Global reorganisation of cis-regulatory units upon lineage commitment of human embryonic stem cells

Research output: Contribution to journalArticlepeer-review

Standard

Global reorganisation of cis-regulatory units upon lineage commitment of human embryonic stem cells. / Freire-Pritchett, Paula; Schoenfelder, Stefan; Varnai, Csilla; Wingett, Steven W; Cairns, Jonathan; Collier, Amanda J; Garcia-Vilchez, Raquel; Furlan-Magaril, Mayra; Osborne, Cameron S; Fraser, Peter; Rugg-Gunn, Peter J; Spivakov, Mikhail.

In: eLife, Vol. 6, e21926, 23.03.2017.

Research output: Contribution to journalArticlepeer-review

Harvard

Freire-Pritchett, P, Schoenfelder, S, Varnai, C, Wingett, SW, Cairns, J, Collier, AJ, Garcia-Vilchez, R, Furlan-Magaril, M, Osborne, CS, Fraser, P, Rugg-Gunn, PJ & Spivakov, M 2017, 'Global reorganisation of cis-regulatory units upon lineage commitment of human embryonic stem cells', eLife, vol. 6, e21926. https://doi.org/10.7554/elife.21926

APA

Freire-Pritchett, P., Schoenfelder, S., Varnai, C., Wingett, S. W., Cairns, J., Collier, A. J., Garcia-Vilchez, R., Furlan-Magaril, M., Osborne, C. S., Fraser, P., Rugg-Gunn, P. J., & Spivakov, M. (2017). Global reorganisation of cis-regulatory units upon lineage commitment of human embryonic stem cells. eLife, 6, [e21926]. https://doi.org/10.7554/elife.21926

Vancouver

Freire-Pritchett P, Schoenfelder S, Varnai C, Wingett SW, Cairns J, Collier AJ et al. Global reorganisation of cis-regulatory units upon lineage commitment of human embryonic stem cells. eLife. 2017 Mar 23;6. e21926. https://doi.org/10.7554/elife.21926

Author

Freire-Pritchett, Paula ; Schoenfelder, Stefan ; Varnai, Csilla ; Wingett, Steven W ; Cairns, Jonathan ; Collier, Amanda J ; Garcia-Vilchez, Raquel ; Furlan-Magaril, Mayra ; Osborne, Cameron S ; Fraser, Peter ; Rugg-Gunn, Peter J ; Spivakov, Mikhail. / Global reorganisation of cis-regulatory units upon lineage commitment of human embryonic stem cells. In: eLife. 2017 ; Vol. 6.

Bibtex

@article{46f0354150c44ca0aaa62ba468b7b3e6,
title = "Global reorganisation of cis-regulatory units upon lineage commitment of human embryonic stem cells",
abstract = "Long-range cis-regulatory elements such as enhancers coordinate cell-specific transcriptional programmes by engaging in DNA looping interactions with target promoters. Deciphering the interplay between the promoter connectivity and activity of cis-regulatory elements during lineage commitment is crucial for understanding developmental transcriptional control. Here, we use Promoter Capture Hi-C to generate a high-resolution atlas of chromosomal interactions involving ~22,000 gene promoters in human pluripotent and lineage-committed cells, identifying putative target genes for known and predicted enhancer elements. We reveal extensive dynamics of cis-regulatory contacts upon lineage commitment, including the acquisition and loss of promoter interactions. This spatial rewiring occurs preferentially with predicted changes in the activity of cis-regulatory elements and is associated with changes in target gene expression. Our results provide a global and integrated view of promoter interactome dynamics during lineage commitment of human pluripotent cells.",
author = "Paula Freire-Pritchett and Stefan Schoenfelder and Csilla Varnai and Wingett, {Steven W} and Jonathan Cairns and Collier, {Amanda J} and Raquel Garcia-Vilchez and Mayra Furlan-Magaril and Osborne, {Cameron S} and Peter Fraser and Rugg-Gunn, {Peter J} and Mikhail Spivakov",
year = "2017",
month = mar,
day = "23",
doi = "10.7554/elife.21926",
language = "English",
volume = "6",
journal = "eLife",
issn = "2050-084X",
publisher = "eLife Sciences Publications",

}

RIS

TY - JOUR

T1 - Global reorganisation of cis-regulatory units upon lineage commitment of human embryonic stem cells

AU - Freire-Pritchett, Paula

AU - Schoenfelder, Stefan

AU - Varnai, Csilla

AU - Wingett, Steven W

AU - Cairns, Jonathan

AU - Collier, Amanda J

AU - Garcia-Vilchez, Raquel

AU - Furlan-Magaril, Mayra

AU - Osborne, Cameron S

AU - Fraser, Peter

AU - Rugg-Gunn, Peter J

AU - Spivakov, Mikhail

PY - 2017/3/23

Y1 - 2017/3/23

N2 - Long-range cis-regulatory elements such as enhancers coordinate cell-specific transcriptional programmes by engaging in DNA looping interactions with target promoters. Deciphering the interplay between the promoter connectivity and activity of cis-regulatory elements during lineage commitment is crucial for understanding developmental transcriptional control. Here, we use Promoter Capture Hi-C to generate a high-resolution atlas of chromosomal interactions involving ~22,000 gene promoters in human pluripotent and lineage-committed cells, identifying putative target genes for known and predicted enhancer elements. We reveal extensive dynamics of cis-regulatory contacts upon lineage commitment, including the acquisition and loss of promoter interactions. This spatial rewiring occurs preferentially with predicted changes in the activity of cis-regulatory elements and is associated with changes in target gene expression. Our results provide a global and integrated view of promoter interactome dynamics during lineage commitment of human pluripotent cells.

AB - Long-range cis-regulatory elements such as enhancers coordinate cell-specific transcriptional programmes by engaging in DNA looping interactions with target promoters. Deciphering the interplay between the promoter connectivity and activity of cis-regulatory elements during lineage commitment is crucial for understanding developmental transcriptional control. Here, we use Promoter Capture Hi-C to generate a high-resolution atlas of chromosomal interactions involving ~22,000 gene promoters in human pluripotent and lineage-committed cells, identifying putative target genes for known and predicted enhancer elements. We reveal extensive dynamics of cis-regulatory contacts upon lineage commitment, including the acquisition and loss of promoter interactions. This spatial rewiring occurs preferentially with predicted changes in the activity of cis-regulatory elements and is associated with changes in target gene expression. Our results provide a global and integrated view of promoter interactome dynamics during lineage commitment of human pluripotent cells.

UR - http://dx.doi.org/10.7554/elife.21926

U2 - 10.7554/elife.21926

DO - 10.7554/elife.21926

M3 - Article

VL - 6

JO - eLife

JF - eLife

SN - 2050-084X

M1 - e21926

ER -