#3 Etienne Bardet, Mariène Wan, Johann Confais and Hadi Quesneville "REPET v4.0: A robust and accessible tool for TE annotation"

#4 Franck Samson and Pierrick Samson "Digital Concord: Cultivating links between Discord and the secrets of the genome."

#5 Enora Geslain, Filip Volckaert and Hugo Gante "Refining eDNA taxonomic assignments with a phylogenetic approach"

#6 Thomas Vitre, Denis Fargette, Paul Bastide, Elisabeth Fichet-Calvet, Dàniel Cadar, Stéphane Guindon and François Chevenet "EvoLaps 3 : Next-Level Phylogeographic Visualization"

#9 Arnab Mutsuddy, Jonah R. Huggins, Aurore K. Amrit, Cemal Erdem, Jon C. Calhoun and Marc R. Birtwistle "Mechanistic Modeling of Cell Viability Assays with in silico Lineage Tracing"

#11 Mouna El Garb, Emmanuel Coquery, Fabien Duchateau and Nicolas Lumineau "A meta-model for representing bioinformatics workflow to improve reproducibility"

#13 Anna Tran, Valentin Wucher, Charles Petitpre, Céline Riou, Anne-Laurie Pinto, Pauline Wajda, Gabriel Chemin, Elise Peter, Bertrand Dubois, Virginie Desestret, Jérôme Honnorat and Bastien Joubert "Single-cell profiling reveals distinct immune profile in anti-Yo paraneoplastic neurological syndrome"

#14 Nicolas Fontrodona, Matéo Bazire, Julien Ladet, Cyril Bourgeois and Franck Mortreux "COSMIQ-4C: quantifying 3D genome interactions of retroviral proviruses at the single-clone level"

#15 Hajar Bouamout, Sandra Dérozier, Mathilde Rumeau, Louise Deléger, Marine Courtin, Claire Nedellec, Robert Bossy, Sylvie Combes, Valentin Loux and Mouhamadou Ba "HoloOligoDB: Exploring Mammalian Milk Oligosaccharides"

#16 Fabien Mareuil, Rachel Torchet, Luis Checa Ruano, Vincent Mallet, Michael Nilges, Guillaume Bouvier and Olivier Sperandio "InDeepNet a web plateform for predicting and validating protein-protein interaction binding sites"

#17 Leonard Brindel and Clémence Frioux "Metage2Metabo-PostAViz: exploring and visualising the wealth of metabolic modelling predictions to compare microbial communities"

#19 Lauryn Trouillot, Rossana Sussarellu and Gregory Carrier "Exploring the challenges of Dinoflagellate transcriptome assembly with long-read data"

#20 Emma Mathieu, Rajesh Durairaj and Aurore Lamy "Computational investigation of chemosensory receptors in salmonid species"

#21 Salomé Brunon, Laurent Jourdren and Sophie Lemoine "Generation of gene annotations including UTRs for Bulk and Single-Cell RNASeq analyses"

#22 Corinne Blugeon, Ali Hamraoui, Laurent Jourdren, Sophie Lemoine, Tiphaine Marvillet, Catherine Senamaud-Beaufort, Stephane Le Crom and Morgane Thomas-Chollier "GenomiqueENS, the IBENS Genomics core facility"

#23 Alice Jegou, Jérémy Lucas, Marianne Dreuillet, François Parcy and Romain Blanc-Mathieu "Building an atlas of transcription factor DNA-binding properties in Arabidopsis thaliana"

#25 Marinna Gaudin, Damien Eveillard and Samuel Chaffron "Beyond species : towards the modeling and prediction of marine plankton ecological associations biogeography"

#26 Chabname Ghassemi Nedjad, Clémence Frioux and Loïc Paulevé "Seed2LP: seed inference in metabolic networks for reverse ecology applications"

#27 Matthias Zytnicki and The Genotoul-Bioinfo Platform "The Genotoul-Bioinfo platform"

#28 Florent Dumont and Pauline Tran "MOAL: Improving the Reproducibility of OMICS Bioanalysis"

#31 Pauline Le Corre, Yann Le Cunff and Anthony Bretaudeau "MLOps best practices for bioinformatics"

#33 Lindsay Goulet, Florian Plaza Oñate, Pauline Barbet, Alexandre Famechon, Benoît Quinquis, Eugeni Belda, Edi Prifti, Emmanuelle Le Chatelier and Guillaume Gautreau "CroCoDeEL: accurate control-free detection of cross-sample contamination in metagenomics data"

#35 Brieuc Quemeneur, Audrey Bihouée, Samuel Chaffron, Claudine Médigue, Hervé Ménager and Alban Gaignard "A multi-modal and temporal antibiotic resistance knowledge graph"

