Genomics and biomarkers of lymphomas and solid tumours

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Research topics & objectives

The laboratory aims to establish correlations between molecular data and the phenotype / clinical action of lymphomas: prognostic or theranostic value; implementation of diagnostic tests; identification of the biological value of the variants identified in the tumour and plasma.

Research topics

Lymphoma genomics and transcriptomics

Lymphoma sub-types

  • B-cell lymphomas
  • Diffuse large B-cell lymphomas
  • Hodgkin lymphomas
  • Primary central nervous system lymphomas
  • Mantle-cell lymphomas

Key words

Genome, Genotyping, Transcriptomics, Immunoglobulin genes, Transfer, Methylation

Fabrice Jardin

U1245

Lymphomes B Diffus à grandes cellules
expertise

BIOLOGICAL TARGETS AND IN VITRO/IN VIVO/EX VIVO MODELS

Targets

Molecular studies of the BCR component coding genes and VH genes in particular, driver genes (MYD88), cell cycle genes (CCND), XPO

Models:

  • Xenografts on mice
  • Mantle-cell lymphoma lineages, modified to express the GFP and/or luciferase (REC1, Granta-519, Z138 and JeKo1)
  • JeKo1 et Z138 lineages resistant to bortezomib (JBR and ZBR)

BLOOD AND TISSUE BIOMARKERS

  • Study of the recurring mutations and anomalies of the number of gene copies with a prognostic impact
  • Targeted medium-throughput transcriptomic studies through RT-MLPA and transfer to immunohistochemistry

EARLY ACTIVITY PHARMACODYNAMIC SIGNALS

Correlation between transcriptomics/genomics and PETScan imaging

TOOLS, PROCESSES AND PLATFORMS LINKED TO THE CLINICAL RESEARCH

  • Medium throughput genotyping platform, multiplex PCR analysis, study of the methylation of key genes through pyrosequencing
  • Tumour bank and cold centre
  • Conventional cytogenetics and FISH
  • Clinical research unit with promotion centre and early stage trial platform

INNOVATING TECHNOLOGY

  • RT-MLPA
  • Cell-free DNA: characterisation of the tumour cell-free DNA circulating in the plasma
  • Liquid biopsy
  • Proximity ligation assay
  • CRISPR-barcoding, CRISPR/Cas9

Platforms & technical resources

  • Sequencers (PGM), quantitative PCR (TaqMan), pyrosequencer
  • Medium throughput genotyping and transcriptomic analysis platform (Illumina, BeadExpress)
  • Flow cytometry
  • Cell transfection (Amaxa), cloning, cell culture
  • Tissue-micro-array
  • Bioinformatics
  • Nanostring (Ncounter)
  • Digital PCR (Stilla)

R&D offer

The laboratory offers collaborative projects on:

  • the quantification of recurring mutations in plasma DNA
  • anatomical-clinical / molecular correlations and TEP scan imaging.
  • bioinformatics tools for analysing variants and their integration in routine diagnostics
  • the development of tools for the phenotyping of B and T-cell lymphomas.