Single-cell lineage tracing by integrating CRISPR-Cas9 mutations with transcriptomic data

Lineage tracing studies combining CRISPR-Cas9 editing and scRNA-seq face several challenges and cannot integrate lineages from multiple individuals. Here the authors show that integration of mutation and expression leads to accurate lineage tree inference and enables the learning of a species-invari...

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Main Authors:	Hamim Zafar, Chieh Lin, Ziv Bar-Joseph
Format:	Article
Language:	English
Published:	Nature Publishing Group 2020-06-01
Series:	Nature Communications
Online Access:	https://doi.org/10.1038/s41467-020-16821-5

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spelling	doaj-daaf125f03e44badb4ee8cf03dfa5e8f2021-06-20T11:13:55ZengNature Publishing GroupNature Communications2041-17232020-06-0111111410.1038/s41467-020-16821-5Single-cell lineage tracing by integrating CRISPR-Cas9 mutations with transcriptomic dataHamim Zafar0Chieh Lin1Ziv Bar-Joseph2Department of Computer Science and Engineering, Indian Institute of Technology KanpurMachine Learning Department, School of Computer Science, Carnegie Mellon UniversityComputational Biology Department, School of Computer Science, Carnegie Mellon UniversityLineage tracing studies combining CRISPR-Cas9 editing and scRNA-seq face several challenges and cannot integrate lineages from multiple individuals. Here the authors show that integration of mutation and expression leads to accurate lineage tree inference and enables the learning of a species-invariant lineage tree.https://doi.org/10.1038/s41467-020-16821-5
collection	DOAJ
language	English
format	Article
sources	DOAJ
author	Hamim Zafar Chieh Lin Ziv Bar-Joseph
spellingShingle	Hamim Zafar Chieh Lin Ziv Bar-Joseph Single-cell lineage tracing by integrating CRISPR-Cas9 mutations with transcriptomic data Nature Communications
author_facet	Hamim Zafar Chieh Lin Ziv Bar-Joseph
author_sort	Hamim Zafar
title	Single-cell lineage tracing by integrating CRISPR-Cas9 mutations with transcriptomic data
title_short	Single-cell lineage tracing by integrating CRISPR-Cas9 mutations with transcriptomic data
title_full	Single-cell lineage tracing by integrating CRISPR-Cas9 mutations with transcriptomic data
title_fullStr	Single-cell lineage tracing by integrating CRISPR-Cas9 mutations with transcriptomic data
title_full_unstemmed	Single-cell lineage tracing by integrating CRISPR-Cas9 mutations with transcriptomic data
title_sort	single-cell lineage tracing by integrating crispr-cas9 mutations with transcriptomic data
publisher	Nature Publishing Group
series	Nature Communications
issn	2041-1723
publishDate	2020-06-01
description	Lineage tracing studies combining CRISPR-Cas9 editing and scRNA-seq face several challenges and cannot integrate lineages from multiple individuals. Here the authors show that integration of mutation and expression leads to accurate lineage tree inference and enables the learning of a species-invariant lineage tree.
url	https://doi.org/10.1038/s41467-020-16821-5
work_keys_str_mv	AT hamimzafar singlecelllineagetracingbyintegratingcrisprcas9mutationswithtranscriptomicdata AT chiehlin singlecelllineagetracingbyintegratingcrisprcas9mutationswithtranscriptomicdata AT zivbarjoseph singlecelllineagetracingbyintegratingcrisprcas9mutationswithtranscriptomicdata
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Single-cell lineage tracing by integrating CRISPR-Cas9 mutations with transcriptomic data

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