#36 Hugo Lefeuvre, Audrey Bihouée, Bérénice Batut, Samuel Chaffron, Claudine Médigue and Philippe Glaser "ABRomics-analysis: Developing Metagenomic Workflows for National Antibiotic Resistance Surveillance Platform"

#37 Claire Rioualen, Maria Doyle, Alban Gaignard, Vincent Carey and Hervé Ménager "Annotating Bioconductor packages using the EDAM ontology"

#38 Julie Aubert and Christelle Hennequet-Antier "StatOmique: sharing experience on statistical analysis of omics data"

#39 Saswat Mohanty, Francesca Chiaromonte and Kateryna Makova "Evolutionary Dynamics of G-Quadruplexes in Human and Other Great Ape Telomere-to-Telomere Genomes"

#40 Benjamin Loire, Galadriel Brière and Anaïs Baudot "KGATE, an Autoencoder Training Environment for exploring and benchmarking Knowledge Graph Embedding models"

#47 Bérénice Batut, Gildas Le Corguillé and Anthony Bretaudeau "Exploring the Richness of the French Galaxy Ecosystem"

#48 Helena Rasche, Saskia Hiltemann, Bjoern Gruening, Galaxy Training Network and Bérénice Batut "Galaxy Training: A powerful framework for teaching!"

#51 Romane Libouban and Anthony Bretaudeau "Genome Annotation tooling in Galaxy: contributions of the EuroScienceGateway project"

#54 Thomas Biscop, Delphine Sicard and Hugo Devillers "Investigating the habitat range of yeast species"

#55 Mathilde Sola, French Gut Consortium, Patrick Veiga, Clémence Frioux and Magali Berland "Unraveling gut microbiome latent structures: enterosignatures and microbial guilds"

#57 Gadea Cabrejas, Marine Sroussi, Hugo Croizer, Nicolas Salaün, Lara Jerman, Adèle Trottier, Thierno Balde, Sophie Doublier, Antoine Cazelles, Théo Hirsch, Roseline Vibert, Delphine Le Corre, Sophie Mouillet-Richard, Pierre Laurent-Puig, Clarice Groeneveld and Aurélien de Reyniès "fastCNV: Fast and Accurate CNV prediction from scRNA-Seq and Spatial Transcriptomics Data"

#61 Amel Benarbia, Sarah Djebali and Gaëlle Legube "Characterizing the landscape of genomic rearrangements associated to double-strand breaks associated to transcribed loci (TC-DSB)"

#63 Elena Nicollin and Arthur Leblois "Generation Mechanisms and Species-Specific Properties of Beta Oscillations in the Basal Ganglia"

#66 Julien Roziere, Franck Samson, Cécile Guichard, Margot Correa, Sylvie Coursol, Marie-Laure Martin and Véronique Brunaud "Plant-PLMview: a web-tool and in silico method for identifying cis-regulatory elements in gene-proximal regions of plants"

#68 Alyssa Imbert, Mylène Delosière, Justine Bertrand-Michel, Pauline Le-Faouder, Sylvain Emery, Laurence Bernard and Muriel Bonnet "Normalization Strategies in Lipidomic Profiling: Implications for Ewe’s Milk Lipolysis Biomarker Discovery"

#69 Sébastien Theil, Mahendra Mariadassou, Philippe Ruiz, Guillaume Kon Kam King, Matthieu Bouchon, Isabelle Verdier-Metz, Cécile Bord, Annick Bernalier-Donadille, Juliette Bloor, Nicolas Chemidlin Prévost-Bouré, Evelyne Forano, Elisa Michel, Bruno Martin, Céline Delbès and Anne-Laure Abraham "Microbial transfers in dairy systems under changing climate and farming practices"

#71 Olivier Rué, Gabryelle Agoutin, Lucas Auer, Lynn Bekaï, Maria Bernard and Géraldine Pascal "A web platform for taxonomic exploration of metabarcoding databanks"

#72 Victor Grentzinger, Leonor Palmeira, Keith Durkin, Maria Artesi and Vincent Bours "Lifting the veil on Challenging Medically Relevant Filaggrin Gene"

#74 Louis Ollivier, Fanny Pouyet, Sarah Cohen Boulakia and Gilles Fischer "A Robust Computational Framework to Characterize the Genetic Diversity Across 3,570 Strains in S. cerevisiae"

#77 Martin Racoupeau, Alexis Mergez, Christophe Klopp, Fabrice Legeai, Frederic Choulet, Philippe Bardou and Christine Gaspin "Pan1c: A Snakemake Workflow for Chromosome-Level Pangenome Construction and analysis"

#78 Rachel Legendre, Hugo Varet, Deniz Uresin, Claudia Chica and Anastassia Komarova "Viral RNA meets RIG-I: insights from RNA-Seq"

