TAO YE

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Publications

Negative energy balance by feed deprivation affects the adipose miRNome in the lactating goat

Yannick Faulconnier , Tao Ye , Christine Leroux
Journal of Animal Science, 2025, 103, ⟨10.1093/jas/skaf044⟩
Article dans une revue hal-05045656 v1

Pan-inhibition of super-enhancer-driven oncogenic transcription by next-generation synthetic ecteinascidins yields potent anti-cancer activity

Max Cigrang , Julian Obid , Maguelone Nogaret , Léane Seno , Tao Ye et al.
Nature Communications, 2025, 16 (1), pp.512. ⟨10.1038/s41467-024-55667-z⟩
Article dans une revue hal-04924797 v1
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Inhibition of topoisomerase 2 catalytic activity impacts the integrity of heterochromatin and repetitive DNA and leads to interlinks between clustered repeats

Michalis Amoiridis , John Verigos , Karen Meaburn , William H Gittens , Tao Ye et al.
Nature Communications, 2024, 15 (1), pp.5727. ⟨10.1038/s41467-024-49816-7⟩
Article dans une revue hal-04989654 v1
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LSD1 inhibition circumvents glucocorticoid-induced muscle wasting of male mice

Qingshuang Cai , Rajesh Sahu , Vanessa Ueberschlag-Pitiot , Sirine Souali-Crespo , Céline Charvet et al.
Nature Communications, 2024, 15 (1), pp.3563. ⟨10.1038/s41467-024-47846-9⟩
Article dans une revue (data paper) hal-04635731 v1

Tex19 paralogs are new members of the piRNA pathway controlling retrotransposon suppression

Yara Tarabay , Mayada Achour , Marius Teletin , Tao Ye , Aurélie Teissandier et al.
Journal of Cell Science, 2023, ⟨10.1242/jcs.188763⟩
Article dans une revue (data paper) hal-03940633 v1
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Identification of new candidate drugs for primary Sjögren’s syndrome using a drug repurposing transcriptomic approach

Renaud Felten , Tao Ye , Cedric Schleiss , Benno Schwikowski , Jean Sibilia et al.
Rheumatology, 2023, pp.kead096. ⟨10.1093/rheumatology/kead096⟩
Article dans une revue inserm-04075820 v1
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Analysis of the P. lividus sea urchin genome highlights contrasting trends of genomic and regulatory evolution in deuterostomes

Ferdinand Marlétaz , Arnaud Couloux , Julie Poulain , Karine Labadie , Corinne da Silva et al.
Cell Genomics, 2023, 3 (4), pp.100295. ⟨10.1016/j.xgen.2023.100295⟩
Article dans une revue (data paper) hal-04093287 v1
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KCNN4 links PIEZO-dependent mechanotransduction to NLRP3 inflammasome activation

Li Ran , Tao Ye , Eric Erbs , Izabela Sumara , Romeo Ricci et al.
Science Immunology, 2023, 8 (90), pp.adf4699. ⟨10.1126/sciimmunol.adf4699⟩
Article dans une revue hal-04414542 v2

The ribose methylation enzyme FTSJ1 has a conserved role in neuron morphology and learning performance

Mira Brazane , Dilyana Dimitrova , Julien Pigeon , Chiara Paolantoni , Tao Ye et al.
Life Science Alliance, 2023, 6 (4), pp.e202201877. ⟨10.26508/lsa.202201877⟩
Article dans une revue hal-03967369 v1

Characterization of circulating miRNA profiles of postpartum dairy cows with persistent subclinical endometritis

Gonçalo Pereira , Gilles Charpigny , Yongzhi Guo , Elisabete Silva , Marta Filipa Silva et al.
Journal of Dairy Science, 2023, ⟨10.3168/jds.2023-23616⟩
Article dans une revue hal-04194695 v1
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The circadian demethylation of a unique intronic deoxymethylCpG-rich island boosts the transcription of its cognate circadian clock output gene

Nisha Misra , Manohar Damara , Tao Ye , Pierre Chambon
Proceedings of the National Academy of Sciences of the United States of America, 2023, 120 (8), pp.e2214062120. ⟨10.1073/pnas.2214062120⟩
Article dans une revue hal-04217987 v1
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An Efficient Protocol for CUT&RUN Analysis of FACS-Isolated Mouse Satellite Cells

