| Monday, July 3 |
| 13:00 |
Registration |
|
| 14:00-14:30 |
Welcome |
|
| 14:30-15:30 |
Patrick Wincker |
Keynote – Pasteur |
| |
Holistic metagenomics in marine plankton communities |
| 15:30-16:30 |
Metagenomics |
Plenary – Pasteur |
| |
Simka: Large Scale De Novo Comparative Metagenomics |
| |
Gaëtan Benoit, Pierre Peterlongo, Mahendra Mariadassou, Erwan Drezen, Sophie Schbath, Dominique Lavenier and Claire Lemaitre |
| |
Food-Microbiomes Transfert, a Shotgun Metagenomic Tool and a Database to Analyze Cheese Ecosystems |
| |
Thibaut Guirimand, Anne-Laure Abraham, Sandra Derozier, Charlie Pauvert, Mahendra Mariadassou, Valentin Loux and Pierre Renault |
| |
Reconstruction of Full-Length 16S rRNA Sequences for Taxonomic Assignment in Metagenomics |
| |
Pierre Pericard, Yoann Dufresne, Samuel Blanquart and Hélène Touzet |
| 16:30-17:00 |
Break |
|
| 17:00-18:00 |
Integrative Biology |
Plenary – Pasteur |
| |
FEELnc: an Alignment-Free Tool for Long Non-Coding RNAs Annotation |
| |
Valentin Wucher, Fabrice Legeai, Benoît Hédan, Guillaume Rizk, Laetitia Lagoutte, Edouard Cadieu, Audrey David, Nadine Botherel, Céline Le Béguec, Catherine André, Christophe Hitte and Thomas Derrien |
| |
Analyse intégrative des ARN longs non-codant (lncRNAs) du génome canin |
| |
Céline Le Béguec, Valentin Wucher, Laetitia Lagoutte, Edouard Cadieu, Benoît Hédan, Catherine André, Christophe Hitte and Thomas Derrien |
| |
Analysis, Integration and Modeling of Cell Clustering Results in High-Dimensional Cytometry Data |
| |
Guillaume Gautreau, David Pejoski, Roger Le Grand, Antonio Cosma, Anne-Sophie Beignon and Nicolas Tchitchek |
| 18:00-18:30 |
JeBiF / bioinfo-fr.net / Bioinfuse |
|
| |
|
|
| |
|
|
| Tuesday, July 4 |
| 9:00-10:00 |
Tobias Marschall [abstract] |
Keynote – Pasteur |
| |
A Guided Tour to Computational Haplotyping |
| 10:00-10:40 |
High Throughput Sequencing |
Plenary – Pasteur |
| |
GenomeOnRails: Depicting Microbial Species Diversity Via a Pangenome Graph |
| |
Guillaume Gautreau, Rémi Planel, Amandine Perrin, Marie Touchon, Eduardo Rocha, Christophe Ambroise, Catherine Matias, Stéphane Cruveiller, Claudine Médigue and David Vallenet |
| |
Assembly of Heterozygous Genomes Using High-Order de Bruijn Graphs |
| |
Antoine Limasset, Camille Marchet, Pierre Peterlongo and Jean-Francois Flot |
| 10:40-11:05 |
Break |
|
| 11:05-11:25 |
Proteomics |
Plenary – Pasteur |
| |
Rapid Spectra Comparison with Data-Mining Algorithms: Accessing Post-Translational Modification Profiles on a sample scale |
| |
Matthieu David, Guillaume Fertin, Hélène Rogniaux and Dominique Tessier |
| 11:25-12:40 |
Posters (odd numbers) |
|
| 12:40-13:40 |
Lunch |
|
| 13:40-14:40 |
Julio Saez-Rodriguez [abstract] |
Keynote – Pasteur |
| |
Network Models to Understand and Combat Cancer: from Clinical Genomics to Biochemical Modelling |
| 14:40-15:40 |
Systems biology |
Plenary – Pasteur |
| |
Rare and Common Epilepsies Converge on a Shared Gene Regulatory Network Providing Opportunities for Novel Antiepileptic Drug Discovery |