#79 Maëlle Pomiès, Gabryelle Agoutin, Lucas Auer, Géraldine Pascal and Sylvie Combes "Long-read sequencing of the 16S-ITS-23S operon enables maternal microbiota transmission study at the strain-level resolution"

#80 Ahamed Tchatakoura, Marie Buysse, Marie-Laure Setier Rio, Claire Loiseau and Amandine Aviles "Microplastic effects on Mosquito Gene Expression and Microbiota"

#177 Anthony Haidamous, Océane Reichert, David Meyre and Sébastien Hergalant "Comprehensive Identification of Pleiotropic Associations for Chronic Lymphocytic Leukemia"

#178 Yanis Asloudj, Seydina Mouhamed Diouf, Fleur Mougin and Patricia Thebault "The Good, the Bad and the Ugly: methodological and conceptual pitfalls in single-cell data science."

#191 Franciane Nuissier and Jacques Lagnel "OLGA: Local Accession Management Tool for Biological Resources Centres (BRC)"

#202 Matthieu Najm, Marko Baric, Taru Muranen, Ekaterina Gaydukova, Altti Ilari Maarala, Jaana Oikkonen, Federico Bolelli, Vittorio Pipoli, Veli-Matti Isoviita, Johanna Hynninen, Benno Schwikowski and Johann Dreo "Using OntoWeaver to Integrate Heterogeneous Information in the OncodashKB Semantic Knowledge Graph for Finding Personalized Actionable Drugs in Ovarian Cancer"

#53 Bérénice Batut, Clea Siguret, Hugo Serville, Géraldine Piot, Ivan Wawrzyniak, Hicham El Alaoui, Frédéric Delbac and Nadia Goué "Building a Standardized Database for Honey Bee Microbiome: Addressing Metadata and Data Comparability gaps."

#56 Elisa Michel, Marie Bourlioux, Christophe Poix, Paul-Marie Grollemund, Sébastien Theil, Isabelle Verdier-Metz, Pauline Gerber, Louise Mion, Emilie Rousset, Jérémy Mègemont, Julien Maurs, Salammbô Bastien, Christophe Chassard and Céline Delbès "A database to predict safety risks of raw milk cheeses from farming practices in climate change context"

#82 Kévin Da Silva, Marie-Anne Rameix Welti and Frédéric Lemoine "Accounting for defective genomes in influenza consensus genome reconstruction"

#83 Fatima-Zahra Abani, Grégoire Blavier, Stéphane Rousseau, Myriam Vezain, Céline Derambure, Françoise Charbonnier, David Wallon, Aline Zaréa, Olivier Quenez, Catherine Schramm and Gaël Nicolas "Exploration of non-coding and structural variations in early-onset Alzheimer disease patients: contribution of PacBio HiFi long-read sequencing"

#84 Annie Lebreton, Byte-Sea Consortium and Erwan Corre "BYTE-Sea: the digital infrastructure of ATLASea, the French marine genome sequencing programme."

#85 Anthony Bertrand, Bruno Charbit, Florian Dubois, Marie Robert, Lluis Quintana-Murci, Violaine Saint-André and Darragh Duffy "Identification of transcriptional regulatory networks underlying variable human immune responses"

#86 Maximilian Stingl, Juliette Cooke, Julie Gering, Yannick Jeanson, Agnès Emans, Emmanuelle Arnaud, Jean-Charles Portais, Valérie Planat, Fabien Jourdan and Nathalie Poupin "Multi-omics data integration in constraint-based modeling of metabolic networks to study the metabolism of adipose-derived stem cells"

#87 Triskell Cumunel, Fatoumata Binta Barry, Mark Hoebeke, Andreas Wallberg, Jean Yves Toullec and Erwan Corre "EuphausiiDB : A Transcriptomic reference Database for Krill Species"

#89 Coralie Muller, Clémence Frioux and Sylvain Prigent "Generation of metabolomic-informed models of metabolism in complex microbial communities"

#90 Irelka Colina Moreno, Raphaël Monteil, Alexandre Maes and Angela Falciatore "Assessing rhythmicity in the marine diatom P. tricornutum circadian transcriptome"

#94 Marie Denoulet, Nils Giordano, Mia Cherkaoui, Elise Douillard, Magali Devic, Florence Magrangeas, Stéphane Minvielle, Céline Vallot and Eric Letouzé "Detection of Somatic Copy Number Alterations from Single-Cell Multiomics Data with the R package muscadet"

#95 Assia Benmehdia, Mourad Sahbatou, Florian Sandron, Delphine Bacq-Daian, Hélène Blanché, Edith Le Floch, Alexandre How-Kit, Jean-François Zagury, Jean-François Deleuze and Claire Dandine-Roulland "Exploring Rare Genetic Variants in French Centenarians: A Path to Understanding Longevity"

