jean-Christophe Andrau

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Publications

DNA methylation and lncRNA control asynchronous DNA replication at specific imprinted gene domains

Yui Imaizumi , François Charon , Caroline Surcis , Christel Picard , Pol Arnau-Romero et al.

Nature Communications, 2026, 17 (1), pp.1844. ⟨10.1038/s41467-026-68558-2⟩

Article dans une revue hal-05655570v1

G-quadruplexes are promoter elements controlling nucleosome exclusion and RNA polymerase II pausing

Cyril Esnault , Amal Zine El Aabidine , Marie-Cécile Robert , Anne Cucchiarini , Talha Magat et al.

Nature Genetics, 2025, 57 (8), pp.1981-1993. ⟨10.1038/s41588-025-02263-6⟩

Article dans une revue hal-05337666v1

Targeting transcription-replication conflicts using G-quadruplexes stabilizers in multiple myeloma

Laure Dutrieux , Sara Ovejero , Antoine Guillemin , Miss Leriem Zellagui , Elke de Bruyne et al.

Blood Neoplasia, 2025, 2 (2), pp.100072. ⟨10.1016/j.bneo.2025.100072⟩

Article dans une revue hal-05343640v1

Abnormal Immune Profile in Individuals with Kabuki Syndrome

Margot Comel , Norma Saad , Debapratim Sil , Florence Apparailly , Marjolaine Willems et al.

Journal of Clinical Immunology, 2024, 45 (1), pp.7. ⟨10.1007/s10875-024-01796-5⟩

Article dans une revue hal-04913847v1

Comprehensive mapping of genetic variation at Epromoters reveals pleiotropic association with multiple disease traits

Jing Wan , Antoinette van Ouwerkerk , Jean-Christophe Mouren , Carla Heredia , Lydie Pradel et al.

Nucleic Acids Research, 2024, ⟨10.1093/nar/gkae1270⟩

Article dans une revue hal-04882272v1

G-quadruplex forming motifs in the promoter region of the B-MYB proto-oncogene

André Miranda , Anne Cucchiarini , Cyril Esnault , Jean-Christophe Andrau , Paula Oliveira et al.

International Journal of Biological Macromolecules, 2024, 270, pp.132244. ⟨10.1016/j.ijbiomac.2024.132244⟩

Article dans une revue hal-04753347v1

G4access identifies G-quadruplexes and their associations with open chromatin and imprinting control regions

Cyril Esnault , Talha Magat , Amal Zine El Aabidine , Encar Garcia-Oliver , Anne Cucchiarini et al.

Nature Genetics, 2023, 55 (8), pp.1359-1369. ⟨10.1038/s41588-023-01437-4⟩

Article dans une revue hal-04793061v1

RNA polymerase II CTD is dispensable for transcription and required for termination in human cells

Yousra Yahia , Alexia Pigeot , Amal Zine El Aabidine , Nilay Shah , Nezih Karasu et al.

EMBO Reports, 2023, 24 (9), pp.e56150. ⟨10.15252/embr.202256150⟩

Article dans une revue hal-04285692v1

The control of transcriptional memory by stable mitotic bookmarking

Maëlle Bellec , Jérémy Dufourt , George Hunt , Hélène Lenden-Hasse , Antonio Trullo et al.

Nature Communications, 2022, 13 (1), pp.1176. ⟨10.1038/s41467-022-28855-y⟩

Article dans une revue hal-03858303v1

Notch-dependent and -independent functions of transcription factor RBPJ

Tobias Friedrich , Francesca Ferrante , Léo Pioger , Andrea Nist , Thorsten Stiewe et al.

Nucleic Acids Research, 2022, 50 (14), pp.7925-7937. ⟨10.1093/nar/gkac601⟩

Article dans une revue hal-03852469v1

Stochastic pausing at latent HIV-1 promoters generates transcriptional bursting

Katjana Tantale , Encar Garcia-Oliver , Marie-Cécile Robert , Adèle L’hostis , Yueyuxiao Yang et al.

