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Generation of gene-level resolution chromosome contact maps in bacteria and archaea

Chromosome conformation capture (Hi-C) has become a routine method for probing the 3D organization of genomes. However, when applied to bacteria and archaea, current protocols are expensive and limited in their resolution. By dissecting the different steps of published eukaryotic and prokaryotic Hi-...

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Detalles Bibliográficos
Autores principales: Cockram, Charlotte, Thierry, Agnès, Koszul, Romain
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8121701/
https://www.ncbi.nlm.nih.gov/pubmed/34027477
http://dx.doi.org/10.1016/j.xpro.2021.100512
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author Cockram, Charlotte
Thierry, Agnès
Koszul, Romain
author_facet Cockram, Charlotte
Thierry, Agnès
Koszul, Romain
author_sort Cockram, Charlotte
collection PubMed
description Chromosome conformation capture (Hi-C) has become a routine method for probing the 3D organization of genomes. However, when applied to bacteria and archaea, current protocols are expensive and limited in their resolution. By dissecting the different steps of published eukaryotic and prokaryotic Hi-C protocols, we have developed a cost- and time-effective approach to generate high-resolution (down to 500 bp – 1 kb) contact matrices of both bacteria and archaea genomes. For complete details on the use and execution of this protocol, please refer to Cockram et al. (2020).
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spelling pubmed-81217012021-05-20 Generation of gene-level resolution chromosome contact maps in bacteria and archaea Cockram, Charlotte Thierry, Agnès Koszul, Romain STAR Protoc Protocol Chromosome conformation capture (Hi-C) has become a routine method for probing the 3D organization of genomes. However, when applied to bacteria and archaea, current protocols are expensive and limited in their resolution. By dissecting the different steps of published eukaryotic and prokaryotic Hi-C protocols, we have developed a cost- and time-effective approach to generate high-resolution (down to 500 bp – 1 kb) contact matrices of both bacteria and archaea genomes. For complete details on the use and execution of this protocol, please refer to Cockram et al. (2020). Elsevier 2021-05-05 /pmc/articles/PMC8121701/ /pubmed/34027477 http://dx.doi.org/10.1016/j.xpro.2021.100512 Text en © 2021 The Author(s) https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Protocol
Cockram, Charlotte
Thierry, Agnès
Koszul, Romain
Generation of gene-level resolution chromosome contact maps in bacteria and archaea
title Generation of gene-level resolution chromosome contact maps in bacteria and archaea
title_full Generation of gene-level resolution chromosome contact maps in bacteria and archaea
title_fullStr Generation of gene-level resolution chromosome contact maps in bacteria and archaea
title_full_unstemmed Generation of gene-level resolution chromosome contact maps in bacteria and archaea
title_short Generation of gene-level resolution chromosome contact maps in bacteria and archaea
title_sort generation of gene-level resolution chromosome contact maps in bacteria and archaea
topic Protocol
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8121701/
https://www.ncbi.nlm.nih.gov/pubmed/34027477
http://dx.doi.org/10.1016/j.xpro.2021.100512
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