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FORK-seq: replication landscape of the Saccharomyces cerevisiae genome by nanopore sequencing

Magali Hennion , Jean-Michel Arbona , Laurent Lacroix , Corinne Cruaud , Bertrand Theulot , et al.
Genome Biology, 2020, 21, ⟨10.1186/s13059-020-02013-3⟩
Journal articles hal-03055281v1
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Human ORC/MCM density is low in active genes and correlates with replication time but does not delimit initiation zones

Nina Kirstein , Alexander Buschle , Xia Wu , Stefan Krebs , Helmut Blum , et al.
eLife, 2021, 10, ⟨10.7554/elife.62161⟩
Journal articles hal-03442948v1

Broadening of DNA replication origin usage during metazoan cell differentiation.

Sébastien Dazy , Olivier Gandrillon , Olivier Hyrien , Marie-Noëlle Prioleau
EMBO Reports, 2006, 7 (8), pp.806-11. ⟨10.1038/sj.embor.7400736⟩
Journal articles hal-00193779v1
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Organization of DNA replication origin firing in Xenopus egg extracts : the role of intra-S checkpoint

Diletta Ciardo , Olivier Haccard , Hemalatha Narassimprakash , Jean-Michel Arbona , Olivier Hyrien , et al.
2020
Preprints, Working Papers, ... hal-02990823v1
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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⟩
Journal articles hal-01412672v1
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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⟩
Journal articles hal-03817515v1

Dual Roles of Poly(dA:dT) Tracts in Replication Initiation and Fork Collapse

Andres Canela , Haiqing Fu , Christophe Redon , Steven C. Pruitt , Yan Jaszczyszyn , et al.
Cell, 2018, 174 (5), pp.1127--1142.e19. ⟨10.1016/j.cell.2018.07.011⟩
Journal articles hal-02184422v1

Organization of DNA replication origin firing in Xenopus egg extracts : the role of intra-S checkpoint

Olivier Hyrien , Diletta Ciardo , Olivier Haccard , Hemalatha Narassimprakash , Jean-Michel Arbona , et al.
2020
Preprints, Working Papers, ... hal-03052966v1

Mapping DNA replication with nanopore sequencing

Magali Hennion , Jean-Michel Arbona , Corinne Cruaud , Florence Proux , Benoît Le Tallec , et al.
Other publications hal-02410486v1

FORK-seq: single molecule profiling of DNA replication

Magali Hennion , Bertrand Theulot , Jean-Michel Arbona , B. Audit , Olivier Hyrien
Yeast functional genomics: Methods and Protocols, 2477, , pp.107-128, 2022, Methods in Molecular Biology
Book sections hal-03454731v1
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Genome-wide mapping of individual replication fork velocities using nanopore sequencing

Bertrand Theulot , Laurent Lacroix , Jean-Michel Arbona , Gael A Millot , Etienne Jean , et al.
Nature Communications, 2022, 13 (1), pp.3295. ⟨10.1038/s41467-022-31012-0⟩
Journal articles pasteur-03693859v1
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Broadening of DNA replication origin usage during metazoan cell differentiation.

Sébastien Dazy , Olivier Gandrillon , Olivier Hyrien , Marie-Noëlle Prioleau
EMBO Reports, 2006, 8, pp.806-811. ⟨10.1038/sj.embor.7400736⟩
Journal articles hal-00088647v1

Activation of stage-specific DNA replication origins during metazoan cell differentiation.

S. Dazy , O. Gandrillon , O. Hyrien , Prioleau M.N.
EMBO Reports, 2006, 7, pp.806-811
Journal articles hal-00124088v1

A simple and optimized method of producing silanized surfaces for FISH and replication mapping on combed DNA fibers.

