A5013678424- Lymphoma Diagnosis and Treatment
- Chronic Lymphocytic Leukemia Research
- T-cell and Retrovirus Studies
- Microtubule and mitosis dynamics
- Viral-associated cancers and disorders
- CAR-T cell therapy research
- Immune Cell Function and Interaction
- Gene expression and cancer classification
- Cancer-related Molecular Pathways
- Genetic Mapping and Diversity in Plants and Animals
- Ubiquitin and proteasome pathways
- Cancer Treatment and Pharmacology
- Advanced Breast Cancer Therapies
- Wnt/β-catenin signaling in development and cancer
- Cancer Genomics and Diagnostics
- CNS Lymphoma Diagnosis and Treatment
- Bioinformatics and Genomic Networks
- Genetic factors in colorectal cancer
- Genomics and Chromatin Dynamics
- Epigenetics and DNA Methylation
- Cancer-related gene regulation
- Ovarian cancer diagnosis and treatment
- Celiac Disease Research and Management
- Glycosylation and Glycoproteins Research
- Gene Regulatory Network Analysis
The Lymphoma Academic Research Organisation
2019-2024
Hôpital Lyon Sud
2017-2021
Institut Carnot ARTS
2016-2021
Institut National Polytechnique de Toulouse
2019
Inserm
2012-2018
Institut Curie
2012-2018
Université Paris Sciences et Lettres
2018
École Nationale Supérieure des Mines de Paris
2012-2015
Translational Research in Oncology
2013-2015
Cancer et génome: Bioinformatique, biostatistiques et épidémiologie des systèmes complexes
2012-2015
Abstract Background Large microarray datasets have enabled gene regulation to be studied through coexpression analysis. While numerous methods been developed for identifying differentially expressed genes between two conditions, the field of differential analysis is still relatively new. More specifically, there so far no sensitive and untargeted method identify modules (also known as sets or clusters) that are coexpressed conditions. Here, means should able construct de novo by grouping...
Genetical genomics aims at identifying quantitative trait loci (QTLs) for molecular traits such as gene expression or protein levels (eQTL and pQTL, respectively).One of the central concepts in genetical is existence hotspots [1], where a single polymorphism leads to widespread downstream changes distant genes, which are all mapping same genomic locus.Several groups have hypothesized that many genetic polymorphisms-e.g., major regulators transcription factors-would lead large consistent...
Breast cancers are composed of molecularly distinct subtypes with different clinical outcomes and responses to therapy. To discover potential therapeutic targets for the poor prognosis-associated triple-negative breast cancer (TNBC), gene expression profiling was carried out on a cohort 130 samples. Polo-like kinase 1 (PLK1) found be significantly overexpressed in TNBC compared other subtypes. High PLK1 confirmed by reverse phase protein tissue microarrays. In cell lines, RNAi-mediated...
Triple-negative breast cancer (TNBC) represents a subgroup of cancers (BC) associated with the most aggressive clinical behavior. No targeted therapy is currently available for treatment patients TNBC. In order to discover potential therapeutic targets, we searched protein kinases that are overexpressed in human TNBC biopsies and whose silencing cell lines causes death. A cohort including BC obtained at Institut Curie as well normal tissues has been analyzed gene-expression level. The data...
Purpose:MYD88 mutations, notably the recurrent gain-of-function L265P variant, are a distinguishing feature of activated B-cell like (ABC) diffuse large lymphoma (DLBCL), leading to constitutive NFκB pathway activation. The aim this study was examine distinct genomic profiles MYD88-mutant DLBCL, according presence or other non-L265P MYD88 variants.Experimental Design: A cohort 361 DLBCL cases (94 mutant and 267 wild-type) submitted next-generation sequencing (NGS) focusing on 34 genes...
Enteropathy-associated T-cell lymphoma (EATL) is a rare but severe complication of coeliac disease (CeD), often preceded by low-grade clonal intraepithelial lymphoproliferation, referred to as type II refractory CeD (RCDII). Knowledge on underlying oncogenic mechanisms remains scarce. Here, we analysed and compared the mutational landscape RCDII EATL in order identify genetic drivers CeD-associated lymphomagenesis.Pure populations RCDII-cells derived from intestinal biopsies (n=9) or sorted...
Genetical genomics is a strategy for mapping gene expression variation to quantitative trait loci (eQTLs). We performed genetical experiment in four functionally distinct but developmentally closely related hematopoietic cell populations isolated from the BXD panel of recombinant inbred mouse strains. This analysis allowed us analyze eQTL robustness/sensitivity across different cellular differentiation states. Although we identified large number (365) "static" eQTLs that were consistently...
The histone methyltransferase EZH2 has an essential role in the development of follicular lymphoma (FL). Recurrent gain-of-function mutations have been described 25% FL patients and induce aberrant methylation H3 lysine 27 (H3K27). We evaluated genomic gains biology. Using RNA sequencing, Sanger sequencing SNP-arrays, mutation status, copy-number gene-expression profiles were assessed a cohort 159 from PRIMA trial. Immunohistochemical (IHC) expression (n=55) H3K27 (n=63) also evaluated. In...
