Literature DB >> 28983045

Single-cell epigenomics: Recording the past and predicting the future.

Gavin Kelsey1,2, Oliver Stegle3,4, Wolf Reik1,2,5.   

Abstract

Single-cell multi-omics has recently emerged as a powerful technology by which different layers of genomic output-and hence cell identity and function-can be recorded simultaneously. Integrating various components of the epigenome into multi-omics measurements allows for studying cellular heterogeneity at different time scales and for discovering new layers of molecular connectivity between the genome and its functional output. Measurements that are increasingly available range from those that identify transcription factor occupancy and initiation of transcription to long-lasting and heritable epigenetic marks such as DNA methylation. Together with techniques in which cell lineage is recorded, this multilayered information will provide insights into a cell's past history and its future potential. This will allow new levels of understanding of cell fate decisions, identity, and function in normal development, physiology, and disease.
Copyright © 2017, American Association for the Advancement of Science.

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Year:  2017        PMID: 28983045     DOI: 10.1126/science.aan6826

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  115 in total

1.  Genomic Tools for Environmental Epigenetics and Implications for Public Health.

Authors:  Bambarendage P U Perera; Laurie Svoboda; Dana C Dolinoy
Journal:  Curr Opin Toxicol       Date:  2019-03-08

Review 2.  The Pediatric Cell Atlas: Defining the Growth Phase of Human Development at Single-Cell Resolution.

Authors:  Deanne M Taylor; Bruce J Aronow; Kai Tan; Kathrin Bernt; Nathan Salomonis; Casey S Greene; Alina Frolova; Sarah E Henrickson; Andrew Wells; Liming Pei; Jyoti K Jaiswal; Jeffrey Whitsett; Kathryn E Hamilton; Sonya A MacParland; Judith Kelsen; Robert O Heuckeroth; S Steven Potter; Laura A Vella; Natalie A Terry; Louis R Ghanem; Benjamin C Kennedy; Ingo Helbig; Kathleen E Sullivan; Leslie Castelo-Soccio; Arnold Kreigstein; Florian Herse; Martijn C Nawijn; Gerard H Koppelman; Melissa Haendel; Nomi L Harris; Jo Lynne Rokita; Yuanchao Zhang; Aviv Regev; Orit Rozenblatt-Rosen; Jennifer E Rood; Timothy L Tickle; Roser Vento-Tormo; Saif Alimohamed; Monkol Lek; Jessica C Mar; Kathleen M Loomes; David M Barrett; Prech Uapinyoying; Alan H Beggs; Pankaj B Agrawal; Yi-Wen Chen; Amanda B Muir; Lana X Garmire; Scott B Snapper; Javad Nazarian; Steven H Seeholzer; Hossein Fazelinia; Larry N Singh; Robert B Faryabi; Pichai Raman; Noor Dawany; Hongbo Michael Xie; Batsal Devkota; Sharon J Diskin; Stewart A Anderson; Eric F Rappaport; William Peranteau; Kathryn A Wikenheiser-Brokamp; Sarah Teichmann; Douglas Wallace; Tao Peng; Yang-Yang Ding; Man S Kim; Yi Xing; Sek Won Kong; Carsten G Bönnemann; Kenneth D Mandl; Peter S White
Journal:  Dev Cell       Date:  2019-03-28       Impact factor: 12.270

3.  Integrated Single-Cell Analysis Maps the Continuous Regulatory Landscape of Human Hematopoietic Differentiation.

Authors:  Jason D Buenrostro; M Ryan Corces; Caleb A Lareau; Beijing Wu; Alicia N Schep; Martin J Aryee; Ravindra Majeti; Howard Y Chang; William J Greenleaf
Journal:  Cell       Date:  2018-04-26       Impact factor: 41.582

4.  Comprehensive Integration of Single-Cell Data.

Authors:  Tim Stuart; Andrew Butler; Paul Hoffman; Christoph Hafemeister; Efthymia Papalexi; William M Mauck; Yuhan Hao; Marlon Stoeckius; Peter Smibert; Rahul Satija
Journal:  Cell       Date:  2019-06-06       Impact factor: 41.582

Review 5.  A periodic table of cell types.

Authors:  Bo Xia; Itai Yanai
Journal:  Development       Date:  2019-06-27       Impact factor: 6.868

Review 6.  Epigenetic reprogramming of immune cells in injury, repair, and resolution.

Authors:  Katarzyna Placek; Joachim L Schultze; Anna C Aschenbrenner
Journal:  J Clin Invest       Date:  2019-07-22       Impact factor: 14.808

7.  Single-cell joint detection of chromatin occupancy and transcriptome enables higher-dimensional epigenomic reconstructions.

Authors:  Haiqing Xiong; Yingjie Luo; Qianhao Wang; Xianhong Yu; Aibin He
Journal:  Nat Methods       Date:  2021-05-06       Impact factor: 28.547

8.  Emerging techniques in single-cell epigenomics and their applications to cancer research.

Authors:  Pang-Kuo Lo; Qun Zhou
Journal:  J Clin Genom       Date:  2018-03-05

9.  Large-scale reconstruction of cell lineages using single-cell readout of transcriptomes and CRISPR-Cas9 barcodes by scGESTALT.

Authors:  Bushra Raj; James A Gagnon; Alexander F Schier
Journal:  Nat Protoc       Date:  2018-11       Impact factor: 13.491

10.  Deep-joint-learning analysis model of single cell transcriptome and open chromatin accessibility data.

Authors:  Chunman Zuo; Luonan Chen
Journal:  Brief Bioinform       Date:  2021-07-20       Impact factor: 11.622

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