Nature Communications, 2021, 12 (1), pp.4503. ⟨10.1038/s41467-021-24462-5⟩

Article dans une revue hal-03382893v1

Fra-1 regulates its target genes via binding to remote enhancers without exerting major control on chromatin architecture in triple negative breast cancers

Fabienne Bejjani , Claire Tolza , Mathias Boulanger , Damien Downes , Raphaël Romero et al.

Nucleic Acids Research, 2021, 49 (5), pp.2488-2508. ⟨10.1093/nar/gkab053⟩

Article dans une revue hal-03253453v1

GOLT1B Activation in Hepatitis C Virus-Infected Hepatocytes Links ER Trafficking and Viral Replication

Jacqueline Butterworth , Damien Gregoire , Marion Peter , Armando Andres Roca Suarez , Guillaume Desandré et al.

Pathogens, 2021, 11, ⟨10.3390/pathogens11010046⟩

Article dans une revue hal-03541060v1

Evaluation of DNA Methylation Episignatures for Diagnosis and Phenotype Correlations in 42 Mendelian Neurodevelopmental Disorders

Erfan Aref-Eshghi , Jennifer Kerkhof , Victor Pedro , Mouna Barat-Houari , Nathalie Ruiz-Pallares et al.

American Journal of Human Genetics, 2020, 106 (3), pp.356-370. ⟨10.1016/j.ajhg.2020.01.019⟩

Article dans une revue hal-02538107v1

Integration of high-throughput reporter assays identify a critical enhancer of the Ikzf1 gene

Jaafar Alomairi , Anne Molitor , Nori Sadouni , Saadat Hussain , Magali Torres et al.

PLoS ONE, 2020, 15 (5), pp.e0233191. ⟨10.1371/journal.pone.0233191⟩

Article dans une revue hal-02773600v1

Alternative Enhancer Usage and Targeted Polycomb Marking Hallmark Promoter Choice during T Cell Differentiation

Muhammad Ahmad Maqbool , Léo Pioger , Amal Zine El Aabidine , Nezih Karasu , Anne Marie Molitor et al.

Cell Reports, 2020, 32, ⟨10.1016/j.celrep.2020.108048⟩

Article dans une revue hal-03015018v1

Immunopathological manifestations in Kabuki syndrome: a registry study of 177 individuals

Henri Margot , Guilaine Boursier , Claire Duflos , Elodie Sanchez , Jeanne Amiel et al.

Genetics in Medicine, 2020, 22 (1), pp.181-188. ⟨10.1038/s41436-019-0623-x⟩

Article dans une revue hal-02268419v1

Critical role for TRIM28 and HP1β/γ in the epigenetic control of T cell metabolic reprograming and effector differentiation

Ulf Gehrmann , Marianne Burbage , Elina Zueva , Christel Goudot , Cyril Esnault et al.

Proceedings of the National Academy of Sciences of the United States of America, 2019, 116 (51), pp.25839-25849. ⟨10.1073/pnas.1901639116⟩

Article dans une revue hal-02369616v1

MIR sequences recruit zinc finger protein ZNF768 to expressed genes

Michaela Rohrmoser , Michael Kluge , Yousra Yahia , Anita Gruber-Eber , Muhammad Ahmad Maqbool et al.

Nucleic Acids Research, 2019, 47 (2), pp.700-715. ⟨10.1093/nar/gky1148⟩

Article dans une revue hal-04918168v1

The Landscape of L1 Retrotransposons in the Human Genome Is Shaped by Pre-insertion Sequence Biases and Post-insertion Selection

Tania Sultana , Dominic van Essen , Oliver Siol , Marc Bailly-Bechet , Claude Philippe et al.

Molecular Cell, 2019, 74 (3), pp.555-570.e7. ⟨10.1016/j.molcel.2019.02.036⟩

Article dans une revue hal-02401618v1

Regulation of the positive transcriptional effect of PLZF through a non-canonical EZH2 activity

Myriam Koubi , Mathilde Poplineau , Julien Vernerey , Lia N 'Guyen , Guillaume Tiberi et al.