#97 Matthias Blum, Laise Cavalcanti Florentino, Emma Hobbs, Alessandro Polignano and Alex Bateman "InterPro: Accelerating Protein Annotation with AI"

#98 Pakyendou E. Name, Ezechiel B. Tibiri, Fidèle Tiendrebeogo, Seydou Sawadogo, Florencia Djigma, Lassina Traoré, Angela O. Eni and Justin S. Pita "Uncovering the sweetpotato virome in Burkina Faso using Nanopore-based metagenomics and bioinformatics approaches"

#99 Said Ait Salah "SeaGO: A Scalable and High-Performance Platform for Functional Annotation and Genomic Data Visualization"

#103 Matthieu Boulinguiez, Vincent Lombard and Nicolas Terrapon "Gammaproteobacteria Operons for polysaccharide utilization: from Algae to a Larger Scope (GOALS project)"

#105 Julien Guglielmini, Brice Raffestin and Eduardo Rocha "GRIS: Gene Repertoires Indexes of Similarity"

#106 Adela Poublan-Couzardot, Bernadette Julier, Marie Pegard, Simon de-Givry, Christine Gaspin, Fabrice Legeai, Frederic Choulet and Christophe Klopp "A strategy for balanced haplotype-resolved de novo assembly of the autotetraploid genome of Medicago sativa"

#109 Romane Junker, Eduardo Rocha and Marie Touchon "Integrases as Key Players in Shaping Pangenome Hotspots in Enterobacteriaceae"

#112 Stevenn Volant, Sébastien Brier, Véronique Hourdel and Mathilde Briday "MEMHDX v2: Advanced Preprocessing and Enhanced Analysis of HDX-MS Datasets"

#113 Daniel Diaz Gonzalez, Valentin Tilloy, Sophie Alain and Sebastien Hantz "Comprehensive Herpesviruses Antiviral drug Resistance Mutation Database (CHARMD)"

#114 Elodie Babina, Meersseman Cédric, Charlotte Mouden, Lucie Piouceau, Nicolas Prudon, Emilie Fagianni, Myriam Abarkan and Lucie Manache-Alberici "Overall genetic characterization of a 3D iPSC-derived cell therapy for Parkinson Disease through a multi-omic approach"

#115 Agnès Barnabé, Erwan Le Floch, Jonathan Duperrier, Mariène Wan, Aaron Millan-Oropeza, Thomas Lacroix, Jonathan Mineau-Cesari, Sophie Schbath and Valentin Loux "SIDURI: from an integrative information system to a user-friendly portal for data analysis and visualisation dedicated to fermentation"

#116 Catalina Gonzalez Gomez, Manuel Rosa Calatrava and Julien Fouret "Optimizing in silico drug discovery: simulation of connected differential expression signatures and applications to benchmarking"

#117 Antoine Malet, Fabrice Legeai, Ludovic Duvaux, Elisabeth Fournier, Pierre Gladieux, Cécile Lorrain, Marc-Henri Lebrun, Anne Genissel, Thierry C. Marcel and Nicolas Lapalu "GrAuFlow: A snakemake workflow for pangenome graph augmentation using assembled short-read data"

#118 Erwan Le Floch, Agnès Barnabé, Jonathan Duperrier, Thomas Lacroix, Jonathan Mineau-Cesari, Sophie Schbath and Valentin Loux "Data stewardship strategy of the Ferments du Futur grand challenge"

#119 Margaux Imbert, Sébastien Ravel, Christine Tranchant and Stéphane De Mita "Gradiv: a tool to compute diversity statistics from a pangenome graph"

#120 Hanin Ali, Bastien Degardins, Charles Paperman, Camille Marchet and Guillaume Gautreau "Bridging gene-level and sequence-level pangenome graph to explore microbial diversity"

#122 Fiona Hak, Mélina Gallopin, Camille Marchet and Daniel Gautheret "Large Language Models-driven Reconstruction of Sequence Read Archive Metadata for Cancer Research"

#123 Alexina Damy, Xavier Amorós-Gabarrón, Giulia Calia, Maxime Multari, Corinne Rancurel, Martine Da-Rocha and Silvia Bottini "POMOdORO database: a Pan OMics cOllection of tOmato undeR biOtic stress"

#124 Gwenn Guichaoua, Veronique Stoven, Chloé Azencott, Sylvie Rodrigues-Ferreira and Clara Nahmias "Towards new therapeutic strategies for protein x-deficient Triple-Negative Breast Cancers"

#126 Lucy Jimenez, Laura Villegas and Philipp Schiffer "Genomic Approaches for Nematode Systematics: UCEs and Machine Learning"

#128 Zakia Tariq, Florian Bonin, Sylvain Baulande, Virginie Raynal, Ivan Bièche, Rosette Lidereau, Paul Cottu and Keltouma Driouch "Evolutionary process of breast cancer metastasis"

