C3BI Seminar – Listeriomics: Systems biology of the model pathogen Listeria.

Our next meeting will be …

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Upcoming Events : C3BI Seminar Thursday 12th March 2015 – salle Retrovirus du Bâtiment LWOFF

Date : March, Thursday 12th Location : salle Retrovirus du Bâtiment LWOFF Speekers: Christophe Bécavin, bioinformatician in Pascale Cossart group

Listeriomics: Systems biology of the model pathogen Listeria.

Over the past three decades Listeria has become a model organism for host-pathogen interactions, leading to critical discoveries in a broad range of fields including virulence-factor regulation, cell biology, and bacterial pathophysiology. More recently, the number of Listeria “omics” data produced has increased exponentially, not only in term of number, but also in term of heterogeneity of data. There are now more than 50 published Listeria complete genomes, around 400 different transcriptomics data and 25 proteomics studies available. The capacity to analyze these data through a systems biology approach and generate tools for biologists to analyze these data themselves is a challenge for bioinformaticians. To tackle these challenges we have developed a web-based platform named Listeriomics which integrates different type of tools for “omics” data manipulation, the two most important being: 1) a highly interactive genome viewer for displaying gene expression array, tiling array, and RNASeq data along with proteomics and genomics data. 2) An expression atlas, which is a tool to connect every genomics elements (genes, smallRNAs, antisenseRNAs) to the most relevant “omics” data. Our platform integrates already all complete genomes, transcriptomes and proteomes ever published on Listeria and thus allow biologists to analyze dynamically all these data, and bioinformaticians to have a central database for systems biology analysis. The Java framework that we developed to create Listeriomics is called BACNET. It has been designed to adapt to every bacterial “omics” data and has been used already several times in our laboratory for different types of studies, including transcriptomics analysis in different biological conditions, and whole genome analysis of Listeria proteins N-termini.

C3BI Team

C3BI Kickoff Meeting

We are please to inform you that our next meeting will be the C3BI Kickoff Meeting, held in Amphithéâtre Duclaux, Monday 16th of March 2015 at 9:15 AM more details

Our next meeting will be …

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Upcoming Events : C3BI Kickoff meeting Monday 16th March 2015 – Grand Amphithéâtre de l’Institut Pasteur, bâtiment Duclaux

Date : March, Monday 16th Location : Amphithéâtre Duclaux Program: 9h15 – Welcome & Coffee 9h30 – Welcome 9h40 – Machine learning for personalized genomics – Jean-Philippe Vert – Mines ParisTech, Center for Computational Biology, France – Institut Curie, Centre de recherche en Biologie du développement, France Website : http://cbio.ensmp.fr/?page_name=Overview 10h10 – Computational imaging & modelling of nuclear architecture in yeast – Christophe Zimmer – Unité Imagerie et modélisation – Institut Pasteur Website : https://sites.google.com/site/imagingandmodeling/ 10h40 – Coffee break & croissants 11h10 – Molecular modeling in structural biology – Michael Nilges Unité de Bio-Informatique Structurale – Institut Pasteur Website : http://www.pasteur.fr/recherche/unites/Binfs/ 11h40 – Reproducible Science in Bioinformatics – Sarah Cohen-Boulakia Laboratoire de Recherche en Informatique, Orsay Website : https://www.lri.fr/presentation.php 12h10 – Alignement/Phylogeny : new advances and challenges – Cedric Notredame Centre for Genomic Regulation, Barcelona Website : http://www.crg.eu/en/programmes-groups/comparative-bioinformatics 12h40 – Lunch & Coffee 14h15 – Welcome – Christian Bréchot – Head of Institut Pasteur 14h30 – One year of reflection – Didier Mazel – Responsible for the implementation committee of C3BI 14h50 – Informatic services and their evolution – Michaël Pressigout – Head of the Information Systems Department (DSI) 15h10 – Goals and organisation of C3BI – Olivier Gascuel – Head of C3BI 15h30 – The Institut Pasteur International Network for Data Analysis (INDA) -Magnus Fontes – Directeur de l’INDA 15h50 – First steps of the Bioinformatics and Biostatistics Hub – Marie-Agnès Dillies – Co-Head of Hub team 16h10 – A new bioinformatics unit – Martin Weigt – Head of Integrative statistical modeling of biological sequences Unit – Institut Pasteur 16h30 – Discussions & Cocktail Download pdf program

Scientific research has entered the era of big data: the ability to analyze, store, share and protect a considerable amount of data has become a key strategic issue for all world-class research institutions. The Institut Pasteur has embraced this revolution, creating the Center of Bioinformatics, Biostatistics and Integrative Biology (C3BI). This center aims to facilitate research and collaborations in bioinformatics between all Institut Pasteur resources.

The launching of C3BI will take place on March 16. There will be presentations by leading researchers in the field in the morning, followed by an introduction to the operation of the center, its organization and its goals in the afternoon. We will conclude the day with cocktails and plenty of time for discussion.

C3BI Team