Nucleic Acids Research, 2018, 46 (7), pp.3339-3350. ⟨10.1093/nar/gky080⟩

Article dans une revue hal-01765664v1

Tyrosine-1 of RNA Polymerase II CTD Controls Global Termination of Gene Transcription in Mammals.

Nilay Shah , Muhammad Ahmad Maqbool , Yousra Yahia , Amal Zine El Aabidine , Cyril Esnault et al.

Molecular Cell, 2018, 69 (1), pp.48-61.e6. ⟨10.1016/j.molcel.2017.12.009⟩

Article dans une revue hal-03022268v1

ARS2 is a general suppressor of pervasive transcription

Claudia Iasillo , Manfred Schmid , Yousra Yahia , Muhammad A Maqbool , Nicolas Descostes et al.

Nucleic Acids Research, 2017, 45 (17), pp.10229-10241. ⟨10.1093/nar/gkx647⟩

Article dans une revue hal-02343528v1

A threshold level of NFATc1 activity facilitates thymocyte differentiation and opposes notch-driven leukaemia development

I. Screpanti , E. Serfling , A. K. Patra , S. Klein-Hessling , R. Rudolf et al.

Nature Communications, 2016, 7, pp.11841. ⟨10.1038/ncomms11841⟩

Article dans une revue hal-02187331v1

Lineage-specific enhancers activate self-renewal genes in macrophages and embryonic stem cells

Erinn L. Soucie , Ziming Weng , Laufey Geirsdottir , Kaaweh Molawi , Julien Maurizio et al.

Science, 2016, 351 (6274), pp.680-U123. ⟨10.1126/science.aad5510⟩

Article dans une revue hal-01438535v1

Dynamic recruitment of Ets1 to both nucleosome-occupied and -depleted enhancer regions mediates a transcriptional program switch during early T-cell differentiation

Pierre Cauchy , Muhammad A. Maqbool , Joaquin Zacarias-Cabeza , Laurent Vanhille , Frederic Koch et al.

Nucleic Acids Research, 2016, 44 (8), pp.3567-3585. ⟨10.1093/nar/gkv1475⟩

Article dans une revue hal-01438545v1

Pasha: a versatile R package for piling chromatin HTS data

Romain Fenouil , Nicolas Descostes , Lionel Spinelli , Frederic Koch , Muhammad Ahmad Maqbool et al.

Bioinformatics, 2016, 32 (16), pp.2528 - 2530. ⟨10.1093/bioinformatics/btw206⟩

Article dans une revue hal-01407393v1

The chromatin environment shapes DNA replication origin organization and defines origin classes

Christelle Cayrou , Benoit Ballester , Isabelle Peiffer , Romain Fenouil , Philippe Coulombe et al.

Genome Research, 2015, 25 (12), pp.1873-1885. ⟨10.1101/gr.192799.115⟩

Article dans une revue hal-03101863v1

Site- and allele-specific polycomb dysregulation in T-cell leukaemia

Jean-Marc Navarro , Aurore Touzart , Lydie Pradel , Marie Loosveld , Myriam Koubi et al.

Nature Communications, 2015, 6 (1), pp.6094. ⟨10.1038/ncomms7094⟩

Article dans une revue hal-01612097v1

Transcription-Dependent Generation of a Specialized Chromatin Structure at the TCRβ Locus

Joaquin Zacarias-Cabeza , Mohamed Belhocine , Laurent Vanhille , Pierre Cauchy , Frederic Koch et al.

Journal of Immunology, 2015, 194 (7), pp.3432--3443. ⟨10.4049/jimmunol.1400789⟩

Article dans une revue hal-01614946v1

High-throughput and quantitative assessment of enhancer activity in mammals by CapStarr-seq

Laurent Vanhille , Aurélien Griffon , Muhammad Ahmad Maqbool , Joaquin Zacarias-Cabeza , Lan T.M. Dao et al.

