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Unscheduled origin building in S-phase upon tight CDK1 inhibition suppresses CFS instability

 Olivier Brison , Stefano Gnan , Dana Azar , Mélanie Schmidt , Stéphane Koundrioukoff , et al.
2021
Pré-publication, Document de travail hal-03443067v1
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Identification of new driver and passenger mutations within APOBEC-induced hotspot mutations in bladder cancer

 Ming-Jun Shi , Xiang-Yu Meng , Jacqueline Fontugne , Chun-Long Chen , François Radvanyi , et al.
Genome Medicine, 2020, 12 (1), ⟨10.1186/s13073-020-00781-y⟩
Article dans une revue hal-03015020v1
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Replication Stress Induces Global Chromosome Breakage in the Fragile X Genome

 Arijita Chakraborty , Piroon Jenjaroenpun , Jing Li , Sami El Hilali , Andrew Mcculley , et al.
Cell Reports, 2020, 32 (12), pp.108179. ⟨10.1016/j.celrep.2020.108179⟩
Article dans une revue hal-03015043v1
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Pan-cancer surveys indicate cell cycle-related roles of primate-specific genes in tumors and embryonic cerebrum

 Chenyu Ma , Chunyan Li , Huijing Ma , Daqi Yu , Yufei Zhang , et al.
Genome Biology, 2022, 23 (1), pp.251. ⟨10.1186/s13059-022-02821-9⟩
Article dans une revue hal-04304197v1
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The human pre-replication complex is an open complex

 Jian Li , Jiangqing Dong , Weitao Wang , Daqi Yu , Xinyu Fan , et al.
Cell, 2023, 186 (1), pp.98-111.e21. ⟨10.1016/j.cell.2022.12.008⟩
Article dans une revue hal-03974204v1
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Editorial: Chromosomal fragile sites, genome instability and human diseases

 Qing Hu , Advaitha Madireddy , Stefano Gnan , Chun-Long Chen
Frontiers in Genetics, 2023, 13, ⟨10.3389/FGENE.2022.1119532⟩
Article dans une revue hal-03974130v1
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Exo1 recruits Cdc5 polo kinase to MutLγ to ensure efficient meiotic crossover formation.

 Aurore Sanchez , Céline Adam , Felix Rauh , Yann Duroc , Lepakshi Ranjha , et al.
Proceedings of the National Academy of Sciences of the United States of America, 2020, ⟨10.1073/pnas.2013012117⟩
Article dans une revue hal-03020386v1
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Topoisomerase 1 prevents replication stress at R-loop-enriched transcription termination sites

 Alexy Promonet , Ismaël Padioleau , Yaqun Liu , Lionel A. Sanz , Anna Biernacka , et al.
Nature Communications, 2020, 11 (1), ⟨10.1038/s41467-020-17858-2⟩
Article dans une revue hal-02931000v1
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Evidence for sequential and increasing activation of replication origins along replication timing gradients in the human genome.

 Guillaume Guilbaud , Aurélien Rappailles , Antoine Baker , Chun-Long Chen , Alain Arneodo , et al.
PLoS Computational Biology, 2011, 7 (12), pp.e1002322. ⟨10.1371/journal.pcbi.1002322⟩
Article dans une revue inserm-00691534v1
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Editorial: DNA Replication Stress and Cell Fate

 Lin Deng , Chun-Long Chen , Yuanliang Zhai , Yunzhou Dong , Huiqiang Lou
Frontiers in Cell and Developmental Biology, 2021, 9, ⟨10.3389/fcell.2021.778486⟩
Article dans une revue hal-03426812v1

From the chromatin interaction network to the organization of the human genome into replication N/U-domains

 Rasha E Boulos , Hanna Julienne , Antoine Baker , Chun-Long Chen , Nataliya Petryk , et al.
New Journal of Physics, 2014, 16 (11), pp.115014. ⟨10.1088/1367-2630/16/11/115014⟩
Article dans une revue cea-01120311v1

Genome-Wide Evolutionary Analysis of the Non-Coding RNA Genes and Non-Coding DNA of Paramecium tetraurelia.

 Chen C.L. , H. Zhou , Liao J.Y. , Qu L.H. , Laurence Amar
RNA, 2009, 15(4), pp.503-14
Article dans une revue hal-00413942v1
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APOBEC-mediated Mutagenesis as a Likely Cause of FGFR3 S249C Mutation Over-representation in Bladder Cancer

 Ming-Jun Shi , Xiang-Yu Meng , Philippe Lamy , A. Rouf Banday , Jie Yang , et al.
European Urology, 2019, 76 (1), pp.9-13. ⟨10.1016/j.eururo.2019.03.032⟩
Article dans une revue hal-02369388v1
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Genome-Wide Mapping of Human DNA Replication by Optical Replication Mapping Supports a Stochastic Model of Eukaryotic Replication

 Weitao Wang , Kyle Klein , Karel Proesmans , Hongbo Yang , Claire Marchal , et al.
2021
Pré-publication, Document de travail hal-03014247v1

Linking the DNA strand asymmetry to the spatio-temporal replication program II. Accounting for neighbor-dependent substitution rates

 A. Baker , C. L. Chen , H. Julienne , B. Audit , Y. d'Aubenton-Carafa , et al.
European Physical Journal E: Soft matter and biological physics, 2012, 35 (11), pp.12. ⟨10.1140/epje/i2012-12123-9⟩
Article dans une revue hal-01557084v1
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Prospectively defined patterns of APOBEC3A mutagenesis are prevalent in human cancers

 Rachel Deweerd , Eszter Németh , Ádám Póti , Nataliya Petryk , Chun-Long Chen , et al.
Cell Reports, 2022, 38 (12), pp.110555. ⟨10.1016/j.celrep.2022.110555⟩
Article dans une revue hal-03817515v1
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Replication landscape of the human genome

 Nataliya Petryk , Malik Kahli , Yves d'Aubenton-Carafa , Yan Jaszczyszyn , Yimin Shen , et al.
Nature Communications, 2016, 7, ⟨10.1038/ncomms10208⟩
Article dans une revue hal-01412672v1

The Chlamydomonas genome reveals the evolution of key animal and plant functions.

