Genomic and Transcriptomic Platform

Before and after sequencing, the platform is designed to support teams in the implementation, analysis and valorization of their projects based on NGS approaches (e.g. RNA-Seq, ChiP-Seq, ATAC-Seq).
Our team
Bioinformatics : Margot ZAHM (Engineer)
Wet Lab : Marine MILHES (Engineer)
Biostatistics : Thomas CARVAILLO (Engineer)
Scientific Supervision : Olivier JOFFRE (PhD, Associate-Lecturer)

Our missions

  • Support research teams in designing experiments using NGS technologies
  • Run NGS projects of INFINITy’s teams
  • Analyse sequencing data from INFINITy’s teams

Lab service offering

Rna extraction

Our core facility can extract RNA from a variety of samples : tissue, cultured cells, sorted cells.

Rna library

We make your RNA libraries by using what best suits your RNA quantity. They are always checked for quality. If necessary, we can also pool them for sequencing.

Quality control

Samples and libraries qualities are assessed with QuBit and TapeStation 4150.

Atac library

We make your ATAC libraries to help you identify opened chromatin regions. Carrefull, fresh cells with a good viability rate are mandatory.

 

Single-cell library

We offer different possibilities to study your cells at the proteomic, transcriptomic or clonotype level.

Sequencing

We sequence your data by using the AVITI sequencers from Element Biosciences that are accessible at the GeT-PlaGe core facility.

Bioinformatic service offering

Data processing

Your data are processed from the demultiplexing step to the quantification step. It comprises trimming, alignment and peak detection when needed.

Data analyses

We run your differential expression analyses, enrichment analyses, or any other statistical analyses required for your project.

Trainings

We offer multiple trainings to help you work with your data: single-cell data handling with LoupeBrowser, differential expression analyses with iDEP or enrichment analyses with WebGestalt.

Equipment

Instruments

  • Chromium iX (10X Genomics)
  • 4150 TapeStation system (Agilent)
  • M220 focused-ultrasonicator (Covaris)
  • Bioruptor Pico sonication device (Diagenode)
  • LightCycler 480 (Roche)
Softwares

 

Autres informations


Steering comittee
  • Jean-Charles Guery (Team 01)
  • Stéphane Galiacy (Team 02)
  • Lilian Basso (Team 03)
  • Anne Dejean (Team 04)
  • Stéphanie Trudel-Ausseil (Team 05)
  • Nicolas Blanchard (Team 06)
  • Cécile Malnou (Team 07)
  • Sébastien Lhomme (Team 08)
  • Nabila Jabrane-Ferrat (Team 09)
  • Véronique Adoue (Team 10)
  • José Enrique Méjia (Team 11)
  • Isabelle Lamsoul (Team 12)
  • Manuel Diaz-Munoz (Team 13)
  • Jasper Kamphuis (Team 14)
Publications

2025

Collercandy, Nived; Vellas, Camille; Nayrac, Manon; Requena, Mary; Richarme, Thomas; Iscache, Anne-Laure; Latour, Justine; Barange, Karl; Alric, Laurent; Martin-Blondel, Guillaume; Serino, Matteo; Izopet, Jacques; Delobel, Pierre

Cytotoxic CX3CR1+ Vδ1 T cells clonally expand in an interplay of CMV, microbiota, and HIV-1 persistence in people on antiretroviral therapy Journal Article

In: PLoS Pathog, vol. 21, no. 9, pp. e1013489, 2025, ISSN: 1553-7374.

Abstract | Links | BibTeX

Belloy, Marcy; Schmitt, Benjamin A M; Marty, Florent H; Paut, Charlotte; Bassot, Emilie; Aïda, Amel; Alis, Marine; Zahm, Margot; Chaubet, Adeline; Garnier, Hugo; Flores-Aguilar, Thelma; Roitg, Elisa; Gutierrez-Loli, Renzo; Allart, Sophie; Ecalard, Romain; Boursereau, Raphaël; Ligat, Gaëtan; Gonzalez-Dunia, Daniel; Blanchard, Nicolas; Suberbielle, Elsa

Toxoplasma gondii infection and chronic IL-1 elevation drive hippocampal DNA double-strand break signaling, leading to cognitive deficits Journal Article

In: Nat Neurosci, 2025, ISSN: 1546-1726.