Nature Communications, 2015, 6, pp.6905. ⟨10.1038/ncomms7905⟩

Article dans une revue hal-01614948v1

Tyrosine phosphorylation of RNA polymerase II CTD is associated with antisense promoter transcription and active enhancers in mammalian cells

Nicolas Descostes , Martin Heidemann , Lionel Spinelli , Roland Schüller , Muhammad Ahmad Maqbool et al.

eLife, 2014, 3, ⟨10.7554/eLife.02105⟩

Article dans une revue hal-01431911v1

Architecture and expression of the nfatc1 gene in lymphocytes

R. Rudolf , R. Busch , A. K. Patra , K. Muhammad , A. Avots et al.

Frontiers in Immunology, 2014, 5, pp.21. ⟨10.3389/fimmu.2014.00021⟩

Article dans une revue hal-02191590v1

Editorial for "Diversity of the non-coding transcriptomes revealed by RNA-seq technologies

A. Morillon , J. C. Andrau

Methods, 2013, 63 (1), pp.1--2. ⟨10.1016/j.ymeth.2013.08.030⟩

Article dans une revue istex hal-02191629v1

Divergent transcription is associated with promoters of transcriptional regulators.

Cyrille Lepoivre , Mohamed Belhocine , Aurélie Bergon , Aurélien Griffon , Miriam Yammine et al.

BMC Genomics, 2013, 14 (1), pp.914. ⟨10.1186/1471-2164-14-914⟩

Article dans une revue inserm-00924629v1

Editorial for “Diversity of the non-coding transcriptomes revealed by RNA-seq technologies”

Antonin Morillon , Jean-Christophe Andrau

Methods, 2013, 63 (1), pp.1-2. ⟨10.1016/j.ymeth.2013.08.030⟩

Article dans une revue istex hal-02349843v1

Divergent transcription is associated with promoters of transcriptional regulators

C. Lepoivre , M. Belhocine , A. Bergon , A. Griffon , M. Yammine et al.

BMC Genomics, 2013, 14, pp.914. ⟨10.1186/1471-2164-14-914⟩

Article dans une revue hal-02192888v1

An update on recent methods applied for deciphering the diversity of the noncoding RNA genome structure and function

S. Spicuglia , M. A. Maqbool , Denis Puthier , J. C. Andrau

Methods, 2013, 63 (1), pp.3--17. ⟨10.1016/j.ymeth.2013.04.003⟩

Article dans une revue hal-01595815v1

Threonine-4 of mammalian RNA polymerase II CTD is targeted by Polo-like kinase 3 and required for transcriptional elongation

C. Hintermair , M. Heidemann , F. Koch , N. Descostes , M. Gut et al.

EMBO Journal, 2012, 31 (12), pp.2784--97. ⟨10.1038/emboj.2012.123⟩

Article dans une revue hal-02193058v1

CpG islands and GC content dictate nucleosome depletion in a transcription-independent manner at mammalian promoters

R. Fenouil , P. Cauchy , F. Koch , N. Descostes , J. Z. Cabeza et al.

Genome Research, 2012, 22 (12), pp.2399--2408. ⟨10.1101/gr.138776.112⟩

Article dans une revue hal-01614960v1

Argonaute proteins couple chromatin silencing to alternative splicing

Maya Ameyar-Zazoua , Christophe Rachez , Mouloud Souidi , Philippe Robin , Lauriane Fritsch et al.

Nature Structural and Molecular Biology, 2012, 19 (10), pp.998 - 1004. ⟨10.1038/nsmb.2373⟩

Article dans une revue istex pasteur-01393429v1

Noncoding transcription at enhancers: general principles and functional models

G. Natoli , J. C. Andrau

Annual Review of Genetics, 2012, 46, pp.1--19. ⟨10.1146/annurev-genet-110711-155459⟩

Article dans une revue hal-02193070v1

H3K4 tri-methylation provides an epigenetic signature of active enhancers: Epigenetic signature of active enhancers

Aleksandra Pekowska , Touati Benoukraf , Joaquin Zacarias-Cabeza , Mohamed Belhocine , Frederic Koch et al.

