Cobolt: integrative analysis of multimodal single-cell sequencing data

A growing number of single-cell sequencing platforms enable joint profiling of multiple omics from the same cells. We present Cobolt, a novel method that not only allows for analyzing the data from joint-modality platforms, but provides a coherent framework for the integration of multiple datasets m...

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Detalles Bibliográficos
Autores principales: Gong, Boying, Zhou, Yun, Purdom, Elizabeth
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2021
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8715620/
https://www.ncbi.nlm.nih.gov/pubmed/34963480
http://dx.doi.org/10.1186/s13059-021-02556-z
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author Gong, Boying
Zhou, Yun
Purdom, Elizabeth
author_facet Gong, Boying
Zhou, Yun
Purdom, Elizabeth
author_sort Gong, Boying
collection PubMed
description A growing number of single-cell sequencing platforms enable joint profiling of multiple omics from the same cells. We present Cobolt, a novel method that not only allows for analyzing the data from joint-modality platforms, but provides a coherent framework for the integration of multiple datasets measured on different modalities. We demonstrate its performance on multi-modality data of gene expression and chromatin accessibility and illustrate the integration abilities of Cobolt by jointly analyzing this multi-modality data with single-cell RNA-seq and ATAC-seq datasets. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at (10.1186/s13059-021-02556-z).
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spelling pubmed-87156202022-01-05 Cobolt: integrative analysis of multimodal single-cell sequencing data Gong, Boying Zhou, Yun Purdom, Elizabeth Genome Biol Method A growing number of single-cell sequencing platforms enable joint profiling of multiple omics from the same cells. We present Cobolt, a novel method that not only allows for analyzing the data from joint-modality platforms, but provides a coherent framework for the integration of multiple datasets measured on different modalities. We demonstrate its performance on multi-modality data of gene expression and chromatin accessibility and illustrate the integration abilities of Cobolt by jointly analyzing this multi-modality data with single-cell RNA-seq and ATAC-seq datasets. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at (10.1186/s13059-021-02556-z). BioMed Central 2021-12-28 /pmc/articles/PMC8715620/ /pubmed/34963480 http://dx.doi.org/10.1186/s13059-021-02556-z Text en © The Author(s) 2021 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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Method
Gong, Boying
Zhou, Yun
Purdom, Elizabeth
Cobolt: integrative analysis of multimodal single-cell sequencing data
title Cobolt: integrative analysis of multimodal single-cell sequencing data
title_full Cobolt: integrative analysis of multimodal single-cell sequencing data
title_fullStr Cobolt: integrative analysis of multimodal single-cell sequencing data
title_full_unstemmed Cobolt: integrative analysis of multimodal single-cell sequencing data
title_short Cobolt: integrative analysis of multimodal single-cell sequencing data
title_sort cobolt: integrative analysis of multimodal single-cell sequencing data
topic Method
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8715620/
https://www.ncbi.nlm.nih.gov/pubmed/34963480
http://dx.doi.org/10.1186/s13059-021-02556-z
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AT zhouyun coboltintegrativeanalysisofmultimodalsinglecellsequencingdata
AT purdomelizabeth coboltintegrativeanalysisofmultimodalsinglecellsequencingdata

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