H. Labit , Goldar a Guilbaud G , C. Douarche , O. Hyrien , K. Marheineke
Biotechniques, 2008, 45(6), pp.649-652, 654, 656-658
Journal articles hal-00406204v1
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DNA molecular combing-based replication fork directionality profiling

Marion Blin , Laurent Lacroix , Nataliya Petryk , Yan Jaszczyszyn , Chun-Long Chen , et al.
Nucleic Acids Research, 2021, ⟨10.1093/nar/gkab219⟩
Journal articles hal-03195930v1
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Multiscale analysis of genome-wide replication timing profiles using a wavelet-based signal-processing algorithm

Benjamin Audit , Antoine Baker , Chun-Long Chen , Aurélien Rappailles , Guillaume Guilbaud , et al.
Nature Protocols, 2013, 8 (1), pp.98-110. ⟨10.1038/nprot.2012.145⟩
Journal articles hal-01557077v1
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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⟩
Journal articles inserm-00691534v1

DNA replication timing is deterministic at the level of chromosomal domains but stochastic at the level of replicons in Xenopus egg extracts.

H. Labit , I. Perewoska , T. Germe , O. Hyrien , K. Marheineke
Nucleic Acids Research, 2008, in press
Journal articles hal-00333216v1

Topological analysis of plasmid DNA replication intermediates using two-dimensional agarose gels

O. Hyrien
Methods Mol. Biol., Springer, in press, 2008
Book sections hal-00333228v1

Proliferating human cells hypomorphic for Orc2 and pre-RC formation have a defect in p53 activation and CDK2 kinase activation.

Teezr Jk , Y. Machida , H. Labit , O. Novac , O. Hyrien , et al.
Journal of Biological Chemistry, 2006, 281(10), pp.6253-6260
Journal articles hal-00090747v1

FORK-seq: replication landscape of the Saccharomyces cerevisiae genome by nanopore sequencing

Magali Hennion , Jean-Michel Arbona , Laurent Lacroix , Corinne Cruaud , Bertrand Theulot , et al.
Genome Biology, 2020, 21, pp.125. ⟨10.1186/s13059-020-02013-3⟩
Journal articles hal-02979039v1

Universal temporal rate of DNA replication origin firing: A balance between origin activation and passivation

Jean-Michel Arbona , Arach Goldar , Olivier Hyrien , Alain Arneodo , B. Audit
2018
Preprints, Working Papers, ... hal-02410505v1

ATR/Chk1 pathway is essential for resumption of DNA synthesis and cell survival in UV-irradiated XP variant cells

Emmanuelle Despras , Fayza Daboussi , Olivier Hyrien , Kathrin Marheineke , Patricia Kannouche
Human Molecular Genetics, 2010, 19 (9), pp.1690-1701. ⟨10.1093/hmg/ddq046⟩
Journal articles hal-02963047v1
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Deciphering DNA replication dynamics in eukaryotic cell populations in relation with their averaged chromatin conformations OPEN

Arach Goldar , A. Arneodo , B. Audit , Françoise Argoul , A. Rappailles , et al.
Scientific Reports, 2016, 6 (22), pp.22469 (1-8). ⟨10.1038/srep22469⟩
Journal articles hal-01412574v1

Visualization of bidirectional initiation of chromosomal DNA replication in a human cell free system.

K. Marheineke , O. Hyrien , T. Krude
Nucleic Acids Research, 2005, 33(21), pp.6931-6941
Journal articles hal-00090741v1

A dynamic stochastic model for DNA replication initiation in early embryos

A. Goldar , H. Labit , K. Marheineke , O. Hyrien
PLoS ONE, 2008, pp.3(8):e2919
Journal articles hal-00333221v1

Use of DNA combing to study DNA replication in Xenopus and human cell-free systems

K. Marheineke , A. Goldar , T. Krude , O. Hyrien
Methods Mol. Biol., Springer, pp.521 : 575-603, 2009
Book sections hal-00333227v1

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⟩
Journal articles ensl-00517756v1

Reticulocyte and micronucleated reticulocyte responses to gamma irradiation: dose-response and time-course profiles measured by flow cytometry.

Dertinger Sd , Y. Tsai , I. Nowak , O. Hyrien , H. Sun , et al.
Mutation Research - Fundamental and Molecular Mechanisms of Mutagenesis, 2007, Jul 5, in press
Journal articles hal-00179051v1
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Neural network and kinetic modelling of human genome replication reveal replication origin locations and strengths

Jean-Michel Arbona , Hadi Kabalane , Arach Goldar , Olivier Hyrien , Benjamin Audit
2022
Preprints, Working Papers, ... hal-03817417v1