Expertise
Hub members Have many expertise, covering most of the fields in bioinformatics and biostatistics. You'll find below a non-exhaustive list of these expertise
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Searched keyword : Mouse
Related people (2)
Etienne KORNOBIS
After a PhD in Biology in 2011 on population genetics and phylogeography on amazing little amphipods (Crangonyx, Crymostygius) at the University of Reykjavik (Iceland), I pursued my interest in Bioinformatics and Evolutionary Biology in various post-docs in Spain (MNCN Madrid, UB Barcelona). During this time, I investigated transcriptomic landscapes for various non-model species (groups Conus, Junco and Caecilians) using de novo assemblies and participated in the development of TRUFA, a web platform for de novo RNA-seq analysis. In July 2016, I integrated the Revive Consortium and the Epigenetic Regulation unit at Pasteur Institute, where my main focus were transcriptomic and epigenetic analyses on various thematics using short and long reads technologies, with a special interest in alternative splicing events detection. I joined the Bioinformatics and Biostatistics Hub in January 2018. My latest interests are long reads technologies, alternative splicing and achieving reproducibility in Bioinformatics using workflow managers, container technologies and literate programming.
KeywordsData managementData VisualizationSequence analysisTranscriptomicsWeb developmentGenome analysisProgram developmentExploratory data analysisSofware development and engineeringGeneticsEvolutionRead mappingWorkflow and pipeline developmentPopulation geneticsMotifs and patterns detectionGrid and cloud computing
Organisms
HumanInsect or arthropodOther animalAnopheles gambiae (African malaria mosquito)Mouse
Projects (3)
- Build a software to decipher Gephyrin alternative transcripts obtained with long read sequencing(allemand ERIC - Epigenetic Regulation) - In Progress
- Transcriptomics of Anopheles – Plasmodium vivax interactions towards identification of malaria transmission blocking targets(Catherine BOURGOUIN - Functional Genetics of Infectious Diseases) - In Progress
- Mapping of Enhancers from transcriptome data(Christian MUCHARDT - Epigenetic Regulation) - In Progress

Christophe MALABAT
After a PhD in biochemistry of the rapeseed proteins, during which I developed my first automated scripts for handling data processing and analysis, I join Danone research facility center for developing multivariate models for the prediction of milk protein composition using infrared spectrometry.
As I was already developing my own informatics tools, I decided to join the course of informatic for biology of the Institut Pasteur in 2007. At the end of the course I was recruited by the Institute and integrate the unit of “génétique des interactions macromoléculaires” of Alain Jacquier.
Within this group, I learn to handle sequencing data and I developed processing and analysis tools using python and R.
I also create a genome browser and database system for storing, retrieving and visualizing microarray data.
After 8 years within the Alain Jacquier’s lab, I join the Hub of bioinformatics and biostatistics as co-head of the team.
ClusteringData managementSequence analysisTranscriptomicsWeb developmentDatabaseGenome analysisProgram developmentScientific computingExploratory data analysisData and text miningIllumina HiSeqRead mappingLIMSIllumina MiSeqHigh Throughput ScreeningMultidimensional data analysisWorkflow and pipeline developmentRibosome profilingMotifs and patterns detection
Organisms
Projects (11)
- SHERLOCK4HAT - WP1.1(Brice ROTUREAU - Group: Trypanosome transmission) - In Progress
- Remettre les servers Genolist comme LegioList, TuberclListe, Colibri etc en service(Carmen BUCHRIESER - Biology Of Intracellular Bacteria) - Closed
- Identification of eukaryotic 5'UTRs(Arnaud ECHARD - Membrane Traffic and Cell Division) - Closed
Related projects (44)
search for transcrition factors upregulating Tgfb1 expression in FHL2-/- cells
gRNA library design
Molecular analysis of muscle stem cells
Analyse de données de microarray
sequence conservation in the vicinity of Gli3 binding sites in the mouse genome
ANALYSIS OF TRANSCRIPTIONAL MODULATIONS RELATED TO CELL DEATH PROCESSES IN MURINE BONE-MARROW DERIVED MACROPHAGES AND DENDRITIC CELLS INFECTED BY LEISHMANIA AMAZONENSIS
HSC3D
Rift valley fever NSm protein functional study
RNA analysis underlying phenotype of mouse model for autism
Utilize mouse models to study infection by HIV-1
Comparative analysis of gene expression pattern between samples of tumor and normal mice tissue
Gene ontology analysis of RNAseq data from uninfected and Leishmania-infected mouse macrophages
Comparative analysis of transcriptomic and proteomic data to study RNA and protein expression regulation during RVFV infection in mice.
Graphical representation of co-expressed genes in various datasets
Transcriptional profile of Nod2+ neurons upon MDP signaling
Comparing V-J gene usage for specific antibody generation
the role of host defense in female genital tract infection by Chlamydia trachomatis
Analysis of IFITM RNA levels in vraious cell types and tissues
Identification of the mouse and/or rat orthologues of the human gene ANOS1, responsible for the X-chromosome-linked form of Kallmann syndrome
Characterization of Yolk Sac Derived Progenitors in the Fetal Liver
Heterogeneity of tissue resident stromal cells
Analysis of neuronal population dynamics in rodents during virtual navigation
Cellular plasticity during mammary gland development
Genome-wide interactions between HP1g and RNA.
Tissue-resident stromal cell heterogeneity
Genetic and statistical analysis of data produced with the Collaborative Cross at the Institut Pasteur
- Pascal CAMPAGNE
- Vincent GUILLEMOT
- Rachel TORCHET + 1 operator