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Smc3 acetylation, Pds5 and Scc2 control the translocase activity that establishes cohesin-dependent chromatin loops

 Nathalie Bastié , Christophe Chapard , Lise Dauban , Olivier Gadal , Frederic Beckouet , et al.
Nature Structural and Molecular Biology, 2022, 29 (6), pp.575-585. ⟨10.1038/s41594-022-00780-0⟩
Article dans une revue hal-03697578v1

Effect of nuclear architecture on the efficiency of double-strand break repair

 Neta Agmon , Batia Liefshitz , Christophe Zimmer , Emmanuelle Fabre , Martin Kupiec
Nature Cell Biology, 2013, 15 (6), pp.694-699. ⟨10.1038/ncb2745⟩
Article dans une revue pasteur-02446715v1
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Scaffolding bacterial genomes and probing host-virus interactions in gut microbiome by proximity ligation (chromosome capture) assay

 Martial Marbouty , Lyam Baudry , Axel Cournac , Romain Koszul
Science Advances , 2017, 3 (2), pp.e1602105. ⟨10.1126/sciadv.1602105⟩
Article dans une revue pasteur-02866658v1
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3D genome reconstruction from chromosomal contacts

 Annick Lesne , Julien Riposo , Paul Roger , Axel Cournac , Julien Mozziconacci
Nature Methods, 2014, 11, pp.1141-1143. ⟨10.1038/NMETH.3104⟩
Article dans une revue hal-02324120v1
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Generating High-Resolution Hi-C Contact Maps of Bacteria

 Agnès Thierry , Charlotte Cockram
Hi-C Data Analysis, 2301, Springer US, pp.183-195, 2021, Methods in Molecular Biology, 978-1-0716-1390-0. ⟨10.1007/978-1-0716-1390-0_9⟩
Chapitre d'ouvrage pasteur-03686079v1
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High-throughput identification of viral termini and packaging mechanisms in virome datasets using PhageTermVirome

 Julian R. Garneau , Véronique Legrand , Martial Marbouty , Maximilian O. Press , Dean R. Vik , et al.
Scientific Reports, 2021, 11 (1), pp.18319. ⟨10.1038/s41598-021-97867-3⟩
Article dans une revue pasteur-03369740v1
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Genome-wide chromatin and expression datasets of various pathogenic ascomycetes

 Sébastien Bloyer , Romain Koszul
2022, pp.100014. ⟨10.24072/pci.genomics.100014⟩
Autre publication scientifique hal-03722802v1

Multiscale Structuring of the E. coli Chromosome by Nucleoid-Associated and Condensin Proteins

 Virginia S. Lioy , Axel Cournac , Martial Marbouty , Stéphane Duigou , Julien Mozziconacci , et al.
Cell, 2018, 172 (4), pp.771--783.e18. ⟨10.1016/j.cell.2017.12.027⟩
Article dans une revue hal-02180787v1
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Filling the gap: Micro-C accesses the nucleosomal fiber at 100-1000 bp resolution.

 Julien Mozziconacci , Romain Koszul
Genome Biology, 2015, 16 (1), pp.169. ⟨10.1186/s13059-015-0744-8⟩
Article dans une revue pasteur-01420328v1
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Chromosome-level genome assembly reveals homologous chromosomes and recombination in asexual rotifer Adineta vaga

 Paul Simion , Jitendra Narayan , Antoine Houtain , Alessandro Derzelle , Lyam Baudry , et al.
Science Advances , 2021, 7 (41), pp.eabg4216. ⟨10.1126/sciadv.abg4216⟩
Article dans une revue hal-03406292v1
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Tridimensional infiltration of DNA viruses into the host genome shows preferential contact with active chromatin

 Pierrick Moreau , Axel Cournac , Gianna Aurora Palumbo , Martial Marbouty , Shogofa Mortaza , et al.
Nature Communications, 2018, 9 (1), pp.4268. ⟨10.1038/s41467-018-06739-4⟩
Article dans une revue pasteur-02866759v1
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Crosstalk between Hepatitis B Virus and the 3D Genome Structure

 João Diogo Dias , Nazim Sarica , Axel Cournac , Romain Koszul , Christine Neuveut
Viruses, 2022, 14 (2), pp.445. ⟨10.3390/v14020445⟩
Article dans une revue pasteur-03689314v1
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Sir3 mediates long-range chromosome interactions in budding yeast

 Myriam Ruault , Vittore F Scolari , Luciana Lazar-Stefanita , Antoine Hocher , Isabelle Loïodice , et al.
Genome Research, 2021, 31 (3), pp.411-425. ⟨10.1101/gr.267872.120⟩
Article dans une revue hal-03169421v1
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Tethering of molecular parasites on inactive chromatin in eukaryote nucleus

 Fabien Girard
Genomics [q-bio.GN]. Sorbonne Université, 2023. English. ⟨NNT : 2023SORUS661⟩
Thèse tel-04524712v1
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MetaHiC phage-bacteria infection network reveals active cycling phages of the healthy human gut

 Martial Marbouty , Agnès Thierry , Gael A. Millot , Romain Koszul
eLife, 2021, 10, pp.e60608. ⟨10.7554/eLife.60608⟩
Article dans une revue pasteur-03369735v1
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Purification of G1 daughter cells from different Saccharomycetes species through an optimized centrifugal elutriation procedure.

