Contact
Email: anne-laure.abraham@inrae.fr Adress: INRAE - MaIAGE Unit Domaine de Vilvert - Bat 233 78352 JOUY-EN-JOSAS CEDEX Phone: +33 1 34 65 22 36 |
Research interest
I am interested in the development of new methods to study microbial ecosystem with metagenomic sequencing.
On-going projects
Publications
All my publications and communications are available on HAL INRAE and google schoolar
Bioinformatics working groups
- Board member of PEPI IBIS since 2015
- Co-organiser of metagenomics working group of PEPI IBIS since 2013
- In charge of the Workpackage ANNOT of the CATI BOOM since 2019
Supervising and co-supervising
-
Solène Pety (Septembre 2021-January 2023) M2 internship - Master of Bioinformatics - Rouen University.
Development of methods for strain and genes fluxes from metagenomic datasets along an food production chain -
Nathan Godart (May - July 2021) L3 internship, Poitiers University
Test of Antobiotic Resistance Gene haplotype reconstructions methods in metagenomic datasets -
Anne-Carmen Sanchez (February - July 2020 and Sept 2020-July 2021). M2 internship - Paris 6 University - Engineer
Analysis of microbial diversity in metagenomic datasets - Analysis of genes and strains fluxes in chicken metagenomes -
Benoit Goutorbe (September 2019 - August 2022). Ph. D student - Paris Saclay University
Developement & implementation of a precise method for human microbiota study with a clinical application -
Yassin El Djoudi (June - July 2019). L3 internship, Poitiers University
Intraspecific polymorphism study on gut microbiota prevalent species from sequenced genomes. -
Daniel de Murat (March - July 2018). M1 Internship - Master of Bioinformatics, Paris 7 University
Comparative analysis of metagenomic analysis tools. -
Quentin Cavaillé (October 2017- March 2019). Web and databases engineer.
Development of a tool for cheese ecosystem analysis with metagenomic datasets. -
Thibaut Guirimand (October 2015 - August 2017). Web and databases engineer.
Development of a tool for cheese ecosystem analysis with metagenomic datasets. -
Charlie Pauvert (April 2014 - August 2016): M1 and M2 internship (2 years apprenticeship) - Master of Bioinformatics - Rouen University.
Cheese ecosystems metagenomics - Explorations & improvements around a bioinformatics tool -
Amira Hamdi (February - June 2012). M2 internship - Master of Bioinformatics - Evry Universty Cheese ecosystem analyses
Teaching
- 2013-2019: Introduction to metagenomic 16S analysis - 4 days - Migale plateform training
- 2017 & 2019: Analysis of shotgun metagenomic data with FoodMicrobiomeTransfert tool - 2 days
- 2018: Metabarcoding - 5 days - Roscoff Abyms plateform
Background
Since 2017 : Research engineer in bioinformatics in MaIAGE Unit, team StatInfOmics
2011- 2016 : Research engineer in bioinformatics in Micalis, teams FME, Fine, IFE
2010 - 2011 : Post-Doc at IBENS (12 months) - Supervisor: Lionel Navarro
2009 - 2010 : Post Doc at ENS-Lyon (18 months) - Supervisor: Gaël Yvert2005 - 2009 : Ph. D in bioinformatics in Atelier de Bioinformatique de Paris 6 - Supervisors: Eduardo Rocha and Joël Pothier