• 15:00:    #67    Aurélie Mercadié
• 15:03:    #75    Lucie Khamvongsa-Charbonnier
• 15:06:    #80    Rose Marin
• 15:09:    #95    Rémi-Vinh Coudert
• 15:12:    #105    Morgane Terezol
• 15:15:    #118    Anne-Laure Abraham
• 15:18:    #122    Julie Lao
• 15:21:    #126    Thomas Stosskopf
• 15:24:    #134    Karine Massau
• 15:27:    #139    Vincent Lombard
• 15:30:    #190    Yohan Hernandez Courbevoie
• 15:33:    #191    Nicolas Homberg
• 15:36:    #195    Eva Mercier
• 15:39:    #199    Lou Bergogne
• 15:42:    #219    Benoît Bergk Pinto
• 15:45:    #231    Juliette Audemard
• 15:48:    #232    Victor Lefebvre
• 15:51:    #241    Marouane Boumlik
• 15:54:    #245    Juliette Cooke
• 15:57:    #251    Pierre Berriet

#26  Nadège Guiglielmoni and Philipp H. Schiffer  "Phasing or purging: tackling the genome assembly of a highly heterozygous animal species in the era of high-accuracy long reads"

#27  Baptiste Ruiz, Arnaud Belcour, Samuel Blanquart, Sylvie Buffet-Bataillon, Isabelle Le Huërou-Luron, Anne Siegel and Yann Le Cunff  "SPARTA : intégration de connaissances fonctionnelles pour une classification interprétable des microbiomes."

#34  Rémy Costa, Alban Mancheron and William Ritchie  "Enhancing genomic data privacy: k-mer based strategy for reducing re-identification risks"

#43  Clémence Su, Olivier Alibert, Florence Glibert, Cécile Dulary, Cédric Fund, Eric Bonnet, Jean-Franíçois Deleuze, Solène Brohard and Sophie Chantalat  "High-order chromatin contacts in regulatory regions with the Pore-C approach"

#51  Vitushanie Yogaranjan  "Artificial self-sustaining microbial consortia for space biomining: predicting the species dynamics via an ecological model."

#54  Franck Samson and Sébastien Aubourg  "GBOT, one flew over the ortholog's nest"

#56  Allyson Moureaux and Anne-Muriel Arigon  "La place de l'Intelligence Artificielle pour la gestion de la production pharmaceutique aujourd'hui."

#57  Adam Schumacher, Mickaël Lebalch, Léopold Carron and Romain Grall  "Characterization of Transcriptomic Signature of an anchor compound for Quality Control of Future Studies."

#60  Margaux Haering and Bianca Habermann  "mitoXplorer 3.0 : exploring mitochondrial dynamics in single-cell data."

#61  Arthur Durante, Guillaume Devailly, Katia Feve, Yann Labrune, Laure Gress, Denis Milan, Jean-Luc Gourdine, Hélène Gilbert, David Renaudeau and Juliette Riquet  "Climate, heat-stress, and genetics impacts the whole-blood gene expression levels in crossbred pigs"

#62  Elise Maigné, Isabelle Sanchez, David Carayon, Joseph Tran and Jean-Franíçois Rey  "SK8: an institutional management and hosting service for Shiny applications"

#63  Jean-Christophe Mouren, Antoinette Van Ouwerkerk, Magali Torres, Frederic Gallardo, Salvatore Spicuglia and Benoit Ballester  "Genome-wide Characterization of Exons as Regulatory Elements"

#64  Julie Cartier, Chloé-Agathe Azencott, Adeline Fermanian and Florian Massip  "Applying the knockoff procedure on transcriptomic data to improve stability"

#65  Bryan Brancotte and Elodie Chapeaublanc  "Shiny-K8s, a toolkit to easily and reproducibly deploy your (R)Shiny app thanks to docker and Kubernetes (without mastering them!)"

#67  Aurélie Mercadié, Eléonore Gravier, Gwendal Josse, Nathalie Vialaneix and Céline Brouard  "NMFProfiler: a supervised NMF extension for integrating omics data"

#69  Faustine Souc, Thomas Bellembois, Nils Paulhe, Erina Point, Antoine Mahul, Nadia Goué and Franck Giacomoni  "MetaboCloud : A catalog of microservices hosted on a Cloud infrastructure and addressing issues linked to FAIR principles and open science."

#70  Veronique Jamilloux, Ariane Bize, Aurélie Gramusset, Cédric Gil, Nicolas Raidelet, Cédric Midoux, Emilie Fernandez, Guilhem Heinrich and Aurore Chapelle  "DeepOmics, Digital Environmental Engineering Platform for meta-Omics data"

#71  Solène Pety, Ingrid David, Mahendra Mariadassou and Andrea Rau  "A flexible simulation framework for transgenerational hologenomic data"

#72  Caroline Sancho, Nacer Mohellibi, Pierre Renault and Julien Tap  "Development of an integrative datawarehouse to ease food microbi-al data mining"

#76  Ercan Seckin, Dominique Colinet, Marc Bailly-Bechet, Edoardo Sarti and Etienne Danchin  "Identification of orphan genes and de novo gene birth in the evolution of plant parasitic nematodes"

#78  Emilie Fernandez, Ariane Bize, Elie Desmond-Le Quemener, Virginie Rossard and Eric Latrille  "Information systems for environmental biorefinery: combining omics data with bioprocess data"

#79  Lijiao Ning, Léa Bellenger, Naïra Naouar and Christophe Antoniewski  "Offering researchers Interactive Online Companionship to acquire lasting expertise in genomic data analysis"

#81  Roland Barriot, Maxime Bonhomme, Emilie Lecompte, Jérí´me Farinas and Gwennaele Fichant  "Master de Bioinformatique de l'Université Toulouse 3"