#129 Jacques Lagnel, Jean-François Bompa, Pierre Catala, Cédric Goby, Baptiste Lagardère, Christophe Langrume, François Laperruque and Agnès Margallé "LoRa-com: INRAE's Shared LoRaWAN Platform for Agro-environmental Research"

#132 Elisabeth Hellec, Benjamin Loire, Arthur Durante, Jérémy Rousseau, Bastien Chassagnol, Magis Papail, Mahaut Goor, Yanis Asloudj and Noryah Safla "International Society for Computational Biology Student Council Regional Student Group France (RSG France) : Association of Young Bioinformaticians of France (JeBiF)"

#133 Sthyve Tatho, Simon Labarthe and Valentina Baldazzi "cMFA for multi-omics data integration in microbial community models"

#134 Audrey Onfroy, Piotr Topilko, Sophie Hüe and Denis Thieffry "Towards reproducible single-cell transcriptomics analysis"

#135 Arnaud Quelin, Jazeps Medina Tretmanis, Maria Avila-Arcos, Emilia Huerta-Sanchez, Frédéric Austerlitz and Flora Jay "Assessing the contribution of ancient genomic data to the inference of historical demographic parameters"

#136 Julie Orjuela and Yves Vigouroux "iKISS: A Reference-Free Pipeline for Inferring Domestication Traces in Plants"

#141 Rémy Siminel, Stéphanie Robin, Erell Le Deun, Matéo Boudet and Anthony Bretaudeau "The Environmental Cost of Bioinformatics: A Perspective from GenOuest, a Bioinformatics Platform"

#142 Jinmei Gao, Caroline Sancho, Chloé Antoine, Vincent Collura, Jessica Andreani, Jean-Christophe Rain, Diego Javier Zea and Raphaël Guerois "Large-scale proteomics and Deep learning for the generation of protein-protein interaction (PPI) maps at atomic resolution"

#144 Alice Mataigne, Marie Lahaye, Valentin Loux, Anne Siegel, Olivier Dameron, Olivier Rué and Fabrice Legeai "Data modeling in agroecology, a first schema to characterize plant holobiont and environmental data"

#146 Olivier Sand, Bérénice Batut, Frédéric de Lamotte, Lucie Khamvongsa-Charbonnier, Hélène Chiapello and Anne-Françoise Adam-Blondon "IFB/ELIXIR-FR contributions to the ELIXIR Training Platform Programme"

#147 Ambre Baumann, Laura Eme, Olivier Lespinet, Purificacion Lopez-Garcia, David Moreira and Anne Lopes "Protein fold diversity and evolution in Archaea: from adaptation to extreme environments to the origin of biodiversity"

#148 Djémilatou Ouandaogo, Pauline Lasserre-Zuber, Vincent Pailler, Hélène Rimbert and Pierre Sourdille "Bread wheat pangenome graph provides access to gene diversi-ty, structural variations and key agronomic loci architecture"

#149 Elisa Mages and Anna Niarakis "Computational modeling of JAK inhibitors in patients with Rheumatoid Arthritis."

#150 Aldair Martin Martinez Pineda, Bertille Pouget, Claire Hoede, Christine Gaspin and Romain Volmer "Transient RNA structures and recombination in H7NX high pathogenicity Avian Influenza virus."

#152 Ouissem Saidi, Anna Niarakis, Nicolas Gaudenzio, Sylvain Soliman and Fabien Crauste "DigiDermA: Modeling Interactions between Mast Cells and Sensory Neurons in Atopic Dermatitis"

#154 Nicolas Ricort-Teixidor and Anna Niarakis "ABRAAM: Agent-Based RheumAtoid Arthritis Model for personalised therapy"

#158 The-Chuong Trinh, Guido Uguzzoni, Jean-Baptiste Woillard and Christophe Battail "SynOmics: A Synthetic Data Pipeline for Transcriptomics and Clinical Data Accelerating Benchmarking Study"

Presentation of the following networks:

• IFB : Institut Français de Bioinformatique
• GDR BIMMM : Bioinformatique Moléculaire: Modélisation et Méthodologie
• JeBif : Association des Jeunes Bioinformaticien·ne·s de France
• MERIT : Réseau MetiER en bIoinformaTique
• Bioinfo-Diag :  Réseau Français de Bioinformatique pour le Diagnostic
• PCI : Peer Community In

Bordeaux City Tour 
On-site meeting at 18:30 
Rendez-Vous monument des Girondins, 2792 Pl. des Quinconces, Bordeaux
Tramway B: STOP Quinconces (+ 2 mn walk)

Wine tasting by ISVV
Meeting for bus departure at 17:40, ENSEIRB building, or on-site meeting at 18:00
Institut des Sciences de la Vigne et du Vin, 210 Chemin de Leysotte, Villenave d'Ornon

