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Institut français de bioinformatique

Laboratory presentation

IFB-core is the national hub of the French Institute of Bioinformatics (IFB). It deals with the technical and administrative aspects and enforces the scientific and technological policies put forth by the steering committee of IFB.
IFB gathers 36 bioinformatics platforms from the main public research entities : CNRS, INRA, INRIA, CEA, INSERM, the universities, CIRAD, and the Pasteur and Curie institutes, that are grouped into 6 regional centers spanning the entire French territory.

IFB's mission is to allow life science researchers and engineers to access basic bioinformatics services, which can be described in 5 categories :
- Data : give access to high added-value data collections
- Tools : supply innovative tools and services to analyze data
- Support : provide help to life science research projects about their bioinformatics aspects
- Training : allow access to training sessions
- Infrastructure : give access to a computational infrastructure supplying physical resources (CPU, storage, networks) as well as access to public data collections and basic tools.

The 20 latest publications

Title Authors Publication date Source
The RD-Connect Genome-Phenome Analysis Platform: Accelerating diagnosis, research, and gene discovery for rare diseases David Salgado 06/01/22 Human Mutation
Transcriptome-wide deregulation of gene expression by artificial light at night in tadpoles of common toads Vincent Navratil 04/20/22 Science of the Total Environment
The era of reference genomes in conservation genomics Catherine M. Breton 03/01/22 Trends in Ecology and Ecolution
Genomicus in 2022: comparative tools for thousands of genomes and reconstructed ancestors Jean Francois Dufayard 01/07/22 Nucleic Acids Research
Wheat Panache: A pangenome graph database representing presence–absence variation across sixteen bread wheat genomes Éloi Durant, Mathieu Rouard 01/01/22 Plant Genome
Managing High-Density Genotyping Data with Gigwa Guilhem Sempéré, Pierre Larmande, Mathieu Rouard 01/01/22 Methods in molecular biology (Clifton, N.J.)
AgroLD: A Knowledge Graph Database for Plant Functional Genomics Pierre Larmande, Gildas Tagny Ngompe, Manuel Ruiz 01/01/22 Methods in molecular biology (Clifton, N.J.)
Omics Analyses: How to Navigate Through a Constant Data Deluge Thomas Denecker 01/01/22 Methods in molecular biology (Clifton, N.J.)
A chromosome-level reference genome of Ensete glaucum gives insight into diversity and chromosomal and repetitive sequence evolution in the Musaceae Mathieu Rouard, Gaëtan Droc 01/01/22 GigaScience
ProMetIS, deep phenotyping of mouse models by combined proteomics and metabolomics analysis Alyssa Imbert, Claudine Medigue 12/01/21 Scientific data
Panache: A web browser-based viewer for linearized pangenomes Éloi Durant, François Sabot, Mathieu Rouard 12/01/21 Bioinformatics
Ten simple rules for switching from face-to-face to remote conference: An opportunity to estimate the reduction in GHG emissions Vincent Lefort 10/01/21 PLoS Computational Biology
TAU : Pleasecheckandconfirmiftheeditsmadetothearticletitlearecorrecten simple rules for organizing a bioinformatics training course in low- And middle-income countries Victoria Dominguez del Angel 08/01/21 PLoS Computational Biology
Erratum: GreenPhylDB v5: A comparative pangenomic database for plant genomes (Nucleic Acids Research (2021) 49 (D1464-D1471) DOI: 10.1093/nar/gkaa1068) Valentin Guignon, Gaëtan Droc, Jean Francois Dufayard, Mathieu Rouard 07/09/21 Nucleic Acids Research
Proteo3Dnet: A web server for the integration of structural information with interactomics data Guillaume Postic 07/02/21 Nucleic Acids Research
APE in the Wild: Automated Exploration of Proteomics Workflows in the bio.tools Registry Jon Ison 04/02/21 Journal of Proteome Research
Tracing the origins of SARS-COV-2 in coronavirus phylogenies: a review Jacques van Helden 04/01/21 Environmental Chemistry Letters
GreenPhylDB v5: a comparative pangenomic database for plant genomes Valentin Guignon, Droc Gaëtan, Dufayard Jean-François, Mathieu Rouard 01/08/21 Nucleic Acids Research
AgroLD: A Knowledge Graph for the Plant Sciences Pierre Larmande 01/01/21 Lecture Notes in Computer Science
biotoolsSchema: a formalized schema for bioinformatics software description Jon Ison, Alban Gaignard, Jacques van Helden, Hervé Ménager 01/01/21 GigaScience

Number of publications of the laboratory by scientific field (2016-2021)

Every paper can be classified in one or more scientific fields. The figure below shows the lab's number of publications in each scientific field, according to the ASJC classification (Elsevier)