#82  Elodie Girard, Nicolas Servant and Paul-Antoine Nicolas  "Prediction of tumor-specific neoantigen based on both DNA and RNA next-generation sequencing data from pan-cancer patients"

#83  Nicolas Haas, Julie Dawn Thompson, Jean-Paul Renaud, Kirsley Chennen and Poch Olivier  "StopKB: A comprehensive knowledgebase for nonsense suppression therapies"

#84  Vincent Rocher, Anne Goelzer and Nathalie Vialaneix  "Evaluation of gene network inference methods on the fully reconstructed network of Bacillus subtilis"

#85  Sidwell Bobe Rigade and Denis Mestivier  "Heterogeneity of V3-V4 region sizes among genus impact 16S rRNA sequence analysis"

#86  Maxime Ben Braiek, Mekki Boussaha, Philippe Bardou, Pierre Faux, Bertrand Servin, Cécile Grohs, Julien Sarry, Florian Besnard, Jeanlin Jourdain, Sébastien Taussat, Chris Hoze, Clémentine Escouflaire, Hélène Leclerc, Patrice Dehais, Florent Woloszyn, Claire Kuchly, Camille Eche, Camille Marcuzzo, Cécile Donnadieu, Marcel Amills, Stéphane Fabre, Didier Boichard, Gwenola Tosser-Klopp and Aurélien Capitan  "Whole genome reverse genetic screen for natural deleterious variants in 4000 domestic ruminants to gain insight into mammalian gene function"

#88  Vincent Le Goff, Vincent Guillemot, Cathy Philippe, Gwendoline Mendes, Jean-Franíçois Deleuze, Edith Le Floch and Arnaud Gloaguen  "Impact of joint Dimension Reduction methods for survival prediction - extension of a multi-omics benchmark study"

#90  Quentin Bouvier, Mohammad Salma, Eric Soler and Charles Lecellier  "TF-based regulatory network controlling terminal erythroid differentiation"

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

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

#93  Oscar Otero Laudouar, Benoit Samson, Philippe Bertolino, Olivier Gandrillon, Franck Picard and Ghislain Durif  "Aggregating nuclei segmentation methods to quantify cell counts in spatial transcriptomics data"

#94  Margaux Labrosse, Maxime Mathieu, Mireille Andre, Emmanuelle Arnaud, Amandine Girousse, Coralie Sengenes and Xavier Contreras  "Identification of ASC sub-populations originating from adipose tissue and involved in muscle homeostasis and regeneration"

#95  Rémi-Vinh Coudert, Frédéric Jauffrit, Jean-Philippe Charrier, Jean-Pierre Flandrois and Céline Brochier-Armanet  "MPS-Sampling: a novel method allowing the reliable selection of representative genomes"

#97  Sarah Maman, Gaston Rognon, Chloé Bellanger and Léonard Ransan  "DeFIS - Detection pipeline with k-mers analysis to identify species."

#98  Noémie Teixido, Elisa Simon, Emmanuelle Labarthe, Emilien Rottier, Benjamin Basso, Fanny Mondet, Alain Vignal, Kamila Canale-Tabet and Thibault Leroy  "Metagenomics and population genomics of honey bees through the direct sequencing of honeys"

#99  Ali Hamaroui, Salomé Brunon and Laurent Jourdren  "ToulligQC 2.6: fast and comprehensive quality control for Oxford Nanopore sequencing data"

#100  Koloina Rabemanantsoa  "Modeling interactions between a host and its gut microbiota"

#101  Anaïs L'Haridon, Thomas Rambaud, Virginie Saillour and Alban Lermine  "SeqOIA cancer pipeline for diagnostic: current tools and upcoming evolutions"

#103  Mariene Wan, Aaron Millan-Oropeza, Thomas Lacroix, Jonathan Mineau-Cesari, Sophie Schbath and Valentin Loux  "SIDURI : an integrative information system for next generation fermented foods"

#105  David Hirst, Morgane Térézol, Laura Cantini, Paul Villoutreix, Matthieu Vignes and Anaïs Baudot  "MOTL: enhancing multi-omics matrix factorization with transfer learning"

#108  Jean Mainguy, Jérí´me Arnoux, Guillaume Gautreau, Adelme Bazin, David Vallenet and Alexandra Calteau  "PPanGGOLiN V2: technical enhancement and new features to analyze thousands of prokaryotic genomes"

#110  Céline Chevalier, Philippe Baratta, Sevda Rafatov, Benjamin Loire and Anaïs Baudot  "scDataPipeline: A Reproducible Framework for Single-Cell RNA-Seq Analysis"

#112  Lucie Lamothe, Yasmina Kermezli, Yuna Blum and Magali Richard  "deconvPDAC: a single-cell based quantifier of PDAC tumor cellular heterogeneity"

#133  Sébastien Gradit, Elisabeth Hellec, Julien Fumey, Jérémy Rousseau, Benjamin Loire, Baptiste Imbert, Arthur Durante, Samuel Ortion and Ravy Leon Foun Lin  "International Society for Computational Biology Student Council Regional Student Group France (RSG France): Association of Young Bioinformaticians of France (JeBiF)"

#144  Joe Ueda, Adeline Humbert, Johann Peltier, Daniel Gautheret, Olga Soutourina and Claire Toffano-Nioche  "Search for ncRNA targets in Clostridioides difficile by cross-referencing MAPS data and RNA- RNA interaction predictions"

#168  Luis Martin Pena, Elise Amblard and Magali Richard  "A robust framework for the benchmarking of deconvolution methods for omic data analysis"

#177  Francis Ogereau, Mateo Hiriart, Pierre Marin, Bérénice Batut, Cléa Siguret, Philippe Ruiz, Sophie Desset, Pierre Pouchin, Faustine Souc, Nils Paulhe, Franck Giacomoni, David Grimbichler, Thomas Bellembois, Valérie Legué, Pierre Peyret, Antoine Mahul and Nadia Goué  "FAIRing Research Data to Live @AuBi Platform"

#184  Elouan Bethuel, Magali Hennion and Olivier Kirsh  "Methylator, a complete workflow for DNA methylation analysis"

#191  Nicolas Homberg, Magali Richard and Florent Chuffart  "The backstage of the third Health Data Challenge: Introducing an Organizational Template and Custom, Temporary and Local Codabench Instances."