Initiation Salsa - Jardin Public
Meeting for bus departure at 17:40, ENSEIRB building
Jardin Public Cours de Verdun, Bordeaux
Tramway B: STOP Quinconces (+ 7 mn walk)

Escalade, Arkose
Meeting for bus departure at 17:40, ENSEIRB building, or on-site meeting at 18:00
170 Cr du Médoc Galerie Tatry, 33300 Bordeaux
Tramway B: STOP Cours du Médoc (+ 16 mn walk)

Karaoké
On-site meeting at 18:00 
BAM Karaoké Box Chartrons, 38 rue Cornac, Bordeaux
Tramway B: STOP CAPC Musée d'Art Contemporain (+ 6 mn walk)

Escape Game John Doe
On-site meeting at 18:00
7 rue d'Alembert Bordeaux
Tramway B: STOP Victoire (+ 3 mn walk)

Online Game – GeoGuessr:
On-site activity at 17:45, ENSEIRB, or online using the provided link
On-site: Amphitheatre D - Bring your laptop!

#2 Mariène Wan, Françoise Alfama, Etienne Bardet, Johann Confais, Nicolas Francillonne, Christina Gacic, Vanita Haurheeram, Erik Kimmel, Najwa Lakmouri, Maud Marty, Célia Michotey, Cyril Pommier, Raphaël Flores, Michaël Alaux and Anne-Françoise Adam-Blandon "URGI – A scientific facility dedicated to plant bioinformatics"

#50 Gildas Le Corguillé, Anthony Bretaudeau, Bjoern Gruening and Bérénice Batut "Breaking Myths: The Reality of Galaxy’s Capabilities and Impact"

#65 Franck Samson and Sébastien Aubourg "GBOT upgrade : a loci comparison tool dedicated to the exploration of duplications and synteny"

#67 Maximilien Colange, Akpéli Nordor and Abdelkader Behdenna "A priori estimation of reproducibility odds informs the sizing of omic data cohorts"

#155 Lindsay Goulet, Michèle Tixier-Boichard, Alexandre Lecoeur, Marie-Noëlle Rossignol, Florence Valence, Victoria Chuat, Emile Chambellon, Emmanuelle Helloin, Samuel Mondy, Christian Morabito, Benoît Quinquis, Nicolas Pons, Florian Plaza Oñate, Anthony Venon, Carine Remoué, Adrien Falce, Michel-Yves Mistou and Mathieu Almeida "The HARMONI project: Evaluating advanced microbiota characterization methods for host and environmental samples using DNA metabarcoding and metagenomic sequencing"

#159 Ngoc Chau Pham, Delphine Naquin, Erwin Van Dijk, Céline Hernandez, Yan Jaszczyszyn, Magali Perrois and Claude Thermes "A High-Throughput Approach and Pipeline for Single-Bacterium Transcriptomics"

#162 Alexandre Mir, Benjamin Jouen, Patricia Homobono Brito de Moura, Sylvain Prigent, Pierre Pétriacq and Valérie Schurdi-Levraud "Assessing phenomic prediction in the plant species Stevia rebaudiana B."

#164 Clara Emery, Lucas Leclère, Eric Pelletier, Vincent Lefort, Yvan Le Bras and Erwan Corre "French Bioinformatics Institute’s Initiatives for Biodiversity Genomic Data Management"

#165 Nicolas Maurice, Claire Lemaitre, Riccardo Vicedomini and Clémence Frioux "Investigating taxonomy-based clustering of HiFi reads for de novo assembly of complex metagenomes"

#168 Sophia Marguerit, Marc Galland, Cervin Guyomar, Jacques Lagnel, Fabrice Legeai and Amandine Velt "gwas-pipe: a Nextflow pipeline for GWAS analyses incorporating quality control"

#169 Julie Segueni and Kevin Blighe "Identifying subtypes in neurological disease patients"

#180 Elea Pauliat, Paul Tissot, Clément Fraysse, Tristan Hillairet, Stéphane Delmotte, Romain Delunel, Vincent Lacroix, Caroline Leroux, Jérome Lejot, Romuald Marin, Christophe Blanchet, Damien de Vienne, François Mialhe, Dominique Guyot, Christine Oger, Laurence Josset, Jocelyn Turpin, Oldrich Navratil and Vincent Navratil "Virome@tlas, a digital platform for the virosphere surveillance"

#181 Fabien Kambu Mbuangi, Eugeni Belda, Idy Diop, Jean-Daniel Zucker and Edi Prifti "Interpretable Multi-Class Classification of the Microbiome Using Predomics"

#182 Helene Bret and Ingemar Andre "Deciphering codon choice: how deep learning models select between synonymous codons"

