - https://us02web.zoom.us/s/87021240668 -
  • François Parcy Confronting in vitro genomics to real life data reveals properties of floral transcription factors
  • Morgane Thomas-Chollier Motif discovery in epigenomics datasets with RSAT peak-motifs2
  • Anthony Mathelier Combining TF binding profiles with ChIP-seq data to predict high quality direct TF-DNA interaction
  • Pause
  • Laurent Brehelin Identification of long regulatory elements in the genome of Plasmodium falciparum and other eukaryotes
  • Julien Rozière Genome-wide de novo detection of preferentially located motifs in 5’- and 3’-proximal regions from Arabidopsis and maize
 		 
15:30 - 18:00 Symposium: Integrative structural modeling in the era of big data and artificial intelligence
Room 3 - https://us02web.zoom.us/s/82493854546 -
  • Introduction: Current challenges in 3D modeling of proteins and complexes
  • Riccardo Pellarin Bayesian modeling in integrative structural biology
  • Ezgi Karaca Dynamic Integrative Modeling of Molecular Machines
  • Pause
  • Sergei Grudinin Entering the post-protein structure prediction era
  • Slavica Jonic Cryo-EM studies of continuous conformational variability of biomolecules in vitro and in situ based on image analysis, simulation and deep learning
 		 

Friday, July 9, 2021

Time Event (+)
09:00 - 09:55 Keynote : Roderic Guigó Serra
Chairman: Charles Lecellier
Salle principale (Main room - https://us02web.zoom.us/s/85223524848 ) - The epigenetic logic of gene activation 		 
10:00 - 10:15 Sponsor - France Génomique
Main room (Main room - https://us02web.zoom.us/s/85223524848 ) 		 
10:15 - 10:30 Coffee break
Gather town (Gather Town) 		 
10:30 - 11:50 Structural Bioinformatics II (Room 1 - https://us02web.zoom.us/s/85935915598) - Benjamin Bardiaux
Room 1 		(+)  
10:30 - 10:50 › SLiMAN - a webserver to analyze protein- protein interaction mediated by short linear motifs - Victoria Reys  
10:50 - 11:10 › Discovery of macrocyclic inhibitors of ALK using Frags2Drugs, a fragment-based drug design in silico tool - Gautier Peyrat  
11:10 - 11:30 › Structural analysis of interaction between SARS-CoV-2 spike protein and the human ACE2 receptor - Sarah Nacéri  
11:30 - 11:50 › Cyclodipeptide synthases of the NYH subfamily recognize tRNA using an α-helix enriched with positive residues - Anastasia Croitoru  
10:30 - 11:50 Statistics, machine learning & artificial intelligence II (Room 2 - https://us02web.zoom.us/s/87021240668) - Nicolas Vergne
Room 2 		(+)  
10:30 - 10:50 › IIDEA: Interactive Inference for Differential Expression Analyses - Nicolas Enjalbert Courrech  
10:50 - 11:10 › Benchmarking joint multi-omics dimensionalityreduction approaches for the study of cancer - Laura Cantini  
11:10 - 11:30 › The SgenoLasso and its cousins for selective genotyping and extreme sampling - Charles-Elie Rabier  
11:30 - 11:50 › A systematic analysis of the genomic features involved in cellular specificities of transcription factor binding - Raphaël Romero  
10:30 - 11:50 Algorithms & sequence data structures II (Room 3 - https://us02web.zoom.us/j/82493854546) - Rayan Chiki
Room 3 		(+)  
10:30 - 10:50 › MTG-Link: filling gaps in draft genome assemblies with linked read data - Anne Guichard  
10:50 - 11:10 › LEVIATHAN: efficient discovery of large structural variants by leveraging long-range information from Linked-Reads data - Pierre Morisse  
11:10 - 11:30 › Freddie: annotation-independent detection and Ddscovery of transcriptomic alternative splicing isoforms using long-read sequencing - Cedric Chauve  
11:50 - 12:30 Presentation JOBIM 2022
SFBI rewards
JOBIM 2021 closure
Main room (Main room - https://us02web.zoom.us/s/85223524848 )