Abstract | Links | BibTeX

2024

Maire, Kilian; Chamy, Léa; Ghazali, Samira; Carratala-Lasserre, Manon; Zahm, Margot; Bouisset, Clément; Métais, Arnaud; Combes-Soia, Lucie; Fuente-Vizuete, Lidia; Trad, Hussein; Chaubet, Adeline; Savignac, Magali; de Peredo, Anne Gonzalez; Subramaniam, Arun; Joffre, Olivier; Lutz, Pierre G.; Lamsoul, Isabelle

Fine-tuning levels of filamins a and b as a specific mechanism sustaining Th2 lymphocyte functions Journal Article

In: Nature Communications, vol. 15, no. 1, pp. 10574, 2024, ISSN: 2041-1723.

Abstract | Links | BibTeX

Dias, Chloé; Ballout, Nissrine; Morla, Guillaume; Alileche, Katia; Santiago, Christophe; Guerrera, Ida Chiara; Chaubet, Adeline; Ausseil, Jerome; Trudel, Stephanie

Extracellular vesicles from microglial cells activated by abnormal heparan sulfate oligosaccharides from Sanfilippo patients impair neuronal dendritic arborization Journal Article

In: Molecular Medicine, vol. 30, no. 1, pp. 197, 2024, ISSN: 1528-3658.

Abstract | Links | BibTeX

Morandi, Elena; Adoue, Véronique; Bernard, Isabelle; Friebel, Ekaterina; Nunez, Nicolas; Aubert, Yann; Masson, Frederick; Dejean, Anne S; Becher, Burkhard; Astier, Anne; Martinet, Ludovic; Saoudi, Abdelhadi

Impact of the Multiple Sclerosis-Associated Genetic Variant CD226 Gly307Ser on Human CD8 T-Cell Functions Journal Article

In: Neurol Neuroimmunol Neuroinflammation, vol. 11, no. 6, 2024.

Abstract | Links | BibTeX

Joulia, Emeline; Michieletto, Michaël F.; Agesta, Arantxa; Peillex, Cindy; Girault, Virginie; Dorze, Anne-Louise Le; Peroceschi, Romain; Bucciarelli, Florence; Szelechowski, Marion; Chaubet, Adeline; Hakim, Nawad; Marrocco, Rémi; Lhuillier, Emeline; Lebeurrier, Manuel; Argüello, Rafael J.; Saoudi, Abdelhadi; Costa, Hicham El; Adoue, Veronique; Walzer, Thierry; Sarry, Jean-Emmanuel; Dejean, Anne S.

Eomes-dependent mitochondrial regulation promotes survival of pathogenic CD4+ T cells during inflammation Journal Article

In: Journal of Experimental Medicine, vol. 221, no. 2, 2024, ISSN: 0022-1007.

Links | BibTeX

2023

Osma-Garcia, Ines C.; Mouysset, Mailys; Capitan-Sobrino, Dunja; Aubert, Yann; Turner, Martin; Diaz-Muñoz, Manuel D.

The RNA binding proteins TIA1 and TIAL1 promote Mcl1 mRNA translation to protect germinal center responses from apoptosis Journal Article

In: Cellular & Molecular Immunology, 2023, ISSN: 2042-0226.

Abstract | Links | BibTeX

2018

Dupain, Célia; Harttrampf, Anne C.; Boursin, Yannick; Lebeurrier, Manuel; Rondof, Windy; Robert-Siegwald, Guillaume; Khoueiry, Pierre; Geoerger, Birgit; Massaad-Massade, Liliane

Discovery of new fusion transcripts in a cohort of pediatric solid cancers at relapse and relevance for personalized medicine Journal Article

In: Molecular Therapy, 2018.

Abstract | Links | BibTeX

Plateau NGS