#183 Maxime Lecomte, Fabien Jourdan, Louison Fresnais, Kahina Abed, Mickael Le Balch, Romain Grall and Nathalie Poupin "A refined strategy linking transcriptomics and metabolic models for deciphering chemical induced changes"

#185 Victor Lefebvre, Sarah Djebali, Sylvain Foissac and Anamaria Necsulea "Evolutionary divergence of regulatory chromatin contacts following gene duplication"

#187 Nils Giordano, Marie Denoulet, Mia Cherkaoui, Elise Douillard, Magali Devic, Florence Magrangeas, Stéphane Minvielle and Éric Letouzé "Integrative Bulk and Single-Cell Multiomic Framework for Tracing (Sub)clonal Evolution in Multiple Myeloma"

#189 Paul Tissot, Elea Pauliat, Clément Fraysse, Tristan Hillairet, Stéphane Delmotte, Romain Delunel, Vincent Lacroix, Caroline Leroux, Jérôme Lejot, Romuald Marin, Christophe Blanchet, Damien M. de Vienne, Francois Mialhe, Dominique Guyot, Christine Oger, Laurence Josset, Jocelyn Turpin, Oldrich Navratil and Vincent Navratil "Virus–host–ecosystem studies at large-scale: Please check your sequence metadata !"

#192 Alicia Gouge, Rachel Onifarasoaniaina, Sébastien Jacques, Céline Méhats, Julie Guignot and Christophe Le Priol "Spatial transcriptomic analysis of neuroinflammation and brain dysfunction induced by bacterial meningitis in juvenile mice"

#193 Lea Meunier, Guillaume Appé, Maximilien Colange, Éléonore Fox, Lucas Hensen, Camille Marijon, Akpéli Nordor, Solène Weill and Abdelkader Behdenna "Data-Driven Discovery of Novel Antigen Targets: A Scalable Bioinformatics Pipeline"

#194 Philippe Bordron, Julien Touchais and Christine Gaspin "SnoBoard: surfing on ncRNA modifications and snoRNA guides"

#195 Matteo Bettiati, Philippe Nghe and Vaitea Opuu "Size optimization of RNA sequences in the RNA World context."

#196 Raynald De Lahondès, Louison Lesage, Vadim Puller, Fabien Kambu Mbuangi, Eugeni Belda, Jean-Daniel Zucker and Edi Prifti "Gpredomics: rapid, interpretable and accurate prediction models for compositional data"

#199 Rémi Planel and Juliette Bonche "GaaS: Galaxy as a Service"

#200 Antoine Toffano, Jérôme Aze and Pierre Larmande "Protein Function Prediction: Graph Neural Networks as Multi-modal Aggregators of Sequences, Networks, and Ontologies"

#201 Elisabeth Hellec, Gautier Richard, Séverine Hervé, Christelle Fablet, Stéphanie Bougeard, Sarah Thirioux, Céline Deblanc, Mathieu Andraud, Edouard Hirchaud, Pierrick Lucas, Roselyne Fonseca, Nicolas Barbier, Stéphane Gorin, Stéphane Quéguiner, Eric Eveno, Florent Eono, Gilles Poulain, Stéphane Kerphérique, Yannick Blanchard, Nicolas Rose and Gaëlle Simon "Characterization of swine influenza viruses infections in pig herds: A machine learning approach identifying key environmental, physiological, immunological and virological determinants"

#203 Maëla Sémery, Marianyela Petrizzelli, Sylvain Prigent, Mélisande Blein-Nicolas and Christine Dillmann "Integrating proteomics data into a genome-scale metabolic model to predict metabolic fluxes in maize leaf"

#206 Ezechiel B. Tibiri, Romaric K. Nanema, Justin Pita, Fidèle Tiendrebeogo and Christine Tranchant-Dubreuil "Co-building a Sustainable Bioinformatics Training Program: The International Certificate in Bioinformatics and Genomics in West Africa"

#207 Hugo Bellavoir, Anna-Sophie Fiston-Lavier, Sébastien Puechmaille, Sèverine Bérard, Malo Lorenzo, Laureline Sastre and Maxime Lambert "Identification and characterization of inversions’ content in Pseudogymnoascus destructans"

#208 Sasha Darmon, Arnaud Mary and Vincent Lacroix "Models and Methods for de novo Identification of Transposable Elements in short-read RNAseq data"

#210 Alexis Bourdais, Fabrice Legeai, Valentin Guyot and Mikhail Pooggin "A pipeline for Trans-kingdom small RNAs analysis"

#214 Pierre Gérenton, Jean Keller, Philippe Veber, Vincent Lacroix and Bastien Boussau "Methods for identifying associations between plant genomes and symbioses despite the presence of paralogues"

#215 Hélène Collinot, Maryline Favier, Rachel Onifarasoaniaina, Alicia Gouge, Djihane Djeridane, Isabelle Lagoutte, Sébastien Jacques, Daniel Vaiman, Céline Méhats and Christophe Le Priol "Recursivity improves spatial transcriptomics data clustering quality"