Kamar Ghaibour , Joe Rizk , Claudine Ebel , Tao Ye , Muriel Philipps et al.
Journal of visualized experiments : JoVE, 2023, 197 (e65215), pp.1-21. ⟨10.3791/65215⟩
Article dans une revue hal-04192479 v1
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Epigenomic mapping identifies an enhancer repertoire that regulates cell identity in bladder cancer through distinct transcription factor networks

Hélène Neyret-Kahn , Jacqueline Fontugne , Xiang Yu Meng , Clarice Groeneveld , Luc Cabel et al.
Oncogene, 2023, 42 (19), pp.1524-1542. ⟨10.1038/s41388-023-02662-1⟩
Article dans une revue hal-04092965 v1
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Polyglutamine-expanded ATXN7 alters a specific epigenetic signature underlying photoreceptor identity gene expression in SCA7 mouse retinopathy

Anna Niewiadomska-Cimicka , Antoine Hache , Stéphanie Le Gras , Céline Keime , Tao Ye et al.
Journal of Biomedical Science, 2022, 107, ⟨10.1186/s12929-022-00892-1⟩
Article dans une revue hal-03935562 v1
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Concurrent CDX2 cis -deregulation and UBTF::ATXN7L3 fusion define a novel high-risk subtype of B-cell ALL

Marie Passet , Rathana Kim , Stéphanie Gachet , François Sigaux , Julie Chaumeil et al.
Blood, 2022, 139 (24), pp.3505-3518. ⟨10.1182/blood.2021014723⟩
Article dans une revue hal-03788702 v1
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Distinct mechanisms underlie H2O2 sensing in C. elegans head and tail

Sophie Quintin , Théo Aspert , Ye Tao , Gilles Charvin
PLoS ONE, 2022, 17 (9), pp.e0274226. ⟨10.1371/journal.pone.0274226⟩
Article dans une revue hal-03378887 v3
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Waves of sumoylation support transcription dynamics during adipocyte differentiation

Xu Zhao , Ivo A Hendriks , Stéphanie Le Gras , Tao Ye , Lucía Ramos-Alonso et al.
Nucleic Acids Research, 2022, 50 (3), pp.1351-1369. ⟨10.1093/nar/gkac027⟩
Article dans une revue hal-03716138 v1
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Histone H2Bub1 deubiquitylation is essential for mouse development, but does not regulate global RNA polymerase II transcription

Fang Wang , Farrah El-Saafin , Tao Ye , Matthieu Stierle , Luc Negroni et al.
Cell Death and Differentiation, 2021, 28 (8), pp.2385-2403. ⟨10.1038/s41418-021-00759-2⟩
Article dans une revue inserm-03294428 v1
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Nutrigenomic analyses reveal miRNAs and mRNAs affected by feed restriction in the mammary gland of midlactation dairy cows

Pierre-Alexis Billa , Yannick Faulconnier , Tao Ye , Céline Bourdon , José Pires et al.
PLoS ONE, 2021, 16 (4), ⟨10.1371/journal.pone.0248680⟩
Article dans une revue hal-03200342 v1

Androgen receptor-mediated transcriptional repression targets cell plasticity in prostate cancer

Eva Erdmann , Pauline Ould Madi-Berthélémy , Félicie Cottard , Charlotte Zoe Angel , Edwige Schreyer et al.
Molecular Oncology, 2021, 16 (13), pp.2518-2536. ⟨10.1002/1878-0261.13164⟩
Article dans une revue hal-03713640 v1
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CD4 + T cells require Ikaros to inhibit their differentiation towards a pathogenic cell fate

Chiara Bernardi , Gaëtan Maurer , Tao Ye , Patricia Marchal , Bernard Jost et al.
Proceedings of the National Academy of Sciences of the United States of America, 2021, 118 (17), pp.e2023172118. ⟨10.1073/pnas.2023172118⟩
Article dans une revue hal-03362243 v1
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The related coactivator complexes SAGA and ATAC control embryonic stem cell self-renewal through acetyltransferase-independent mechanisms

