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pro vyhledávání: '"Jean-Michel Arbona"'
DNA replication stands as one of the fundamental biological processes crucial for cellular functioning. Recent experimental developments enable the study of replication dynamics at the single-molecule level for complete genomes, facilitating a deeper
Externí odkaz:
http://arxiv.org/abs/2404.00824
Publikováno v:
Physical Review X, Vol 14, Iss 4, p 041020 (2024)
In eukaryotes, DNA replication constitutes a complex process whereby multiple origins are stochastically fired, and from which the replication machinery proceeds along chromosomes to achieve the faithful synthesis of two identical copies of the genom
Externí odkaz:
https://doaj.org/article/b10e1ebbd161459f91306e485cefa8a8
Autor:
Bertrand Theulot, Laurent Lacroix, Jean-Michel Arbona, Gael A. Millot, Etienne Jean, Corinne Cruaud, Jade Pellet, Florence Proux, Magali Hennion, Stefan Engelen, Arnaud Lemainque, Benjamin Audit, Olivier Hyrien, Benoît Le Tallec
Publikováno v:
Nature Communications, Vol 13, Iss 1, Pp 1-14 (2022)
Theulot et al. introduce NanoForkSpeed, a nanopore sequencing-based method to map individual replication fork velocities on entire genomes. NFS shows that fork speed is uniform across yeast chromosomes except for a marked slowdown at pausing sites.
Externí odkaz:
https://doaj.org/article/b8e2f80d57284f0b8386e98104ca5aad
Autor:
Magali Hennion, Jean-Michel Arbona, Laurent Lacroix, Corinne Cruaud, Bertrand Theulot, Benoît Le Tallec, Florence Proux, Xia Wu, Elizaveta Novikova, Stefan Engelen, Arnaud Lemainque, Benjamin Audit, Olivier Hyrien
Publikováno v:
Genome Biology, Vol 21, Iss 1, Pp 1-25 (2020)
Abstract Genome replication mapping methods profile cell populations, masking cell-to-cell heterogeneity. Here, we describe FORK-seq, a nanopore sequencing method to map replication of single DNA molecules at 200-nucleotide resolution. By quantifying
Externí odkaz:
https://doaj.org/article/207b69b66bc4499fb532f23fff185faf
The continuous sparse coding aims to improve the estimation accuracy by avoiding discretization of the parameter set. In this context, Sliding Frank-Wolfe algorithm has been successfully applied on deconvolution problems when the dictionary involves
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=od______3393::d9c5bcc58566601716b38e1c4a1429bc
https://hal.science/hal-04146737/document
https://hal.science/hal-04146737/document
Publikováno v:
Genome Biology, Vol 18, Iss 1, Pp 1-15 (2017)
Abstract Background The structure and mechanical properties of chromatin impact DNA functions and nuclear architecture but remain poorly understood. In budding yeast, a simple polymer model with minimal sequence-specific constraints and a small numbe
Externí odkaz:
https://doaj.org/article/f7357732354b4a909d56de214e3bb49f
Publikováno v:
eLife, Vol 7 (2018)
The time-dependent rate [Formula: see text] of origin firing per length of unreplicated DNA presents a universal bell shape in eukaryotes that has been interpreted as the result of a complex time-evolving interaction between origins and limiting firi
Externí odkaz:
https://doaj.org/article/3c251189e5da4515b9c1ff99bf76398f
Autor:
Jean-Michel Arbona, Hadi Kabalane, Jeremy Barbier, Arach Goldar, Olivier Hyrien, Benjamin Audit
Publikováno v:
PLoS Computational Biology
PLoS Computational Biology, 2023, 19 (5), pp.e1011138. ⟨10.1371/journal.pcbi.1011138⟩
PLoS Computational Biology, 2023, 19 (5), pp.e1011138. ⟨10.1371/journal.pcbi.1011138⟩
In human and other metazoans, the determinants of replication origin location and strength are still elusive. Origins are licensed in G1 phase and fired in S phase of the cell cycle, respectively. It is debated which of these two temporally separate
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f5d97bd8a970e8ad76a6bce0c475906a
https://hal.science/hal-03764550
https://hal.science/hal-03764550
Publikováno v:
Methods in molecular biology (Clifton, N.J.). 2477
Most genome replication mapping methods profile cell populations, masking cell-to-cell heterogeneity. Here, we describe FORK-seq, a nanopore sequencing method to map replication of single DNA molecules at 200 nucleotide resolution using a nanopore cu
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=pmid________::87726d905e3327a774528fa8a153a6bb
https://pubmed.ncbi.nlm.nih.gov/35524115
https://pubmed.ncbi.nlm.nih.gov/35524115
Publikováno v:
Methods in Molecular Biology ISBN: 9781071622568
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::cdd284ae1b3f6cc7c91842112708fa89
https://doi.org/10.1007/978-1-0716-2257-5_8
https://doi.org/10.1007/978-1-0716-2257-5_8