#73   Frédéric Pont   "Single-cell spatial explorer: easy exploration of spatial and multimodal transcriptomics"

#75   Hélène Chiapello, Thomas Denecker, Lucie Khamvongsa Charbonnier, Pierre Poulain, Denis Puthier, Olivier Sand, Morgane Thomas-Chollier and Claire Toffano-Nioche   "Une matrice de compétences Unix pour l'apprentissage de la bioinformatique"

#80   Rose Marin, Pauline Barbet, Niklas Probul, Jan Baumbach, Julie Lê Hoang, Mathieu Almeida and Magali Berland   "Exploration of machine learning recipes for gut microbiome based colorectal cancer diagnosis"

#102   Antoine Daussin, Pauline Barbet, Mathieu Almeida, Aurélie Caille, Claire Cherbuy, Nathalie Meunier, Nicolas Pons and Victoria Meslier   "MetaNutriDB, a collection of public cohorts with curated metagenomic and nutritional data"

#104   Céline Bougel, Van Du Tran, Julien Boccard, Marie Tremblay-Franco and Florence Mehl   "Multiblock Omics data fusion using the Consensus OPLS R package"

#106   Mathilde Sola, Oscar Gitton-Quent, Nicolas Maziers, Anne Hiol, Nicolas Dechamp, Mahendra Mariadassou, Emanuelle Le Chatelier, Mathilde Touvier, Pilar Galan, Patrick Veiga, Joel Dore, Melanie Deschasaux-Tanguy and Magali Berland   "Disturbances in Gut Microbiota Characteristics Revealed in Non-Diabetics with Family History of T2D"

#109   Jean-Clément Gallardo, Florence Vinson, Marion Liotier, Ludovic Cottret and Fabien Jourdan   "VizCore: A web component dedicated to graph visualisation"

#113   Paraskevi Kousteridou and Pierre Bertrand   "Met'Connect: Bioinformatics necessary tool to explore Tumor Metabolism"

#114   Julien Guibert, Cecile Canlet, Marie Tremblay-Franco, Marine Letertre, Patrick Giraudeau, Marine Piou and Jean-Nicolas Dumez   "Benchmarking of different software for 2D NMR spectra automatic integration for metabolomic approaches"

#115   Asmae Bachr, Aurélie Leduc, Vincent Meyer, Marc Delepine, Cédric Fund, Stéphane Meslage, Damien Delafoy, Florian Sandron, Zuzana Gerber and Jean-Franíçois Deleuze   "Evaluation of short and long read technologies for variant identification"

#116   Thibaut Peyric, Anton Crombach and Thomas Guyet   "Single-cell multi-omics data integration powered by PCA-like autoencoders"

#117   Océane Carpentier, Vincent Rocher, Sarah Djebali and Cervin Guyomar   "Knowledge graph based integration of transcriptome sequencing data to explore miRNA mediated regulation"

#118   Anne-Laure Abraham, Guillaume Kon Kam King, Solène Pety, Anne-Carmen Sanchez, Helene Chiapello and Pierre Nicolas   "Intra-species diversity in metagenomic datasets"

#119   Nicolas Mendiboure, Jerí´me Savocco, Agnés Dumont and Aurèle Piazza   "Studying homology search with a ssDNA specific Hi-C methodology and stochastic modelling."

#120   Oneeb Nasir, Alyssa Imbert, Pierrick Roger, Thomas Burger, Yves Vandenbrouck, Marion Brandolini-Bunlon, Florence Castelli, Franck Giacomoni, Magali Rompais, Mohammed Selloum, Emmanuelle Mouton-Barbosa, Emeline Chu-Van, Charlotte Joly, Aurélie Hirschler, Sophie Leblanc, Tania Sorg, Sadia Ouzia, Claudine Medigue, Christophe Junot, Anne Gonzalez De Peredo, Christine Carapito, Estelle Pujos-Guillot, Yann Herault, Myriam Ferro, Franíçois Fenaille and Etienne Thévenot   "ProMetIS 2.0: proteomics and metabolomics data analysis and integration, applied to the characterization of the Lat and Mx2 knockout phenotypes"

#121   Suzon Montmartin, Etienne Fafard-Couture, Morgane Govone, Jordan Hedjam, Fleur Bourdelais, Sébastien Durand, Michelle Scott and Virginie Marcel   "De novo annotation of non-coding RNAs shaping ribosomal RNA epitranscriptomics in mice"

#122   Julie Lao, Raphaël Tackx, Pierre Marin, Amanda Dieuaide, Thomas Mignon, Bérénice Batut, Cléa Siguret, Romain Dallet, Kenzo-Hugo Hillion, Nadia Goué, Etienne Ruppé, Gildas Le Corguillé, Consortium Abromics, Philippe Glaser, Fabien Mareuil and Claudine Médigue   "The ABRomics platform - a One Health Antimicrobial resistance analysis service"

#123   Nawad Hakim, Morgane Le Teuff and Véronique Adoue   "Impact of RNA modifications in CD4 T cell differentiation and function"