| |
Andrée Delahaye-Duriez, Prashant Srivastava, Kirill Shkura, Sarah R. Langley, Liisi Laaniste, Aida Moreno-Moral, Bénédicte Danis, Manuela Mazzuferi, Patrik Foerch, Elena Gazina, Kay Richards, Steven Petrou, Rafal Kaminski, Enrico Petretto and Michael R. Johnson |
| |
Prediction of Disease-associated Genes by advanced Random Walk with Restart on Multiplex and Heterogeneous Biological Networks |
| |
Alberto Valdeolivas, Elisabeth Remy, Laurent Tichit, Gaëlle Odelin, Claire Navarro, Sophie Perrin, Pierre Cau, Nicolas Levy and Anaïs Baudot |
| 💻 |
CRCmapper: Models of Core Transcriptional Regulatory Circuitries |
| |
Violaine Saint-André, Alexender J. Federation, Charles Y. Lin, Brian J. Abraham, Jessica Reddy, Tong Ihn Lee, James E. Bradner and Richard A. Young |
| 15:40-16:05 |
Break |
|
| 16:05-17:45 |
Systems biology |
Parallel 1/2 – Matisse |
| |
Network Inference of Dynamic Models by the Combination of Spanning Arborescences |
| |
Anthony Coutant and Céline Rouveirol |
| 💻 |
Long-term Tracking of Budding Yeast Cells with CellStar |
| |
Cristian Versari, Szymon Stoma, Kirill Batmanov, Artémis Llamosi, Filip Mroz, Adam Kaczmarek, Matt Deyell, Cédric Lhoussaine, Pascal Hersen and Gregory Batt |
| 💻 |
Listeriomics: A Multi-Omics Interactive Web Platform for Systems Biology of the Model Pathogen Listeria |
| |
Christophe Becavin, Mikael Koutero, Nicolas Tchitchek, Franck Cerutti, Pierre Lechat, Nicolas Maillet, Claire Hoede, Hélène Chiapello, Christine Gaspin and Pascale Cossart |
| 💻 |
AskOmics, a Web Tool to Integrate and Query Biological Data Using Semantic Web Technologies |
| |
Xavier Garnier, Anthony Bretaudeau, Olivier Filangi, Fabrice Legeai, Anne Siegel and Olivier Dameron |
| 💻 |
Regulatory and Signaling Network Assembly through Linked Open Data |
| |
Marie Lefebvre, Jérémie Bourdon, Carito Guziolowski and Alban Gaignard |
| 16:05-17:45 |
Software Development and Workflows |
Parallel 2/2 – Pasteur |
| |
Scientific Workflows for Computational Reproducibility in the Life Sciences: Status, Challenges and Opportunities |
| |
Sarah Cohen-Boulakia, Khalid Belhajjame, Olivier Collin, Jérôme Chopard, Christine Froidevaux, Alban Gaignard, Konrad Hinsen, Pierre Larmande, Yvan Le Bras, Frédéric Lemoine, Fabien Mareuil, Hervé Ménager, Christophe Pradal and Christophe Blanchet |
| 💻 |
Sequanix: A Dynamic Graphical Interface for Snakemake Workflows |
| |
Dimitri Desvillechabrol, Rachel Legendre, Christiane Bouchier, Sean Kennedy and Thomas Cokelaer |
| 💻 |
Biosphere Web : un portail haut niveau pour une utilisation bioinformatique des clouds |
| |
Bryan Brancotte, Mohamed Bedri, Jonathan Lorenzo, Sandrine Perrin, Frédéric Séné, Awa Sepou Ngaïlo, Christophe Blanchet and Jean-François Gibrat |
| 💻 |
Biodjango, an Open Framework for Bioinformatics Publishing |
| |
Ennys Gheyouche and Stéphane Téletchéa |
| 💻 |
New Generation Phylogeny.fr: Refactoring Phylogeny.fr for Innovative Phylogenetic Services |
| |