#220 Owen Griere, Vera Pancaldi and Matthieu Bernard "Using PhysiCell modelling to simulate the PDAC tumor microenvironment response to therapies based on patients’ spatial omics data"

#223 Aurore Besson, Thomas Derrien, Fabien Degalez, Olivier Godfroy, Sandrine Lagarrigue, Mark Cock, Ahmed Debit and Helena Cruz de Carvalho "SCANS: Assessing lncRNA conservation across species"

#224 Cathleen Mirande-Ney, Santiago Trueba, Yves Gibon and Sylvain Prigent "Predictive metabolomic to decipher plant eco-evolutive tendencies"

#225 Quentin Rott, Odile Lecompte and Laurence Choulier "Single-cell classification of breast cancer and identification of cell surface protein targets."

#227 Mallia Geiger, Victoria Meslier, Elisa Menozzi, Frederico Fierli, Marine Gilles, Kai-Yin Chau, Revi Shahar Golan, Alexandre Famechon, Sofia Koletsi, Nadine Loefflad, Selen Yalkic, Christian Morabito, Aymeric David, Benoît Quinquis, Nicolas Pons, Stanislav Dusko Ehrlich, Jane Macnaughtan, Mathieu Almeida and Anthony Hv Schapira "Exploring the relationship between GBA1 host genotype and gut mi-crobiome in the GBA1L444P/WT mouse model: Implications for Par-kinson disease pathogenesis"

#229 Julien Guidihounme, Simon de Givry and Benjamin Linard "Probabilistic motif search and differentials in pangenome graphs"

#233 Alexandre Flageul, Edouard Hirchaud, Céline Courtillon, Flora Carnet, Paul Brown, Beatrice Grasland and Fabrice Touzain "vvv2_align_SE, vvv2_align_PE / vvv2_display: Galaxy worflows and software to compute, summarize and visualize variant calling and annotations of a viral assembly"

#235 Alexis Mergez, Guillermina Hernandez-Raquet, Raphaël Mourad and Matthias Zytnicki "DLScaff: Deep Learning for Hi-C Assembly Correction and Scaffolding"

#236 Lucien Piat and Ludovic Duvaux "MSpangepop: Simulating complex structural variants under advanced demographic scenarios using the coalescent"

#237 Diego Kauer, Céline Hosteins, Marta Avalos, Laurence Delhaes and Raphaël Enaud "Predicting Non-Response to Cystic Fibrosis Modulators from Microbiota Using Standard and Custom Machine Learning"

#239 Emilie Montaut, Jean-Emmanuel Sarry and Vera Pancaldi "Multi cohort investigation of the AML tumour microenvironment in relation to mutational profiles"

#240 Baptiste Hennecart, Eugeni Belda, Florian Plaza-Oñate, Raynald de Lahondès, Jean-Daniel Zucker and Edi Prifti "Comparative Evaluation of Short-Read, Long-Read, and Hybrid Assemblies for MAG Recovery in Human Fecal Metagenomes"

#241 Meron Tsetargachew, Élodie Calvez, Maxime Lambert, David Couvin, Anubis Vega-Rua, Michael C. Fontaine, Anna-Sophie Fiston-Lavier and Emmanuelle Permal "Evolutionary genomics of the Aedes aegypti Mosquitoes in the West Indies: Impact of Transposable Elements in their Adaptation"

#242 Marcelo Hurtado, Vera Pancaldi, Leila Khajavi and Abdelmounim Essabbar "CellTFusion: A novel approach to unravel cell states via cell type deconvolution and TF activity estimated from bulk RNAseq data identifies cell niches potentially predictive of cancer progression"

#247 Zakaria Tougui, Philippe Cinquin, Nelle Varoquaux and Antoine Frenoy "Mapping the Human Small Intestinal Microbiome: A Statistical Learning Approach"

#253 Thomas Stosskopf, Mégane Boujeant, Anaïs Baudot, Christine Brun and Andreas Zanzoni "A computational workflow to map and evaluate the impact of human genetic variation on the interactome"

#255 Mourdas Mohamed and François Sabot "GraDex, a set of indexes for sequence graphes in GFA format"

#256 Pascal G P Martin, Xuhong Yu and Scott D Michaels "A workflow for the analysis of QuantSeq FWD data"
 

More information: https://miggs.mathnum.inrae.fr/evenements 

Comment concilier nos activités en bioinformatique avec les limites planétaires ?

Plus d'information : https://maiage.inrae.fr/node/3345

AI in Healthcare: From Fundamentals to the Clinic

More information: https://www.atlasea.fr/en/mini-symposium-jobim-2025-the-genomics-of-biodiversity/