#124   Esther Cros, Annaëlle Caillarec-Joly, Miriam Isabelle Brandt, Frédérique Viard, Patrick Durand, Cyril Noel and Sophie Arnaud-Haond   "SAMBA-MarAbyss a metabarcode data analysis workflow for community ecology"

#125   Zoé Gerber, Tanja Pejovic and Marilyne Labrie   "Bioinformatics study of the immune microenvironment rewiring induced by chemotherapy in ovarian cancer"

#126   Thomas Stosskopf, Galadriel Briere, Benjamin Loire and Anaïs Baudot   "Leveraging Knowledge Graphs for Drug Repurposing in Rare Diseases"

#128   Marina Abakarova, Michael Rera and Elodie Laine   "Assessing lethal missense mutations and polymorphism in Drosophila melanogaster with an evolutionary-informed model"

#129   Clémence Réda, Jill-Jênn Vie and Olaf Wolkenhauer   "JELI: an interpretable embedding-learning recommender system for drug repurposing"

#131   Jérémy Rousseau, Lucie Bittner and Mathilde Carpentier   "LAGOON-MCL: A pipeline to unlock the dark side of proteomic sequences"

#132   Baptiste Herlemont, Gregoire Aubert, Nadim Tayeh, Jonathan Kreplak, Judith Burstin, Isabelle Lejeune-Henaut and Marie-Laure Pilet-Nayel   "Development of a Pipeline for Pan-genomic Gene Exploration: a case study on Pea (Pisum sativum L.)"

#134   Karine Massau, Alexandra Louis, Byte-Sea Consortium and Erwan Corre   "BYTE-Sea: the digital infrastructure of ATLASea, the French marine genome sequencing programme."

#135   Maëlle Daunesse, Elise Parey, Diego Villar and Camille Berthelot   "Phylogenetic modelling of gene expression shifts in the mole-rat clade"

#136   Justine Labory, Youssef Boulaimen, Jasmine Singh, Sylvie Bannwarth, Samira Ait-El-Mkadem Saadi, Véronique Paquis-Fluckinger and Silvia Bottini   "VIOLA: Variant PrIOritization using LAtent space to improve mito-chondrial diseases diagnosis"

#139   Vincent Lombard, Elodie Drula, Marie-Line Garron, Matthieu Boulinguiez, Pedro Coutinho, Bernard Henrissat and Nicolas Terrapon   "The Carbohydrate-Active EnZYme database: updates and plateform"

#140   Mélanie Polart-Donat, Cyril Bauland, Frédérique Bitton, Alain Charcosset, Jacques Lagnel, Delphine Madur, Laurence Moreau, Stéphane Nicolas, Elise Peluso and Yannick De Oliveira   "ThaliaDB, a data management web tool for plant breeding and genetic diversity exploration"

#141   Antoine Laporte, Cédric Cassan and Sylvain Prigent   "Comparing the evolution of the main biomass compounds of Pinot Noir berries from several Climats de Bourgogne"

#142   Xavier Grand, Emmanuel Combe, Armando Andres Roca Suarez, Guillaume Giraud, Massimiliano Cocca, Fabien Zoulim and Barbara Testoni   "Development of high-performance hepatitis B virus Genome Browsers to enable collaborative research"

#143   Matteo Bettiati, Delphine Gey, Marc Dellinger, Pavla Debeljak and Lucie Bittner   "RICOTA: Reference Independent COnsensus Transcript Assembler, a pipeline for processing transcriptomic long reads from non-model organisms"

#145   Amel Benarbia, Marina de Miguel Vega, William Marande, Isabelle Dufau, Caroline Callot and Nadine Gautier   "Construction and analysis of a grapevine rootstock pangenome to identify genetic variations explaining drought adaptation phenotypes"

#146   Mathilde Rumeau, Robert Bossy, Clara Sauvion, Valentin Loux, Mouhamadou Ba, Christelle Knudsen, Sylvie Combes, Claire Nedellec and Louise Deleger   "HoloOLIGO corpus, a manually annotated text dataset supporting schema-based relational information extraction for mammalian milk oligosaccharide diversity pattern comprehension"

#147   Petra Langendijk-Genevaux, Yves Quentin, Marie Bouvier, Béatrice Clouet D'Orval and Gwennaele Fichant   "Phylogenomic analysis and evolutionary insights of SF2 archaeal RNA helicase families"

#148   Tomas Caetano, Peter Redder, Gwennaele Fichant and Roland Barriot   "EMOTE-tk: an R library targeted to study the exact RNA ends at the nucleotide resolution"

#149   Amandine Cunty, Bruno Legendre, Anne-Laure Boutigny, Valerie Olivier and Déborah Merda   "Genomic analyses of Xylella fastidiosa subspecies pauca ST53 detected in France revealed link between French and Italian strains"

#150   Anthony Bertrand, Bruno Charbit, Florian Dubois, Lluis Quintana-Murci, Violaine Saint-André and Darragh Duffy   "Identification of transcriptional regulatory networks that control variable human immune responses."

#151   Dorine Merlat, Ricarda Lehmitz, Peter Decker, Arnaud Kress, Clément Schneider, Gemma Collins, Miklos Bí¡lint and Odile Lecompte   "Annotation of Myriapoda genomes with a new tool: EXOGAP"

#152   Claire Delamare-Deboutteville, Chloé Cerutti, Tom Lesluyes, Luka Pavageau, Céline Mazzotti, Antoine Graffeuil, Coralie Franck, Jill Corre and Hervé Avet-Loiseau   "Analysis of single-cell RNA-seq data for characterization of subclonal heterogeneity in multiple myeloma patients"

#153   Sofiane Sadat, Arnaud Ferré, Guillaume Kon Kam King and Sofia Lotfi   "Can genome-based Large Language Models predict gene expression?"