Despite the many efforts already spent to enumerate somatic mutations in diffuse large B‐cell lymphoma (DLBCL), previous whole‐genome and whole‐exome studies conducted on patients of mixed outcomes failed at characterizing 30% who will relapse or resist current immunochemotherapies. To address this issue, we performed sequencing normal/tumoral DNA pairs 14 relapsed/refractory (R/R) subclassified by full‐transcriptome arrays (six activated like, three germinal center five primary mediastinal...
The canonical Wnt/β-catenin pathway is activated in triple-negative breast cancer (TNBC). activation of this leads to the expression specific target genes depending on cell/tissue context. Here, we analyzed transcriptome two different TNBC cell lines define a comprehensive list Wnt genes. treatment cells with Wnt3a for 6h up-regulated (fold change > 1.3) 59 MDA-MB-468 and 241 HCC38 cells. Thirty were common both lines. Beta-catenin may also be transcriptional repressor found that 18 166...
Abstract Despite a characteristic indolent course, substantial subset of follicular lymphoma (FL) patients has an early relapse with poor outcome. Cells in the microenvironment may be key contributor to treatment failure. We used discovery and validation study design identify microenvironmental determinants failure then integrated these results into FLIPI. In total, 496 newly diagnosed FL grade 1–3 A who were prospectively enrolled MER cohort from 2002 2012 evaluated. Tissue microarrays...
We have previously developed a new method for the development and maintenance of uveal melanoma (UM) xenografts in immunodeficient mice. Here, we compare genetic profiles primary tumors to their corresponding that been passaged over time. The study included sixteen UMs at very early (P1), (P4), late (P9) vivo passages. were analyzed mutation status GNAQ, GNA11, GNAS, GNA15, BAP1, BRAF, chromosomal copy number alterations using Affymetrix GeneChip® Genome‐Wide Human SNP6.0 arrays, gene...
Although follicular lymphoma (FL) is usually graded as FL1-2, FL3A, and FL3B, some borderline cases can be observed led us to investigate the clinicopathologic diversity of grade 3 FL (FL3). Among 2449 patients enrolled in Lymphoma Study Association (LYSA) trials, 1921 with sufficient material underwent a central pathologic review. The resulting diagnoses comprised 89.6% FL1-2 (n=1723), 7.2% FL3A (n=138), 0.5% purely FL3B (n=9). remaining 51 unclassifiable (2.7%) exhibited high-grade...
Extranodal NK/T-cell lymphoma (ENKTCL) is an Epstein-Barr virus (EBV)-related neoplasm with male dominance and a poor prognosis. A better understanding of the genetic alterations their functional roles in ENKTCL could help improve patient stratification treatments. In this study, we performed comprehensive analysis 178 cases to delineate landscape mutations, copy number (CNA), structural variations, identifying 34 driver genes including six previously unappreciated ones, namely, HLA-B,...
BackgroundGene expression profiling (GEP), next-generation sequencing (NGS) and copy number variation (CNV) analysis have led to an increasingly detailed characterization of the genomic profiles DLBCL. The aim this study was perform a fully integrated mutational, genomic, refine DLBCL subtypes. A comparison our model with two recently published integrative classifiers carried out, in order best reflect current state subtypes.Methods223 patients de novo from prospective, multicenter...
// Sylvie Maubant 1, * , Tania Tahtouh Amélie Brisson 1 Virginie Maire Fariba Némati 2 Bruno Tesson 3 Mengliang Ye Guillem Rigaill 4, 5 Maïté Noizet Aurélie Dumont David Gentien 6 Bérengère Marty-Prouvost Leanne de Koning 7 Sardar Faisal Mahmood Didier Decaudin Francisco Cruzalegui 8 Gordon C. Tucker Sergio Roman-Roman 9 and Thierry Dubois Institut Curie, PSL Research University, Translational Department, Breast Cancer Biology Group, Paris, France Preclinical Investigation Laboratory, INSERM...
Abstract Previous reports showed that embryonic stem (ES) cells contain hyperdynamic and globally transcribed chromatin—properties are important for ES cell pluripotency differentiation. Here, we demonstrate a role undifferentiated transcription factor 1 (UTF1) in regulating chromatin structure. Using immunoprecipitation-on-chip analysis, identified >1,700 UTF1 target genes significantly overlap with previously Nanog, Oct4, Klf-4, c-Myc, Rex1 targets. Gene expression profiling knock...
Abstract BCL2 mutations have been suggested to confer an adverse prognosis follicular lymphoma (FL) patients, but their prognostic value has not assessed in patients treated with a rituximab‐containing regimen. Here we evaluated the of large prospective cohort 252 FL immunochemotherapy PRIMA randomized trial. Using DNA‐targeted sequencing approach, detected amino acid altering 135 (54%) and showed that these were probably mediated by over‐activation AICDA (activation‐induced cytidine...