Veronique Fischer , Damien Plassard , Tao Ye , Bernardo Reina-San-Martin , Matthieu Stierle et al.
Cell Reports, 2021, 36, pp.109598. ⟨10.1016/j.celrep.2021.109598⟩
Article dans une revue hal-03331013 v1
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Extensive NEUROG3 occupancy in the human pancreatic endocrine gene regulatory network

Valérie Schreiber , Reuben Mercier , Sara Jiménez , Tao Ye , Emmanuel García-Sánchez et al.
Molecular metabolism, 2021, 53, pp.101313. ⟨10.1016/j.molmet.2021.101313⟩
Article dans une revue hal-03454968 v1
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An Integrated Analysis of miRNA and Gene Expression Changes in Response to an Obesogenic Diet to Explore the Impact of Transgenerational Supplementation with Omega 3 Fatty Acids

Karla Fabiola Corral-Jara , Laura Cantini , Nathalie Poupin , Tao Ye , Jean-Paul Rigaudière et al.
Nutrients, 2020, 12 (12), pp.3864. ⟨10.3390/nu12123864⟩
Article dans une revue hal-03100700 v1
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Temozolomide-Induced RNA Interactome Uncovers Novel LncRNA Regulatory Loops in Glioblastoma

Sabrina Fritah , Arnaud Muller , Wei Jiang , Ramkrishna Mitra , Mohamed Sarmini et al.
Cancers, 2020, 12 (9), pp.2583. ⟨10.3390/cancers12092583⟩
Article dans une revue hal-03669755 v1
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TBPL2/TFIIA complex establishes the maternal transcriptome through oocyte-specific promoter usage

Changwei Yu , Nevena Cvetesic , Vincent Hisler , Kapil Gupta , Tao Ye et al.
Nature Communications, 2020, 11 (1), pp.6439. ⟨10.1038/s41467-020-20239-4⟩
Article dans une revue inserm-03294422 v1
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Deep RNA-Seq reveals miRNome differences in mammary tissue of lactating Holstein and Montbéliarde cows

Pierre-Alexis Billa , Yannick Faulconnier , T. Ye , M. Chervet , Fabienne Le Provost et al.
BMC Genomics, 2019, 20, pp.621. ⟨10.1186/s12864-019-5987-4⟩
Article dans une revue hal-02620652 v1
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Unstable TTTTA/TTTCA expansions in MARCH6 are associated with Familial Adult Myoclonic Epilepsy type 3

Rahel Florian , Florian Kraft , Elsa Leitão , Sabine Kaya , Stephan Klebe et al.
Nature Communications, 2019, 10 (1), pp.4919. ⟨10.1038/s41467-019-12763-9⟩
Article dans une revue pasteur-02562487 v1

Disrupting the IL-36 and IL-23/IL-17 loop underlies the efficacy of calcipotriol and corticosteroid therapy for psoriasis

Beatriz Germán , Ruicheng Wei , Pierre Hener , Christina Martins , Tao Ye et al.
JCI Insight, 2019, 4 (2), ⟨10.1172/jci.insight.123390⟩
Article dans une revue hal-02387518 v1
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Identification and expression of microRNAs in european eels Anguilla anguilla from two natural sites with different pollution levels

Anthony Bertucci , Fabien Pierron , Tao Ye , Patrice Gonzalez , Patrice Couture et al.
Environmental Pollution, 2019, 250, pp.274-283. ⟨10.1016/j.envpol.2019.04.029⟩
Article dans une revue hal-02354043 v1
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Homozygous TAF8 mutation in a patient with intellectual disability results in undetectable TAF8 protein, but preserved RNA polymerase II transcription

Farrah El-Saafin , Cynthia Curry , Tao Ye , Jean-Marie Garnier , Isabelle Kolb-Cheynel et al.
Human Molecular Genetics, 2018, 27 (12), pp.2171-2186. ⟨10.1093/hmg/ddy126⟩
Article dans une revue hal-02349579 v1

Cockayne’s Syndrome A and B Proteins Regulate Transcription Arrest after Genotoxic Stress by Promoting ATF3 Degradation

Alexey Epanchintsev , Federico Costanzo , Marc-Alexander Rauschendorf , Manuela Caputo , Tao Ye et al.
Molecular Cell, 2017, 68 (6), pp.1054-1066.e6. ⟨10.1016/j.molcel.2017.11.009⟩
Article dans une revue hal-03542251 v1

