Solid-phase capture and profiling of open chromatin by spatial ATAC

Current methods for epigenomic profiling are limited in their ability to obtain genome-wide information with spatial resolution. We introduce spatial ATAC, a method that integrates transposase-accessible chromatin profiling in tissue sections with barcoded solid-phase capture to perform spatially re...

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Autores principales: Llorens-Bobadilla, Enric, Zamboni, Margherita, Marklund, Maja, Bhalla, Nayanika, Chen, Xinsong, Hartman, Johan, Frisén, Jonas, Ståhl, Patrik L.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group US 2023
Materias:
Brief Communication
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10421738/
https://www.ncbi.nlm.nih.gov/pubmed/36604544
http://dx.doi.org/10.1038/s41587-022-01603-9
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author Llorens-Bobadilla, Enric
Zamboni, Margherita
Marklund, Maja
Bhalla, Nayanika
Chen, Xinsong
Hartman, Johan
Frisén, Jonas
Ståhl, Patrik L.
author_facet Llorens-Bobadilla, Enric
Zamboni, Margherita
Marklund, Maja
Bhalla, Nayanika
Chen, Xinsong
Hartman, Johan
Frisén, Jonas
Ståhl, Patrik L.
author_sort Llorens-Bobadilla, Enric
collection PubMed
description Current methods for epigenomic profiling are limited in their ability to obtain genome-wide information with spatial resolution. We introduce spatial ATAC, a method that integrates transposase-accessible chromatin profiling in tissue sections with barcoded solid-phase capture to perform spatially resolved epigenomics. We show that spatial ATAC enables the discovery of the regulatory programs underlying spatial gene expression during mouse organogenesis, lineage differentiation and in human pathology.
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spelling pubmed-104217382023-08-13 Solid-phase capture and profiling of open chromatin by spatial ATAC Llorens-Bobadilla, Enric Zamboni, Margherita Marklund, Maja Bhalla, Nayanika Chen, Xinsong Hartman, Johan Frisén, Jonas Ståhl, Patrik L. Nat Biotechnol Brief Communication Current methods for epigenomic profiling are limited in their ability to obtain genome-wide information with spatial resolution. We introduce spatial ATAC, a method that integrates transposase-accessible chromatin profiling in tissue sections with barcoded solid-phase capture to perform spatially resolved epigenomics. We show that spatial ATAC enables the discovery of the regulatory programs underlying spatial gene expression during mouse organogenesis, lineage differentiation and in human pathology. Nature Publishing Group US 2023-01-05 2023 /pmc/articles/PMC10421738/ /pubmed/36604544 http://dx.doi.org/10.1038/s41587-022-01603-9 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Brief Communication
Llorens-Bobadilla, Enric
Zamboni, Margherita
Marklund, Maja
Bhalla, Nayanika
Chen, Xinsong
Hartman, Johan
Frisén, Jonas
Ståhl, Patrik L.
Solid-phase capture and profiling of open chromatin by spatial ATAC
title Solid-phase capture and profiling of open chromatin by spatial ATAC
title_full Solid-phase capture and profiling of open chromatin by spatial ATAC
title_fullStr Solid-phase capture and profiling of open chromatin by spatial ATAC
title_full_unstemmed Solid-phase capture and profiling of open chromatin by spatial ATAC
title_short Solid-phase capture and profiling of open chromatin by spatial ATAC
title_sort solid-phase capture and profiling of open chromatin by spatial atac
topic Brief Communication
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10421738/
https://www.ncbi.nlm.nih.gov/pubmed/36604544
http://dx.doi.org/10.1038/s41587-022-01603-9
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