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Single-cell entropy for accurate estimation of differentiation potency from a cell's transcriptome

The ability to quantify differentiation potential of single cells is a task of critical importance. Here we demonstrate, using over 7,000 single-cell RNA-Seq profiles, that differentiation potency of a single cell can be approximated by computing the signalling promiscuity, or entropy, of a cell...

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Autores principales: Teschendorff, Andrew E., Enver, Tariq
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5461595/
https://www.ncbi.nlm.nih.gov/pubmed/28569836
http://dx.doi.org/10.1038/ncomms15599
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author Teschendorff, Andrew E.
Enver, Tariq
author_facet Teschendorff, Andrew E.
Enver, Tariq
author_sort Teschendorff, Andrew E.
collection PubMed
description The ability to quantify differentiation potential of single cells is a task of critical importance. Here we demonstrate, using over 7,000 single-cell RNA-Seq profiles, that differentiation potency of a single cell can be approximated by computing the signalling promiscuity, or entropy, of a cell's transcriptome in the context of an interaction network, without the need for feature selection. We show that signalling entropy provides a more accurate and robust potency estimate than other entropy-based measures, driven in part by a subtle positive correlation between the transcriptome and connectome. Signalling entropy identifies known cell subpopulations of varying potency and drug resistant cancer stem-cell phenotypes, including those derived from circulating tumour cells. It further reveals that expression heterogeneity within single-cell populations is regulated. In summary, signalling entropy allows in silico estimation of the differentiation potency and plasticity of single cells and bulk samples, providing a means to identify normal and cancer stem-cell phenotypes.
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spelling pubmed-54615952017-06-13 Single-cell entropy for accurate estimation of differentiation potency from a cell's transcriptome Teschendorff, Andrew E. Enver, Tariq Nat Commun Article The ability to quantify differentiation potential of single cells is a task of critical importance. Here we demonstrate, using over 7,000 single-cell RNA-Seq profiles, that differentiation potency of a single cell can be approximated by computing the signalling promiscuity, or entropy, of a cell's transcriptome in the context of an interaction network, without the need for feature selection. We show that signalling entropy provides a more accurate and robust potency estimate than other entropy-based measures, driven in part by a subtle positive correlation between the transcriptome and connectome. Signalling entropy identifies known cell subpopulations of varying potency and drug resistant cancer stem-cell phenotypes, including those derived from circulating tumour cells. It further reveals that expression heterogeneity within single-cell populations is regulated. In summary, signalling entropy allows in silico estimation of the differentiation potency and plasticity of single cells and bulk samples, providing a means to identify normal and cancer stem-cell phenotypes. Nature Publishing Group 2017-06-01 /pmc/articles/PMC5461595/ /pubmed/28569836 http://dx.doi.org/10.1038/ncomms15599 Text en Copyright © 2017, The Author(s) http://creativecommons.org/licenses/by/4.0/ This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article's Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/
spellingShingle Article
Teschendorff, Andrew E.
Enver, Tariq
Single-cell entropy for accurate estimation of differentiation potency from a cell's transcriptome
title Single-cell entropy for accurate estimation of differentiation potency from a cell's transcriptome
title_full Single-cell entropy for accurate estimation of differentiation potency from a cell's transcriptome
title_fullStr Single-cell entropy for accurate estimation of differentiation potency from a cell's transcriptome
title_full_unstemmed Single-cell entropy for accurate estimation of differentiation potency from a cell's transcriptome
title_short Single-cell entropy for accurate estimation of differentiation potency from a cell's transcriptome
title_sort single-cell entropy for accurate estimation of differentiation potency from a cell's transcriptome
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5461595/
https://www.ncbi.nlm.nih.gov/pubmed/28569836
http://dx.doi.org/10.1038/ncomms15599
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