Damien Correia, Vincent Lefort, Olivia Doppelt-Azeroual, Fabien Mareuil, Sarah Cohen-Boulakia and OlivierGascuel |
| 18:00 |
Social events |
|
| Wednesday, July 5 |
| 9:00-10:00 |
Franca Fraternali [abstract] |
Keynote – Pasteur |
| |
Unraveling the Good and the Bad in Protein Networks: Functional versus Dysfunctional Interactions |
| 10:00-10:40 |
High Throughput Sequencing |
Parallel 1/2 – Matisse |
| |
HG-CoLoR: Hybrid Graph for the error Correction of Long Reads |
| |
Pierre Morisse, Thierry Lecroq and Arnaud Lefebvre |
| 💻 |
PhylOligo: a Package to Identify Contaminant or Untargeted Organism Sequences in Genome Assemblies |
| |
Ludovic Mallet, Tristan Bitard-Feildel, Franck Cerutti and Hélène Chiapello |
| 10:00-10:40 |
Proteins |
Parallel 2/2 – Pasteur |
| |
Use of Cross-Docking Simulations for Identification of Protein-Protein Interactions Sites: The Case of Proteins with Multiple Binding Sites |
| |
Nathalie Lagarde, Lydie Vamparys, Benoist Laurent, Alessandra Carbone and Sophie Sacquin-Mora |
| |
In silico developments for the study of glycosylation applied to extracellular matrix proteins |
| |
Camille Besançon, Alexandre Guillot, Sébastien Blaise, Manuel Dauchez, Jessica Jonquet, Nicolas Belloy and Stéphanie Baud |
| 10:40-11:05 |
Break |
|
| 11:05-11:45 |
Genome visualization |
Parallel 1/2 – Matisse |
| 💻 |
Dynamix: Dynamic Visualization by Automatic Selection of Informative Tracks from Hundreds of Genomic Data Sets |
| |
Matthias Monfort, Eileen Furlong and Charles Girardot |
| 💻 |
GeneSpy, a Simple Tool to Explore Genomic Context |
| |
Pierre Simon Garcia, Frédéric Jauffrit, Christophe Grangeasse and Céline Brochier-Armanet |
| 11:05-11:45 |
High Throughput Sequencing |
Parallel 2/2 – Pasteur |
| 💻 |
MCXpress: An R Package for Functional Interpretation of Single Cell RNA-Seq Data Using Multivariate Analysis |
| |
Akira Cortal and Antonio Rausell |
| 💻 |
Deciphering the Functional Effects of Genetic Variation with UniProt Annotations |
| |
Benoit Bely, Andrew Nightingale and Maria Martin |
| 11:45-12:50 |
Posters (even numbers) |
|
| 12:50-13:50 |
Lunch |
|
| 13:50-14:50 |
John Huelsenbeck [abstract] |
Keynote – Pasteur |
| |
Bayesian inference in phylogeny for genome-scale data |
| 14:50-15:50 |
Phylogeny |
Plenary – Pasteur |
| |
Extreme Halophilic Archaea Derive from Two Distinct Methanogen Class II Ancestors |
| |
Monique Aouad, Najwa Taib, Anne Oudart, Michel Lecocq, Manolo Gouy and Céline Brochier-Armanet |
| |
Origin and Evolution of Multiple Haem Copper Oxidases in Archaea |
| |
Anne Oudart, Simonetta Gribaldo and Céline Brochier-Armanet |
| 💻 |
Genomicus – New tools for Comparative Genomics and Evolution in Eukaryotes |
| |
Alexandra Louis, Nga Thi Thuy Nguyen and Hugues Roest Crollius |
| 15:50-16:15 |
Break |
|
| 16:15-17:15 |
SFBI – assemblée générale |
|
| 17:15-17:45 |
GdR BIM (BioInformatique Moléculaire) – assemblée générale |
| 17:45-18:15 |
IFB (Institut Français de Bioinformatique) |
|
| 18:30 |
Bus departure for the Gala Dinner |
|
| 19:00-23:55 |
Gala Dinner |
|
