A human cell atlas of fetal chromatin accessibility DOI
Silvia Domcke, Andrew J. Hill, Riza M. Daza

et al.

Science, Journal Year: 2020, Volume and Issue: 370(6518)

Published: Nov. 13, 2020

The genomics of human development Understanding the trajectory a developing requires an understanding how genes are regulated and expressed. Two papers now present pooled approach using three levels combinatorial indexing to examine single-cell gene expression chromatin landscapes from 15 organs in fetal samples. Cao et al. focus on measurements RNA broadly distributed cell types provide insights into organ specificity. Domcke examined accessibility cells these identify regulatory elements that regulate expression. Together, analyses generate comprehensive atlases early development. Science , this issue p. eaba7721 eaba7612

Language: Английский

Combining epigenetic drugs with other therapies for solid tumours — past lessons and future promise DOI
Daphné Morel, Daniel Jeffery, Sandrine Aspeslagh

et al.

Nature Reviews Clinical Oncology, Journal Year: 2019, Volume and Issue: 17(2), P. 91 - 107

Published: Sept. 30, 2019

Language: Английский

Citations

389
From reads to insight: a hitchhiker’s guide to ATAC-seq data analysis DOI Creative Commons
Feng Yan, David Powell, David J. Curtis

et al.

Genome biology, Journal Year: 2020, Volume and Issue: 21(1)

Published: Feb. 3, 2020

Abstract Assay of Transposase Accessible Chromatin sequencing (ATAC-seq) is widely used in studying chromatin biology, but a comprehensive review the analysis tools has not been completed yet. Here, we discuss major steps ATAC-seq data analysis, including pre-analysis (quality check and alignment), core (peak calling), advanced differential annotation, motif enrichment, footprinting, nucleosome position analysis). We also reconstruction transcriptional regulatory networks with multiomics highlight current challenges each step. Finally, describe potential single-cell necessity developing specific to obtain biologically meaningful insights.

Language: Английский

Citations

374
Scalable, multimodal profiling of chromatin accessibility, gene expression and protein levels in single cells DOI
Eleni P. Mimitou, Caleb A. Lareau, Kelvin Y. Chen

et al.

Nature Biotechnology, Journal Year: 2021, Volume and Issue: 39(10), P. 1246 - 1258

Published: June 3, 2021

Language: Английский

Citations

372
Treatment-Induced Tumor Dormancy through YAP-Mediated Transcriptional Reprogramming of the Apoptotic Pathway DOI Creative Commons
Kari J. Kurppa, Yao Liu, Ciric To

et al.

Cancer Cell, Journal Year: 2020, Volume and Issue: 37(1), P. 104 - 122.e12

Published: Jan. 1, 2020

Language: Английский

Citations

369
A human cell atlas of fetal chromatin accessibility DOI
Silvia Domcke, Andrew J. Hill, Riza M. Daza

et al.

Science, Journal Year: 2020, Volume and Issue: 370(6518)

Published: Nov. 13, 2020

The genomics of human development Understanding the trajectory a developing requires an understanding how genes are regulated and expressed. Two papers now present pooled approach using three levels combinatorial indexing to examine single-cell gene expression chromatin landscapes from 15 organs in fetal samples. Cao et al. focus on measurements RNA broadly distributed cell types provide insights into organ specificity. Domcke examined accessibility cells these identify regulatory elements that regulate expression. Together, analyses generate comprehensive atlases early development. Science , this issue p. eaba7721 eaba7612

Language: Английский

Citations

360