Dual effects of constitutively active androgen receptor and full-length androgen receptor for N-cadherin regulation in prostate cancer

Felicie Cottard , Pauline Ould Madi-Berthélémy , Eva Erdmann , Frédérique Schaff-Wendling , Céline Keime et al.
Oncotarget, 2017, 8 (42), pp.72008-72020. ⟨10.18632/oncotarget.18270⟩
Article dans une revue hal-03677815 v1

Genome-wide Analysis of RARbeta Transcriptional Targets in Mouse Striatum Links Retinoic Acid Signaling with Huntington's Disease and Other Neurodegenerative Disorders

Anna Niewiadomska-Cimicka , Agnieszka Krzyżosiak , Tao Ye , Anna Podleśny-Drabiniok , Doulaye Dembele et al.
Molecular Neurobiology, 2017, 54 (5), pp.3859-3878. ⟨10.1007/s12035-016-0010-4⟩
Article dans une revue hal-03677816 v1

Tex19 paralogs are new members of the piRNA pathway controlling retrotransposon suppression

Yara Tarabay , Mayada Achour Jreda , Marius Teletin , Tao Ye , Aurélie Teissandier et al.
Journal of Cell Science, 2017, 130 (8), pp.1463-1474. ⟨10.1242/jcs.188763⟩
Article dans une revue hal-03680425 v1
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KAT2A/KAT2B-targeted acetylome reveals a role for PLK4 acetylation in preventing centrosome amplification

Marjorie Fournier , Meritxell Orpinell , Cédric Grauffel , Elisabeth Scheer , Jean-Marie Garnier et al.
Nature Communications, 2016, 7 (1), ⟨10.1038/ncomms13227⟩
Article dans une revue hal-03457178 v1
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Hepatitis C Virus-Induced Upregulation of MicroRNA miR-146a-5p in Hepatocytes Promotes Viral Infection and Deregulates Metabolic Pathways Associated with Liver Disease Pathogenesis

Simonetta Bandiera , Sophie Pernot , Hussein El Saghire , Sarah Durand , Christine Thumann et al.
Journal of Virology, 2016, 90 (14), pp.6387-6400. ⟨10.1128/JVI.00619-16⟩
Article dans une revue hal-02372996 v1
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Tip60 complex binds to active Pol II promoters and a subset of enhancers and co-regulates the c-Myc network in mouse embryonic stem cells

Sarina Ravens , Changwei Yu , Tao Ye , Matthieu Stierle , Laszlo Tora
Epigenetics & Chromatin, 2015, 8 (1), ⟨10.1186/s13072-015-0039-z⟩
Article dans une revue hal-03457212 v1
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A Brn2–Zic1 axis specifies the neuronal fate of retinoic-acid-treated embryonic stem cells

Sylvia Urban , Dominique Kobi , Marie Ennen , Diana Langer , Stéphanie Le Gras et al.
Journal of Cell Science, 2015, 128 (13), pp.2303-2318. ⟨10.1242/jcs.168849⟩
Article dans une revue hal-04217954 v1

Endogenous siRNAs and piRNAs derived from transposable elements and genes in the malaria vector mosquito Anopheles gambiae

Inna Biryukova , Tao Ye
BMC Genomics, 2015, 16 (1), pp.278. ⟨10.1186/s12864-015-1436-1⟩
Article dans une revue hal-04217952 v1
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UVB Induces a Genome-Wide Acting Negative Regulatory Mechanism That Operates at the Level of Transcription Initiation in Human Cells

Ákos Gyenis , David Umlauf , Zsuzsanna Újfaludi , Imre Boros , Tao Ye et al.
PLoS Genetics, 2014, 10 (7), pp.e1004483. ⟨10.1371/journal.pgen.1004483⟩
Article dans une revue hal-03457227 v1
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Mof-associated complexes have overlapping and unique roles in regulating pluripotency in embryonic stem cells and during differentiation

Sarina Ravens , Marjorie Fournier , Tao Ye , Matthieu Stierle , Doulaye Dembele et al.
eLife, 2014, 3, pp.e02104. ⟨10.7554/eLife.02104⟩
Article dans une revue hal-03463052 v1

Phosphorylation of the retinoic acid receptor RARgamma2 is crucial for the neuronal differentiation of mouse embryonic stem cells