#154   Fabien Mareuil, Alexandra Moine-Franel, Anuradha Kar, Michael Nilges, Constantin Bogdan Ciambur and Olivier Sperandio   "Protein Interaction Explorer (PIE): A Web Platform for Exploring Protein-Protein Interactions"

#155   Martina Gallinaro, Vincenzo Alfano, Coline Kerbaj, Giulia Maccarone, Giovanni Malerba, Massimo Levrero and Massimiliano Cocca   "Empowering bulk RNA-seq deconvolution algorithms by integrating multiple transcriptomics datasets"

#156   Ivan Wawrzyniak, Reginald Akossi, Emmanuelle Lerat, Frederic Delbac and Eric Peyretaillade   "Genomic and transcriptomic landscape of the microsporidia parasite Anncaliia algerae"

.#157   Sébastien Gradit, Axel Cournac and Romain Koszul   "HiC-BERG : Hi-C Biological Estimation of Repeated Elements in Genomes"

#158   Louis Carrel-Billiard, Elodie Laine and Hugues Richard   "Exploring the Emergence of Alternative Protein Region Usage Throughout Evolution: Kinases as a Case Study"

#159   Marie-Christine Carpentier, Christel Llauro, Eric Lasserre, Marie Mirouze, Rod A. Wing and Olivier Panaud  "Detection of transcriptomic structural variations in wild rice using Nanopore direct RNA sequencing"

#160   Julien Guidihounme, Simon De-Givry and Benjamin Linard   "Simplified pangenome graph traversals with PSSM scoring : search for genomic differentials"

#161   Guillaume Laisney, David Benaben, Christophe Duperier, Matéo Boudet, Franck Giacomoni and Olivier Filangi   "Metabolomic Semantic Datalake : A Scalable Approach to Managing Metabolomics Semantic Resources"

#162   José-Américo Nabuco Leva Ferreira de Freitas and Oliver Bischof  "Dynamic modeling of the transcriptional regulatory network controlling cellular senescence"

#163   Antonin Colajanni, Raluca Uricaru, Patricia Thébault and Rodolphe Thiébaut   "Characterizing circulating microbiota from public sequencing data: a comparison of the state-of-the-art methods"

#164   Juliette Soulier, Sandra Curras Alonso, Maxime Dubail, Chloé Lafouasse, Marine Lefevre, Mylène Bohec, Pierre Verrelle, Nicolas Girard, Agathe Segui-Givelet, Arturo Londono-Vallejo and Charles Fouillade   "Radiotherapy triggers neo angiogenesis in human lungs"

#165   Louis Paré, Philippe Bordron, Laurent David, Maxime Mahé, Audrey Bihouée and Damien Eveillard   "HUMESS: A tool to automatically reconstruct human metabolic models and improve transcriptomic data interpretation."

#166   Julien Raynal, Benoí®t Ballester, Laurent Brehelin and Charles-Henri Lecellier   "Evaluation of machine learning predictions at genome scale"

#167   Emeline Bruyère, Romane Junker, Sandra Dérozier, Hélène Chiapello and Guillaume Gautreau   "To the species level and beyond : a rationalized approach to study pangenomes"

#169   Sébastien Cabanac, Christophe Dunand and Catherine Mathé  "Identify flood resistance mechanisms in plants using a local score approach applied to Genome-Environment Association"

#170   Mehdi Bourema, Lucas Auer and Marc Buée  " FunGAAL - Fungal Gene Annotation: Accuracy and Limits"

#171   Marine Bergot, David Vallenet, Violette Da Cunha and Caroline Monteil   "MetaCoCo : a tool to predict metabolic pathways in prokaryotes"

#172   Giann Karlo Aguirre-Samboní­, Gwenaëlle Lemoine, Julio Molineros, Florian Massip and Chloé-Agathe Azencott   "Psoriasis: A Case Study on Using Biological Networks for Gene Discovery"

#173   Valentin Loux, Mouhamadou Ba, Helene Chiapello, Christelle Hennequet-Antier, Mahendra Mariadassou, Véronique Martin, Cédric Midoux, Aaron Millan-Oropeza, Axel Nsabiyumva, Olivier Rué, Valérie Vidal, Mariène Wan and Sophie Schbath   "The Migale bioinformatics core facility"

#175   Lucas Auer, Marc Buée, Annegret Kohler, Igor V. Grigoriev and Francis Martin  "Metatranscriptomics sheds light on the links between the functional traits of fungal guilds and ecological processes in forest soil ecosystems"

#176   Adrien Mazuel, Pierre Milpied and Bertrand Escaliere   "A pipeline for optimizing cell segmentation of probe-based single-cell spatial transcriptomics data"

#190   Yohan Hernandez-Courbevoie, Areski Flissi, Fabrice Bray and Hélène Touzet   "PAMPA: Protein Analysis by Mass Spectrometry for Ancient Species"

#234   Karl Baltazart, Céline Poux and Hélène Touzet   "Reconstruction of protein sequences for taxonomic recognition of fossil taxa"

#256    Guillaume Gautreau, Thomas Derrien and Camille Marchet    "A workshop on Methods for Interfacing with Graphs of Genomic Sequences"

#258   Violaine Saint-André, Bruno Charbit, Anne Biton, Anthony Bertrand, Florian Dubois, Vincent Rouilly, Céline Possémé, Maxime Rotival, Jacob Bergstedt, Etienne Patin, Mathew Albert, Lluis Quintana-Murci and Darragh Duffy   "Smoking changes adaptive immunity with persistent effects"

Demonstration of the following tools (15 minutes each):

• #99: "ToulligQC 2.6: fast and comprehensive quality control for Oxford Nanopore sequencing data" Ali Hamaroui, Salomé Brunon and Laurent Jourdren
• #181: "RFLOMICS: Interactive web application for multi-omics data analysis" Nadia Bessoltane, Delphine Charif, Audrey Hulot, Christine Paysant-Le-Roux and Gwendal Cueff

SFBI : Société Française de Bioinformatique

• Présentation du bilan moral
• Présentation du bilan financier
• Résultats des votes du renouvellement du bureau
• Présentation des actions en cours et futurs projet

Présentatrices: Sandra Dérozier et Anna-Sophie Fiston Lavier.