 Martial Marbouty , Caroline Ermont , Bernard Dujon , Guy-Franck Richard , Romain Koszul
Yeast, 2014, 31 (5), pp.159-166. ⟨10.1002/yea.3005⟩
Article dans une revue pasteur-01420008v1
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A predictive computational model of the dynamic 3D interphase yeast nucleus.

 Hua Wong , Hervé Marie-Nelly , Sébastien Herbert , Pascal Carrivain , Hervé Blanc , et al.
Current Biology - CB, 2012, 22 (20), pp.1881-1890. ⟨10.1016/j.cub.2012.07.069⟩
Article dans une revue pasteur-01420017v1
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Investigating chromosome dynamics through Hi-C assembly

 Lyam Baudry
Quantitative Methods [q-bio.QM]. Sorbonne Université, 2019. English. ⟨NNT : 2019SORUS026⟩
Thèse tel-02935877v1
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Chromosomal resolution reveals symbiotic virus colonization of parasitic wasp genomes

 Jérémy Gauthier , Hélène Boulain , Joke J.F.A. van Vugt , Lyam Baudry , Emma Persyn , et al.
2020
Pré-publication, Document de travail hal-03090838v1

Cohesin regulates homology search during recombinational DNA repair

 Aurèle Piazza , Hélène Bordelet , Agnès Dumont , Agnès Thierry , Jérôme Savocco , et al.
Nature Cell Biology, 2021, 23 (11), pp.1176-1186. ⟨10.1038/s41556-021-00783-x⟩
Article dans une revue hal-03427219v1
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Absence of chromosome axis proteins recruitment prevents meiotic recombination chromosome-wide in the budding yeast Lachancea kluyveri

 Sylvain Legrand , Asma Saifudeen , Hélène Bordelet , Julien Vernerey , Arnaud Guille , et al.
2023
Pré-publication, Document de travail hal-04300727v1
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The 3D folding of metazoan genomes correlates with the association of similar repetitive elements

 Axel Cournac , Romain Koszul , Julien Mozziconacci
Nucleic Acids Research, 2016, 44 (1), pp.245-255. ⟨10.1093/nar/gkv1292⟩
Article dans une revue hal-01294687v1
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Chromosome organization by a conserved condensin-ParB system in the actinobacterium Corynebacterium glutamicum

 Kati Böhm , Giacomo Giacomelli , Andreas U. Schmidt , Axel Imhof , Romain Koszul , et al.
Nature Communications, 2020, 11 (1), pp.1485. ⟨10.1038/s41467-020-15238-4⟩
Article dans une revue pasteur-02612484v1
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Serpentine: a flexible 2D binning method for differential Hi-C analysis

 Lyam Baudry , Gaël A Millot , Agnès Thierry , Romain Koszul , Vittore F Scolari
Bioinformatics, 2020, ⟨10.1093/bioinformatics/btaa249⟩
Article dans une revue pasteur-02612482v1
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Serological signatures of SARS-CoV-2 infection: Implications for antibody-based diagnostics

 Jason Rosado , Stéphane Pelleau , Charlotte Cockram , Sarah Hélène Merkling , Narimane Nekkab , et al.
2020
Pré-publication, Document de travail pasteur-02569149v2
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Euryarchaeal genomes are folded into SMC-dependent loops and domains, but lack transcription-mediated compartmentalization

 Charlotte Cockram , Agnès Thierry , Aurore Gorlas , Roxane Lestini , Romain Koszul
Molecular Cell, 2021, 81 (3), pp.459-472.e10. ⟨10.1016/j.molcel.2020.12.013⟩
Article dans une revue hal-03379787v1
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Extended sister-chromosome catenation leads to massive reorganization of the E. coli genome

 Brenna Conin , Ingrid Billault-Chaumartin , Hafez El Sayyed , Nicole Quenech'Du , Charlotte Cockram , et al.
Nucleic Acids Research, 2022, 50 (5), pp.2635-2650. ⟨10.1093/nar/gkac105⟩
Article dans une revue pasteur-03689317v1
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Karyotype engineering reveals spatio-temporal control of replication firing and gene contacts

 Luciana Lazar-Stefanita , Jingchuan Luo , Remi Montagne , Agnes Thierry , Xiaoji Sun , et al.
Cell Genomics, 2022, 2 (8), pp.100163. ⟨10.1016/j.xgen.2022.100163⟩
Article dans une revue hal-03930009v1
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Chromosome folding and prophage activation reveal specific genomic architecture for intestinal bacteria

 Quentin Lamy-Besnier , Amaury Bignaud , Julian R Garneau , Marie Titecat , Devon E Conti , et al.
Microbiome, 2023, 11 (1), pp.111. ⟨10.1186/s40168-023-01541-x⟩
Article dans une revue pasteur-04158849v1

Metagenomes Binning Using Proximity-Ligation Data

 Martial Marbouty , Romain Koszul
Hi-C Data Analysis, 2301, Springer US, pp.163-181, 2021, Methods in Molecular Biology, ⟨10.1007/978-1-0716-1390-0_8⟩
Chapitre d'ouvrage pasteur-03369745v1
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