Ziad Al Tanoury , Samia Gaouar , Aleksandr Piskunov , Tao Ye , Sylvia Urban et al.
Journal of Cell Science, 2014, 127 (Pt 9), pp.2095-2105. ⟨10.1242/jcs.145979⟩
Article dans une revue hal-04143706 v1
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Rfx6 Maintains the Functional Identity of Adult Pancreatic β Cells

Julie Piccand , Perrine Strasser , David J. Hodson , Aline Meunier , Tao Ye et al.
Cell Reports, 2014, 9 (6), pp.2219-2232. ⟨10.1016/j.celrep.2014.11.033⟩
Article dans une revue hal-04004335 v1

T-cell factor 4 and β-catenin chromatin occupancies pattern zonal liver metabolism in mice

Angélique Gougelet , Cyril Torre , Philippe Veber , Chiara Sartor , Laura Bachelot et al.
Hepatology, 2014, 59 (6), pp.2344-2357. ⟨10.1002/hep.26924⟩
Article dans une revue inserm-02532861 v1
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The Oncogenic MicroRNA Hsa-miR-155-5p Targets the Transcription Factor ELK3 and Links It to the Hypoxia Response

E. Douglas Robertson , Christine Wasylyk , Tao Ye , Alain Jung , Bohdan Wasylyk
PLoS ONE, 2014, 9 (11), pp.e113050. ⟨10.1371/journal.pone.0113050⟩
Article dans une revue hal-04217940 v1
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Transcriptome-wide analysis of microRNA expression in the malaria mosquito Anopheles gambiae

Inna Biryukova , Tao Ye , Elena Levashina
BMC Genomics, 2014, 15 (1), pp.557. ⟨10.1186/1471-2164-15-557⟩
Article dans une revue hal-04212986 v1
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Genome Sequence of Halomonas sp. Strain A3H3, Isolated from Arsenic-Rich Marine Sediments

Sandrine Koechler , Frédéric Plewniak , Valérie Barbe , Fabienne Battaglia-Brunet , Bernard Jost et al.
Genome Announcements, 2013, 1 (5), ⟨10.1128/genomeA.00819-13⟩
Article dans une revue hal-04217873 v1

Homeostasis in Intestinal Epithelium Is Orchestrated by the Circadian Clock and Microbiota Cues Transduced by TLRs

Atish Mukherji , Ahmad Kobiita , Tao Ye , Pierre Chambon
Cell, 2013, 153 (4), pp.812-827. ⟨10.1016/j.cell.2013.04.020⟩
Article dans une revue hal-04217932 v1
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Genetic analysis of the biosynthesis of 2-methoxy-3-isobutylpyrazine, a major grape-derived aroma compound impacting wine quality

Sabine Guillaumie , Andrea Ilg , Stéphane Réty , Maxime Brette , Claudine Trossat-Magnin et al.
Plant Physiology, 2013, 162 (2), pp.604-615. ⟨10.1104/pp.113.218313⟩
Article dans une revue hal-02647779 v1
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Sumoylation at chromatin governs coordinated repression of a transcriptional program essential for cell growth and proliferation

Hélène Neyret-Kahn , Moussa Benhamed , Tao Ye , Stéphanie Le Gras , Jack-Christophe Cossec et al.
Genome Research, 2013, 23 (10), pp.1563-1579. ⟨10.1101/gr.154872.113⟩
Article dans une revue pasteur-03235077 v1
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Genes involved in cell adhesion and signaling: a new repertoire of retinoic acid receptor target genes in mouse embryonic fibroblasts

Ziad Al Tanoury , Aleksandr Piskunov , Dina Andriamoratsiresy , Samia Gaouar , Regis Lutzing et al.
Journal of Cell Science, 2013, 127 (3), pp.521-533. ⟨10.1242/jcs.131946⟩
Article dans une revue hal-04143713 v1

First total synthesis and stereochemical revision of laxaphycin B and its extension to lyngbyacyclamide A.