Presentation of the following networks:

• MERIT: Réseau MetiER en bIoinformaTique
• IFB: Institut Français de Bioinformatique
• GDR BIMMM: Bioinformatique Moléculaire: Modélisation et Méthodologie
• JeBif: Aassociation des Jeunes Bioinformaticien·ne·s de France
• PCI: Peer Community In

• Guided tour
• Urban challenge
• Karaoke
• Retrogaming
• Origami

Full description at: https://jobim2024.sciencesconf.org/page/social_events

#59    Jad Eid    "Study of a fibronectin chimera: In silico and experimental analysis of the interaction between a biomimetic motif of fibronectin and type I collagen"

#66    Victor Le Bars, Edouard Cadieu, Nicolas Soriano, Yuna Blum and Thomas Derrien    "EnrichRadar: A Rshiny application to facilitate enrichment analyses of differentially expressed genes"

#87    Mathieu Blanchet, Elina Alaterre and Angélique Bruyer    "DiagBIOsis: a bioinformatic tool for high-throughput data analysis and visualization"

#174    Sébastien Cabanac, Christophe Dunand and Catherine Mathé    "P-GRe: an efficient pipeline to maximize pseudogene prediction in eukaryotes"

#179    Diego Tomassi and Maria Antonella Gieco    "Nonlinear dimension reduction allowing incomplete data and a superposition principle"

#180    Emmanuelle Morin, Stéphane Uroz and Johan Leveau    "Comparative genomics to elucidate the ecology, the phylogeny and functional potentials of the collimonads"

#181    Nadia Bessoltane, Delphine Charif, Audrey Hulot, Christine Paysant-Le-Roux and Gwendal Cueff    "RFLOMICS: Interactive web application for multi-omics data analysis"

#182    Sylvain Prigent, Millena Barros-Santos, Giovanni Melandri, Georges Randriafanomezantsoa-Radohery, Cédric Cassan, Yves Gibon and Pierre Petriacq    "Tutti frutti: Metabolomics Meets Machine Learning for Juicy Discoveries"

#185    Claire Rioualen, Alban Gaignard, Matus Kalas and Hervé Ménager    "The EDAM Framework and Control Room"

#187    Marie Cariou and Julien Mozziconacci    "Assessing potential errors in draft assemblies using 3D Conformation Capture (HiC)""

#188    Cléo Berrehail, Guillaume Leleu, Daniel Jacob, Jean-Claude Boulet and Tristan Richard    "Information system dedicated to wine authenticity"

#189    Inès Kardous    "Spatial transcriptomics and transdifferentiation in breast cancer tumors"

#192    Hafida Hamdache, Vera Pancaldi and Sebastien Benzekry    "Immune landscapes and metabolic profiles in Neuroblastoma"

#194    Patricia Kembia Kalombo, Nathalie Poupin, Cécile Canlet, Roselyne Gautier, Yannick Lippi, Gladys Mirey and Marie Tremblay Franco    "Exploring the metabolic effects of different genotoxic compounds from transcriptomics data: using gene selection to unravel significant effects.""

#195    Romane Libouban, Eva Mercier and Anthony Bretaudeau    "EuroScienceGateway: building a distributed computing network for Galaxy, application to genome annotation"

#196    Aldair Martin Martinez Pineda, Bertille Pouget, Claire Hoede, Christine Gaspin, Romain Volmer and Gabriel Dupré    "Bioinformatic analysis and modeling of influenza A polymerase errors to predict the emergence of high pathogenicity H5/H7 variants.""

#197    Eugénie Lohmann and Samuel Granjeaud    "analycyte, a GUI for automated post-clustering analyses of cytometry data"

#198    Yaëlle Guiberteau and Romain Pogorelcnik    "GenNet: tools suite based on graphs of distance between assemblies"

#199    Lou Bergogne, Mégane Boujeant, Christine Brun and Andreas Zanzoni    "Topological perturbations in the human interactome by pathogens"

#202    Elliot Butz, Antoine Toffano, Pierre Larmande, Konstantin Todorov and Jérí´me Azé    "Leveraging ontology structure for machine learning in knowledge graphs"

#204    Jules Sabban, Eden Darnige, Claire Kuchly, Romain Therville, Kory Jason, Denis Milan, Cécile Donnadieu and Gérald Salin    "Mastering NGS Data: GeT-PlaGe's Innovative Quality Control Workflows"

#205    Noémien Maillard, Juliette Riquet, Katia Feve, Raphaël Mourad and Julie Demars    "Prioritization of Regulating Variants in a Pig Quantitative Trait Loci"

#206    Julie Campos and Anna Mattout    "in silico mRNA stability estimation"

#207   Jules Sabban, Kory Jason, Olivier Bouchez, Camille Eché, Camille Marcuzzo, Jérí´me Lluch, Claire Kuchly, Christophe Klopp, Denis Milan and Cécile Donnadieu   "Unlocking the Potential: Assessing Quality on Next-Gen Sequencers AVITI and DNBSEQ-T7"

