A5047327833- Cancer Genomics and Diagnostics
- Genomics and Chromatin Dynamics
- Epigenetics and DNA Methylation
- Cancer-related molecular mechanisms research
- RNA Research and Splicing
- RNA modifications and cancer
- Gene expression and cancer classification
- Lung Cancer Treatments and Mutations
- MicroRNA in disease regulation
- Molecular Biology Techniques and Applications
- Chromosomal and Genetic Variations
- CRISPR and Genetic Engineering
- interferon and immune responses
- Cancer-related gene regulation
- Bioinformatics and Genomic Networks
- Breast Cancer Treatment Studies
- Genomics and Phylogenetic Studies
- Single-cell and spatial transcriptomics
- Colorectal Cancer Treatments and Studies
- Genomic variations and chromosomal abnormalities
- Cervical Cancer and HPV Research
- Radiomics and Machine Learning in Medical Imaging
- RNA regulation and disease
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Circular RNAs in diseases
Institut Curie
2016-2025
École Nationale Supérieure des Mines de Paris
2016-2025
Inserm
2016-2025
Université Paris Sciences et Lettres
2015-2025
ParisTech
2019-2025
Génomique Bioinformatique et Applications
2012-2024
Cancer et génome: Bioinformatique, biostatistiques et épidémiologie des systèmes complexes
2012-2024
Université Paris Cité
2015-2022
Institut Pasteur
2021-2022
Université des Lettres et des Sciences Humaines de Bamako
2020
HiC-Pro is an optimized and flexible pipeline for processing Hi-C data from raw reads to normalized contact maps. maps reads, detects valid ligation products, performs quality controls generates intra- inter-chromosomal It includes a fast implementation of the iterative correction method based on memory-efficient format In addition, can use phased genotype build allele-specific We applied different datasets, demonstrating its ability easily process large in reasonable time. Source code...
During the last 3 years, a number of approaches for normalization RNA sequencing data have emerged in literature, differing both type bias adjustment and statistical strategy adopted. However, as continue to accumulate, there has been no clear consensus on appropriate method be used or impact chosen downstream analysis. In this work, we focus comprehensive comparison seven recently proposed methods differential analysis RNA-seq data, with an emphasis use varied real simulated datasets...
Abstract MicroRNAs (miRNA) are noncoding RNAs that regulate multiple cellular processes, including proliferation and apoptosis. We used microarray technology to identify miRNAs were upregulated by non–small cell lung cancer (NSCLC) A549 cells in response cisplatin (CDDP). The corresponding synthetic miRNA precursors (pre-miRNAs) per se not lethal when transfected into yet affected death induction CDDP, C2-ceramide, cadmium, etoposide, mitoxantrone an inducer-specific fashion. Whereas...
Polycomb Group (PcG) proteins maintain transcriptional repression throughout development, mostly by regulating chromatin structure. Repressive Complex 2 (PRC2), a component of the machinery, is responsible for methylation histone H3 lysine 27 (H3K27me2/3). Jarid2 was previously identified as cofactor PRC2, PRC2 targeting to and its enzymatic activity. Deletion leads impaired orchestration gene expression during cell lineage commitment. Here, we reveal an unexpected crosstalk between with...
Abstract Inflammation is a complex physiological process triggered in response to harmful stimuli 1 . It involves cells of the immune system capable clearing sources injury and damaged tissues. Excessive inflammation can occur as result infection hallmark several diseases 2–4 The molecular bases underlying inflammatory responses are not fully understood. Here we show that cell surface glycoprotein CD44, which marks acquisition distinct phenotypes context development, immunity cancer...
The R/Bioconductor package HiTC facilitates the exploration of high-throughput 3C-based data. It allows users to import and export 'C' data, transform, normalize, annotate visualize interaction maps. operates within Bioconductor framework thus offers new opportunities for future development in this field.The R is available from website. A detailed vignette provides additional documentation help using package.
DNA methylation is essential for protecting the mammalian germline against transposons. When methylation-based transposon control defective, meiotic chromosome pairing consistently impaired during spermatogenesis: How and why meiosis vulnerable to activity unknown. Using two methylation-deficient backgrounds, Dnmt3L Miwi2 mutant mice, we reveal that largely dispensable silencing transposons before onset. After this, it becomes crucial back up a developmentally programmed H3K9me2 loss....
Abstract Long non‐coding RNA s (lnc s) play diverse roles in physiological and pathological processes. Several lnc have been suggested to modulate gene expression by guiding chromatin‐modifying complexes specific sites the genome. However, besides example of Xist, clear‐cut evidence demonstrating this novel mode regulation remains sparse. Here, we focus on HOTAIR , a that is overexpressed several tumor types previously proposed key role silencing through direct recruitment Polycomb...
Abstract In Drosophila , a complex consisting of Calypso and ASX catalyzes H2A deubiquitination has been reported to act as part the Polycomb machinery in transcriptional silencing. The mammalian homologs these proteins (BAP1 ASXL1/2/3, respectively), are frequently mutated various cancer types, yet their precise functions remain unclear. Using an integrative approach based on isogenic cell lines generated with CRISPR/Cas9, we uncover unanticipated role for BAP1 gene activation. This...
SummaryPatients with non-small cell lung cancer (NSCLC) are routinely treated cytotoxic agents such as cisplatin. Through a genome-wide siRNA-based screen, we identified vitamin B6 metabolism central regulator of cisplatin responses in vitro and vivo. By aggravating bioenergetic catastrophe that involves the depletion intracellular glutathione, exacerbates cisplatin-mediated DNA damage, thus sensitizing large panel lines to apoptosis. Moreover, sensitizes cells apoptosis induction by...
Upon fertilization, the highly specialised sperm and oocyte genomes are remodelled to confer totipotency. The mechanisms of dramatic reprogramming events that occur have remained unknown, presumed roles histone modifying enzymes just starting be elucidated. Here, we explore function oocyte-inherited pool a H3K4 K9 demethylase, LSD1/KDM1A during early mouse development. KDM1A deficiency results in developmental arrest by two-cell stage, accompanied stepwise alterations H3K9 methylation...
Abstract Motivation: Because of its low cost, amplicon sequencing, also known as ultra-deep targeted is now becoming widely used in oncology for detection actionable mutations, i.e. mutations influencing cell sensitivity to therapies. Amplicon sequencing based on the polymerase chain reaction amplification regions interest, a process that considerably distorts information copy numbers initially present tumor DNA. Therefore, additional experiments such single nucleotide polymorphism (SNP) or...
Abstract The Polycomb group of proteins is required for the proper orchestration gene expression due to its role in maintaining transcriptional silencing. It composed several chromatin modifying complexes, including Repressive Complex 2 (PRC2), which deposits H3K27me2/3. Here, we report identification a cofactor PRC2, EZHIP (EZH1/2 Inhibitory Protein), expressed predominantly gonads. limits enzymatic activity PRC2 and lessens interaction between core complex accessory subunits, but does not...