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MIA Paris

Julie Aubert

Research Engineer INRA

UMR518 AgroParisTech/INRA of Applied Mathematics and Computer Sciences
Statistics and Genome Team
16 rue Claude Bernard
75 231 Paris Cedex 05
Tel : +33 (0)1 44 08 16 73
prenom.nom@agroparistech.fr

Main current grants

  • ANR project NGB (2018–2021): Next Generation Biomonitoring of change in ecosystems structure and function (leader: D. Bohan)
  • Inra MP MEM: KineTicks (2018 – 2019) Network and modelling analyses to describe the dynamics of Ixodes ricinus microbiome and its influence in pathogen evolution (leader: T. Pollet, B. Laroche, J. Chiquet)
  • CNIEL Tango (2018-2020): Impact du procédé technologique sur l'expression des potentiels bactériens en fermentation laitière (leader: H. Falentin)

Research interests

My research and teaching activities concern the development and application of statistical and computational methods to address problems in genomic research.

Statistical Methods in Molecular Biology
  • Design, normalisation and analysis of gene expression experiments based on DNA microarray.
  • Design and analysis of high-throughput gene expression experiments based on next-generation sequencing: mRNA-Seq for transcriptome analysis
  • Comparative Metagenomics based on next-generation sequencing data
Statistical Methods in Microbial Ecology
  • Design and analysis of amplicon-based metagenomic data
  • Co-clustering using Latent Block Model

Application to plant-microbial communities interactions in the rhizosphere

Statistical computing - R Packages
  • anapuce: Tools for microarray data analysis
  • MixThres: mixture model of truncated gaussians to detect a hybridization threshold for microarray data
  • CHMM: An exact and a variational inference for Coupled Hidden Markov Models applied to the joint detection of copy number variations
  • cobiclust: Biclustering via Latent Block Model Adapted to Overdispersed Count Data

Teaching

Formation analyse statistique du transcriptome proposée par la plateforme de bioinformatique MIGALE

Some useful things

  • Some useful links and documents about R http://ciam.inra.fr/r4ciam/
  • State of the R

Publications

Publications de Julie Aubert

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