#208    Hugo Chenel, Malvina Marku, Julie Bordenave, Marcin Domagala, Mary Poupot, Loic Ysebaert and Vera Pancaldi    "Time series analysis of cellular interactions through gene regulatory network inference"

#209    Anastasia Rusakovich, Sebastian Corre, Edouard Cadieu, Rose-Marie Fraboulet, Marie-Dominique Galibert, Thomas Derrien and Yuna Blum    "Benchmark comparison of bioinformatic tools to annotate circRNAs from long-read nanopore sequencing data"

#210    Maroua Chahdil, Caterina Lucano, Carolina Fabrizzi, Leslie Matalonga, Anais Baudot, Marc Hanauer, Ana Rath, David Lagorce and Laurent Tichit    "Benchmark of phenotypic driven similarity methods and patients' clinical signs annotations exploration"

#211    Sacha E Silva-Saffar, Jacques-Eric Gottenberg, Michele Bombardieri, Divi Cornec, Marta Eugenia Alarcon Riquelme, Philippe Moingeon, Michael R Barnes, Sandra Ng, Wan-Fai Ng, Xavier Mariette, Gaetane Nocturne and Anna Niarakis    "Computational Systems Biology Approach to Unveil Molecular Interactions in Sjogren's Disease Pathogenesis"

#212    Assia Benmehdia, Mourad Sahbatou, Florian Sandron, Delphine Bacq-Daian, Edith Le Floch, Hélène Blanché, Jean-Franíçois Deleuze and Claire Dandine-Roulland    "Whole-Genome Sequencing Analysis of French Centenarians for exploring Genetic of Longevity"

#213    Sylvain Marthey, Natacha Baffo, Marí­a Natalia Lisa and Gwenaëlle André    "WHOPPER : Web application for Hands-On identification of Protein co-occurrence among Phyla, focused on user ERgonomics.""

#214    Meije Mathé, Guillaume Laisney, Olivier Filangi, Maxime Delmas, Christophe Duperier, German Cano Sancho, Fabien Jourdan, Franck Giacomoni and Clément Frainay    "Extracting targeted sub networks from FORUM knowledge graph for toxicological studies.""

#216    Konogan Bourhy, Laurent Bouri, Christophe Bruley, Olivier Collin, Frédéric de Lamotte, Thomas Denecker, Marie-Dominique Devignes, Jean-Franíçois Dufayard, Alban Gaignard, Gildas Le Corguille, Paulette Lieby, Hervé Menager, Imane Messak, Hamid Ouahioune, Claire Rioualen, Thomas Rosnet, Baptiste Rousseau, Julien Seiler and Jacques Van Helden    "Orchestrating data flows throughout their whole life cycle"

#218    Antoine Toffano, Jérí´me Aze and Pierre Larmande    "Graph Neural Networks for Biological Knowledge Discovery"

#219    Benoît Bergk Pinto, Pauline Hamon-Giraud, Gautier Demoulinger, Jeanne Got, Sylvie Rousvoal, Gwenn Tanguy, Maurane Dolly, Delphine Champeval, Franíçois Thomas, Cécile Le Guillard, Soizic Prado, Anne Siegel, Simon Dittami, Gabriel Markov and Erwan Corre    "Exploring the specialised metabolism of a brown algal holobiont"

#221    Sophie Schbath    "Transition 1point5 : le réseau des laboratoires en transition"

#222    Malo Le Boulch, Cédric Cassan, Pierre Pétriacq, Yves Gibon and Sylvain Prigent    "The UNTWIST project: Unraveling Stress Response Mechanisms in Camelina sativa for Enhanced Crop Resilience in European Agriculture"

#224    Thomas Biscop, Océane Mion, Hugo Bellavoir, Sébastien J. Puechmaille, Anna-Sophie Fiston-Lavier and Sèverine Bérard    "Detection of structural variations in a fungi pangenome"

#225    Nicolas Tourasse and Denis Dupuy    "Comparative meta-analysis of alternative splicing events across Drosophila tissues and developmental stages"

#227    Julien Fumey, Frédéric Lemoine, Maria Lopopolo, Gabriel Yaxal Ponce Soto and Nicolas Rascovan    "AMPHY: A Workflow for Phylogenomics of Ancient and Modern Microbial Species"

#228    Gerard Serge Anoman, Ousmane Barra, Cheikhou Drame, Seydou Konsimbo, Paul Kouassi Kouadio, Ezéchiel Tibiri, Christine Tranchant-Dubreuil and Ndomassi Tando    "How to develop HPC infrastructures and sysadmin skills in Africa: Creating a SysAdmin African Network"

#230    Vincent Lombard, Delphine Potier, Romain Fenouil, Benoit Ballester and Fabrice Armougom    "Le Réseau de BIOinformatTIque en ProvenCe : BIOTIC"

#231    Juliette Audemard, Sebastien Halary, Gabriel Markov, Jeanne Got, Anne Siegel, Marie Lefebvre, Julie Leloup, Benjamin Marie, Nicolas Creusot, Binta Diémé and Clémence Frioux    "Metagenome-scale metabolic modelling for the characterization of cross-feeding interactions in Microcystis-associated microbial communities in the context of freshwater cyanobacterial blooms"

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

#233    Camille Falconnier, Alba Caparros-Roissard, Hanus Slavik, Mithil Gaikwad, Victor Mathis, Margot Diringer, Charles Decraene, Salim Megat, Sebahat Ozkan, Mohamad Yassine, Pierre Hener, Ilona Bouvard, Robin Waegaert, Brigitte Kieffer, Emmanuel Darcq, Anaïs Bardet, Ipek Yalcin and Pierre-Eric Lutz    "Sex differences in epigenetic mechanisms of chronic opioid action in the mouse nucleus accumbens"