France Boyaud , Zahia Mahiout , Christine Lenoir , Shoubin Tang , Joanna Wdzieczak-Bakala et al.
Organic Letters, 2013, 15 (15), pp.3898-901. ⟨10.1021/ol401645m⟩
Article dans une revue hal-00910980 v1

Trim24-repressed VL30 retrotransposons regulate gene expression by producing noncoding RNA

Benjamin Herquel , Khalid Ouararhni , Igor Martianov , Stéphanie Le Gras , Tao Ye et al.
Nature Structural and Molecular Biology, 2013, 20 (3), pp.339-346. ⟨10.1038/nsmb.2496⟩
Article dans une revue hal-04217904 v1
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Interconversion between active and inactive TATA-binding protein transcription complexes in the mouse genome

Mohamed-Amin Choukrallah , Dominique Kobi , Igor Martianov , W. W.M.Pim Pijnappel , Nikolai Mischerikow et al.
Nucleic Acids Research, 2012, 40 (4), pp.1446--1459. ⟨10.1093/nar/gkr802⟩
Article dans une revue hal-05008064 v1

Senescence is an endogenous trigger for microRNA-directed transcriptional gene silencing in human cells

Moussa Benhamed , Utz Herbig , Tao Ye , Anne Dejean , Oliver Bischof
Nature Cell Biology, 2012, 14 (3), pp.266-275. ⟨10.1038/ncb2443⟩
Article dans une revue pasteur-03236097 v1
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Retinoic acid receptors recognise the mouse genome through binding elements with diverse spacing and topology.

Emmanuel Moutier , Tao Ye , Mohamed-Amin Choukrallah , Sylvia Urban , Judit Osz et al.
Journal of Biological Chemistry, 2012, 287 (31), pp.26328-26341. ⟨10.1074/jbc.M112.361790⟩
Article dans une revue hal-00720090 v1
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Transcription factor TEAD4 regulates expression of Myogenin and the unfolded protein response genes during C2C12 cell differentiation.

Irwin Davidson , Attaailah Benhaddou , Celine Keime , Tao Ye , Isabelle Michel et al.
Cell Death and Differentiation, 2011, ⟨10.1038/cdd.2011.87⟩
Article dans une revue hal-00654943 v1

seqMINER: an integrated ChIP-seq data interpretation platform

Tao Ye , Arnaud Krebs , Mohamed-Amin Choukrallah , Celine Keime , Frederic Plewniak et al.
Nucleic Acids Research, 2011, 39 (6), pp.e35-e35. ⟨10.1093/nar/gkq1287⟩
Article dans une revue hal-03465191 v1

Widespread Negative Response Elements Mediate Direct Repression by Agonist- Liganded Glucocorticoid Receptor

Milan Surjit , Krishna priya Ganti , Atish Mukherji , Tao Ye , Guoqiang Hua et al.
Cell, 2011, 145 (2), pp.224-241. ⟨10.1016/j.cell.2011.03.027⟩
Article dans une revue hal-03309013 v1
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Cell-specific occupancy of an extended repertoire of CREM and CREB binding loci in male germ cells.

Igor Martianov , Mohamed-Amin Choukrallah , Arnaud Krebs , Tao Ye , Stephanie Legras et al.
BMC Genomics, 2010, 11 (1), pp.530. ⟨10.1186/1471-2164-11-530⟩
Article dans une revue inserm-00663886 v1

Feed restriction modifies mammary miRNome of mid-lactation cows

Pierre-Alexis Billa , José Pires , Yannick Faulconnier , Tao Ye
10. International Symposium on the Nutrition of Herbivores (ISNH10), Sep 2018, Clermont-Ferrand, France
Communication dans un congrès hal-02737075 v1
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Deep RNA-Seq reveals genetics and nutritional regulation of miRNomes in mammary gland of lactating Holstein and Montbéliarde cows

Pierre-Alexis Billa , Yannick Faulconnier , T. Ye , Sébastien Bes , José Pires et al.
American Dairy Science Association Annual Meeting, 2019, Cincinnati, Ohio, United States. Volume 102, Supplement 1, 2019, Journal of Dairy Science
Proceedings/Recueil des communications hal-02788559 v1

Interpreting and Visualizing ChIP-seq Data with the seqMINER Software

Tao Ye , Sarina Ravens , Arnaud Krebs , Làszlò Tora
Stem Cell Transcriptional Networks, 1150, Springer New York, pp.141-152, 2014, Methods in Molecular Biology, ⟨10.1007/978-1-4939-0512-6_8⟩
Chapitre d'ouvrage hal-03457241 v1