EMBO Journal, 2011, 30 (20), pp.4198--4210. ⟨10.1038/emboj.2011.295⟩

Article dans une revue hal-01614961v1

Splicing enhances recruitment of methyltransferase HYPB/Setd2 and methylation of histone H3 Lys36.

Sérgio Fernandes de Almeida , Ana Rita Grosso , Frederic Koch , Romain Fenouil , Sílvia Carvalho et al.

Nature Structural and Molecular Biology, 2011, 18 (9), pp.977-83. ⟨10.1038/nsmb.2123⟩

Article dans une revue istex hal-00667731v1

Transcription initiation platforms and GTF recruitment at tissue-specific enhancers and promoters.

Frederic Koch , Romain Fenouil , Marta Gut , Pierre Cauchy , Thomas K Albert et al.

Nature Structural and Molecular Biology, 2011, 2 (4), epub ahead of print. ⟨10.1038/nsmb.2085⟩

Article dans une revue istex hal-00609674v1

Initiating RNA polymerase II and TIPs as hallmarks of enhancer activity and tissue-specificity

F. Koch , J. C. Andrau

Transcription, 2011, 2 (6), pp.263--8. ⟨10.4161/trns.2.6.18747⟩

Article dans une revue hal-02193318v1

CoCAS: a ChIP-on-chip analysis suite.

Touati Benoukraf , Pierre Cauchy , Romain Fenouil , Adrien Jeanniard , Frederic Koch et al.

Bioinformatics, 2009, 25 (7), pp.954-5. ⟨10.1093/bioinformatics/btp075⟩

Article dans une revue hal-00408403v1

The Ccr4-NOT deadenylase subunits CNOT7 and CNOT8 have overlapping roles and modulate cell proliferation

A. Aslam , S. Mittal , F. Koch , J. C. Andrau , G. S. Winkler

Molecular Biology of the Cell, 2009, 20 (17), pp.3840--50. ⟨10.1091/mbc.E09-02-0146⟩

Article dans une revue hal-02194079v1

Genome-wide RNA polymerase II: not genes only!

Frederic Koch , Frederic Jourquin , Pierre Ferrier , Jean-Christophe Andrau

Trends in Biochemical Sciences, 2008, 33 (6), pp.265-273. ⟨10.1016/j.tibs.2008.04.006⟩

Article dans une revue istex hal-00294059v1

Analyses of Promoter, Enhancer, and Nucleosome Organization in Mammalian Cells by MNase-Seq

Cyril Esnault , Talha Magat , Encar García-Oliver , Jean Christophe Andrau

Enhancers and Promoters, 2351, Springer US, pp.93-104, 2021, Methods in Molecular Biology, ⟨10.1007/978-1-0716-1597-3_5⟩

Chapitre d'ouvrage hal-03357156v1

Extracellular matrix stiffness modulates nuclear lamina organisation and sets nuclear conditions for PRC2 repression

Alexia Pigeot , Martin Rey-Millet , Amal Zine El Aabidine , Antonio Trullo , Lea Costes et al.

2025

Pré-publication, Document de travail hal-05339295v1

G-quadruplexes are promoter elements controlling nucleosome exclusion and RNA polymerase II pausing

Cyril Esnault , Encar Garcia-Oliver , Amal Zine El Aabidine , Marie-Cécile Robert , Talha Magat et al.

2023

Pré-publication, Document de travail hal-04286714v1

The control of transcriptional memory by stable mitotic bookmarking

Mounia Lagha , Maëlle Bellec , Jérémy Dufourt , George Hunt , Hélène Lenden-Hasse et al.

2021

Pré-publication, Document de travail hal-03442288v1

Stochastic pausing at latent HIV-1 promoters generates transcriptional bursting

Katiana Tantale , Encarnation Garcia-Oliver , Adèle L'Hostis , Yueyuxio Yang , Marie- Cécile Robert et al.

2020

Pré-publication, Document de travail hal-03019157v1

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