#235    Ezechiel B. Tibiri, Palwende R. Boua, Issiaka Soulama, Christine Dubreuil-Tranchant, Ndomassi Tando, Charlotte Tollenaere, Christophe Brugidou, Romaric K Nanema and Fidèle Tiendrebeogo    "Challenges and opportunities of developing bioinformatics plat-forms in Africa: the case of BurkinaBioinfo (BBi) at Joseph Ki-Zerbo University, Burkina Faso"

#236    Elise Jorge, Pierre Neuvial, Nathalie Vialaneix and Sylvain Foissac    "Posthoc inference for interpretable Hi-C differential analysis"

#237    Allan Ringeval, Sarah Farhat, Alexander Fedosov, Marco Gerdol, Samuele Greco, Lou Mary, Maria Vittoria Modica and Nicolas Puillandre    "DeTox: A novel pipeline for Detection of Toxins in venomous animal transcriptomes"

#238    Maxime Corbe, Rémi Montagne, Pierre Gestraud, Henri Guilhon, Léa Guyonnet, Coralie Guérin and Nicolas Servant    "MIA, a scalable pipeline for processing of high resolution, whole slide multiplex images."

#239    Benjamin Marsac, Jimmy Vandel, Arnaud Jannin and Lucie Verstraete    "Data integration of transcriptomic and metabolomic data in a cohort of patients with pancreatic neuroendocrine tumors.""

#240    Sandy Frank Kwamou Ngaha, Nelle Varoquaux and Sophie Abby    "Predicting bacterial secretion system proteins using positive and unlabeled machine learning"

#241    Marouane Boumlik, Benjamin Linard and Matthias Zytnicki    "Benchmarking strobemers for improved mapping to pangenome graphs in the context of divergent queries"

#242    Nadezhda Zhukova and Boris Chaumette    "The impact of copy number variants (CNVs) in individuals in early phases of psychosis"

#244    David Benaben, Christophe Blanchet, Matéo Boudet, Anthony Bretaudeau, Micaël Calvas, Nicole Charriere, Stéphane Delmotte, Nadia Goué, Arthur Le Bars, Gildas Le Corguille, Julien Seiler, Guillaume Seith, Bruno Spataro and Jacques van Helden    "Services deployed on the IFB National Network of Computing Resources (NNCR)""

#245    Juliette Cooke, Cecilia Wieder, Nathalie Poupin, Clément Frainay, Timothy Ebbels and Fabien Jourdan    "Leveraging simulated metabolic profiles for benchmarking pathway analysis methods"

#246    Ludovic Cottret, Koloina Rabemanantsoa, Meije Mathé, Fabien Jourdan and Clément Frainay    "Met4J: A Comprehensive Framework for Metabolic Network Analysis, Integration, and Collaboration"

#247    Benjamin Vacus, Arnaud Gloaguen, Edith Le Floch, Zuzana Gerber and Jean-Franíçois Deleuze    "Benchmark study of Adaptive Sampling algorithms – simulation of various viral mixtures"

#248    Fatima-Zahra Abani, Franíçois Sabot and Christine Tranchant Dubreuil    "Mapping against pangenome graph to infer haplotype and population structure."

#249    Amele Ahraoui, Caroline Bailleux, Sonia Dagnino and Thierry Pourcher    "Contribution of metabolomics to the prediction of lymph node involvement in breast cancer"

#250    Etienne Morice and Johannes Soeding    "Robust control of local hidden confounding factors to improve power in gene expression data analysis"

#251    Pierre Berriet, Camille Marchet, Daniel Anderson and Zamin Iqbal    "Bacterial genome assembly guided by a large alphabet de Bruijn graph"

#252    Elsa Fanchon, Constance Michel, Jean-Philippe Trani, Emmanuelle Salort-Campana, Shahram Attarian, David Bendahan, Frédérique Magdinier and Anais Baudot    "Automated lower limb MRI segmentation and feature extraction to be combined with omics data"

#253    Joanna Cyrta, Julien Masliah-Planchon, Riwan Brillet, Mamy Andrianteranagna, Owen Hoare, Yassine Bouchoucha, Nathalie Cassoux, Livia Lumbroso Le-Rouic, Marion Gauthier-Villars, Marc-Henri Stern, Anne Salomon, Manuel Rodrigues and Franck Bourdeaut    "SMARCB1-deficient intraocular melanoma: a new tumor entity? Molecular characterization of two unusual cases.""

#254    Flavien Raynal and Vera Pancaldi    "Genome architecture and regulation in differentiation and cancer in light of genes' evolutionary ages"

#255    Abdelmounim Essabbar, Alexis Coullomb, Marcelo Hurtado and Vera Pancaldi    "Tools for analyzing spatial data in the context of immuno-oncology"

#257    Han Phan, Céline Brouard and Raphael Mourad    "Different Approaches to Semi-supervised Learning for Regulatory Sequences Prediction"

#259    Romain Vicens, Alberto Cenci, Guillaume Martin, Julie Sardos, Mathieu Rouard and Catherine Breton    "MusaDeepMosaic: Development of a machine learning Genomic Mosaic classifier tool."

#261    Julien Nguyen Van, Elodie Laine and Sergei Grudinin    "Novel Protein Language Model for Capturing Alternative Splicing Diversity in Proteoforms"

Demonstration of the following tools (15 minutes each):

• #108: “PPanGGOLiN V2: technical enhancement and new features to analyze thousands of prokaryotic genomes" Jean Mainguy, Jérôme Arnoux, Guillaume Gautreau, Adelme Bazin, David Vallenet and Alexandra Calteau
• #184: "Methylator, a complete workflow for DNA methylation analysis" Elouan Bethuel, Magali Hennion and Olivier Kirsh

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