 Sabeeha S Merchant , Simon E Prochnik , Olivier Vallon , Elizabeth H Harris , Steven J Karpowicz , et al.
Science, 2007, 318 (5848), pp.245-50. ⟨10.1126/science.1143609⟩
Article dans une revue hal-00198837v1

Impact of replication timing on non-CpG and CpG substitution rates in mammalian genomes.

 Chun-Long Chen , Aurélien Rappailles , Lauranne Duquenne , Maxime Huvet , Guillaume Guilbaud , et al.
Genome Research, 2010, 20 (4), pp.447-57. ⟨10.1101/gr.098947.109⟩
Article dans une revue ensl-00517756v1
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Genome-wide measurement of DNA replication fork directionality and quantification of DNA replication initiation and termination with Okazaki fragment sequencing

 Xia Wu , Yaqun Liu , Yves D’aubenton-Carafa , Claude Thermes , Olivier Hyrien , et al.
Nature Protocols, 2023, 18 (4), pp.1260-1295. ⟨10.1038/s41596-022-00793-5⟩
Article dans une revue hal-04265334v1

Linking the DNA strand asymmetry to the spatio-temporal replication program I. About the role of the replication fork polarity in genome evolution

 A. Baker , H. Julienne , C. L. Chen , B. Audit , Y. d'Aubenton-Carafa , et al.
European Physical Journal E: Soft matter and biological physics, 2012, 35 (9), pp.25. ⟨10.1140/epje/i2012-12092-y⟩
Article dans une revue hal-01557082v1
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Transcription-mediated organization of the replication initiation program across large genes sets common fragile sites genome-wide

 Olivier Brison , Sami El-Hilali , Dana Azar , Stéphane Koundrioukoff , Mélanie Schmidt , et al.
Nature Communications, 2019, 10, pp.5693. ⟨10.1038/s41467-019-13674-5⟩
Article dans une revue hal-02430920v1

Replication-Associated Mutational Asymmetry in the Human Genome

 C. L. Chen , L. Duquenne , B. Audit , G. Guilbaud , A. Rappailles , et al.
Molecular Biology and Evolution, 2011, 28 (8), pp.2327-2337. ⟨10.1093/molbev/msr056⟩
Article dans une revue hal-01557088v1
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Genome-wide mapping of human DNA replication by optical replication mapping supports a stochastic model of eukaryotic replication

 Weitao Wang , Kyle N Klein , Karel Proesmans , Hongbo Yang , Claire Marchal , et al.
Molecular Cell, 2021, 81 (14), pp.2975 - 2988.e6. ⟨10.1016/j.molcel.2021.05.024⟩
Article dans une revue hal-03443178v1
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Topoisomerase I prevents transcription-replication conflicts at transcription termination sites

 Yaqun Liu , Yea-Lih Lin , Philippe Pasero , Chun-Long Chen
Molecular & Cellular Oncology, 2021, 8 (1), pp.e1843951-3. ⟨10.1080/23723556.2020.1843951⟩
Article dans une revue hal-03083175v1
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Replication fork polarity gradients revealed by megabase-sized U-shaped replication timing domains in human cell lines.

 Antoine Baker , Benjamin Audit , Chun-Long Chen , Benoit Moindrot , Antoine Leleu , et al.
PLoS Computational Biology, 2012, 8 (4), pp.e1002443. ⟨10.1371/journal.pcbi.1002443⟩
Article dans une revue inserm-00706043v1
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Mistimed origin licensing and activation stabilize common fragile sites under tight DNA-replication checkpoint activation

 Olivier Brison , Stefano Gnan , Dana Azar , Stéphane Koundrioukoff , Rodrigo Melendez Garcia , et al.
Nature Structural and Molecular Biology, 2023, ⟨10.1038/s41594-023-00949-1⟩
Article dans une revue hal-04070726v1

From Simple Bacterial and Archaeal Replicons to Replication N/U-Domains

 Olivier Hyrien , Aurélien Rappailles , Guillaume Guilbaud , Antoine Baker , Chun-Long Chen , et al.
Journal of Molecular Biology, 2013, 425 (23), pp.4673-4689. ⟨10.1016/j.jmb.2013.09.021⟩
Article dans une revue istex hal-01557075v1
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DNA transposons mediate duplications via transposition-independent and -dependent mechanisms in metazoans

 Shengjun Tan , Huijing Ma , Jinbo Wang , Man Wang , Mengxia Wang , et al.
Nature Communications, 2021, 12 (1), ⟨10.1038/s41467-021-24585-9⟩
Article dans une revue hal-03436190v1

The Chlamydomonas genome reveals the evolution of key animal and plant functions

 S.S. Merchant , S.E. Prochnik , O. Vallon , E.H. Harris , S.J. Karpowicz , et al.
Science, 2007, 318, pp.245-250
Article dans une revue hal-00188075v1
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