Chromatin looping links target genes with genetic risk loci for dermatological traitsCitation formats

Standard

Chromatin looping links target genes with genetic risk loci for dermatological traits. / Shi, Chenfu; Ray-Jones, Helen; Ding, James; Duffus, Kate; Fu, Yao ; Gaddi, Vasanthipriyadarshini; Gough, Oliver; Hankinson, Jenny; Martin, Paul; Mcgovern, Amanda; Yarwood, Annie; Gaffney, Patrick ; Eyre, Stephen; Rattray, Magnus; Warren , Richard B; Orozco, Gisela.

In: The Journal of Investigative Dermatology, Vol. 141, No. 8, 2021, p. 1975-1984.

Research output: Contribution to journalArticlepeer-review

Harvard

Shi, C, Ray-Jones, H, Ding, J, Duffus, K, Fu, Y, Gaddi, V, Gough, O, Hankinson, J, Martin, P, Mcgovern, A, Yarwood, A, Gaffney, P, Eyre, S, Rattray, M, Warren , RB & Orozco, G 2021, 'Chromatin looping links target genes with genetic risk loci for dermatological traits', The Journal of Investigative Dermatology, vol. 141, no. 8, pp. 1975-1984. https://doi.org/10.1016/j.jid.2021.01.015

APA

Shi, C., Ray-Jones, H., Ding, J., Duffus, K., Fu, Y., Gaddi, V., Gough, O., Hankinson, J., Martin, P., Mcgovern, A., Yarwood, A., Gaffney, P., Eyre, S., Rattray, M., Warren , R. B., & Orozco, G. (2021). Chromatin looping links target genes with genetic risk loci for dermatological traits. The Journal of Investigative Dermatology, 141(8), 1975-1984. https://doi.org/10.1016/j.jid.2021.01.015

Vancouver

Shi C, Ray-Jones H, Ding J, Duffus K, Fu Y, Gaddi V et al. Chromatin looping links target genes with genetic risk loci for dermatological traits. The Journal of Investigative Dermatology. 2021;141(8):1975-1984. https://doi.org/10.1016/j.jid.2021.01.015

Author

Shi, Chenfu ; Ray-Jones, Helen ; Ding, James ; Duffus, Kate ; Fu, Yao ; Gaddi, Vasanthipriyadarshini ; Gough, Oliver ; Hankinson, Jenny ; Martin, Paul ; Mcgovern, Amanda ; Yarwood, Annie ; Gaffney, Patrick ; Eyre, Stephen ; Rattray, Magnus ; Warren , Richard B ; Orozco, Gisela. / Chromatin looping links target genes with genetic risk loci for dermatological traits. In: The Journal of Investigative Dermatology. 2021 ; Vol. 141, No. 8. pp. 1975-1984.

Bibtex

@article{91e6427b0c9e4dfa86869d2cb38a339a,
title = "Chromatin looping links target genes with genetic risk loci for dermatological traits",
abstract = "Chromatin looping between regulatory elements and gene promoters presents a potential mechanism whereby disease risk variants affect their target genes. Here we use H3K27ac HiChIP, a method for assaying the active chromatin interactome in two cell lines: keratinocytes and skin lymphoma derived CD8+ T cells. We integrate public datasets for a lymphoblastoid cell line and primary CD4+ T cells and identify gene targets at risk loci for skin-related disorders. Interacting genes enrich for pathways of known importance in each trait, such as cytokine response (psoriatic arthritis, psoriasis) and replicative senescence (melanoma). We show examples of how our analysis can inform changes in the current understanding of multiple psoriasis associated risk loci. For example, the variant rs10794648, which is generally assigned to IFNLR1, was linked to GRHL3 in our dataset, a gene essential in skin repair and development. Our findings, therefore, indicate a renewed importance of skin related factors in the risk of disease. ",
author = "Chenfu Shi and Helen Ray-Jones and James Ding and Kate Duffus and Yao Fu and Vasanthipriyadarshini Gaddi and Oliver Gough and Jenny Hankinson and Paul Martin and Amanda Mcgovern and Annie Yarwood and Patrick Gaffney and Stephen Eyre and Magnus Rattray and Warren, {Richard B} and Gisela Orozco",
year = "2021",
doi = "10.1016/j.jid.2021.01.015",
language = "English",
volume = "141",
pages = "1975--1984",
journal = "The Journal of Investigative Dermatology",
issn = "0022-202X",
publisher = "Springer Nature",
number = "8",

}

RIS

TY - JOUR

T1 - Chromatin looping links target genes with genetic risk loci for dermatological traits

AU - Shi, Chenfu

AU - Ray-Jones, Helen

AU - Ding, James

AU - Duffus, Kate

AU - Fu, Yao

AU - Gaddi, Vasanthipriyadarshini

AU - Gough, Oliver

AU - Hankinson, Jenny

AU - Martin, Paul

AU - Mcgovern, Amanda

AU - Yarwood, Annie

AU - Gaffney, Patrick

AU - Eyre, Stephen

AU - Rattray, Magnus

AU - Warren , Richard B

AU - Orozco, Gisela

PY - 2021

Y1 - 2021

N2 - Chromatin looping between regulatory elements and gene promoters presents a potential mechanism whereby disease risk variants affect their target genes. Here we use H3K27ac HiChIP, a method for assaying the active chromatin interactome in two cell lines: keratinocytes and skin lymphoma derived CD8+ T cells. We integrate public datasets for a lymphoblastoid cell line and primary CD4+ T cells and identify gene targets at risk loci for skin-related disorders. Interacting genes enrich for pathways of known importance in each trait, such as cytokine response (psoriatic arthritis, psoriasis) and replicative senescence (melanoma). We show examples of how our analysis can inform changes in the current understanding of multiple psoriasis associated risk loci. For example, the variant rs10794648, which is generally assigned to IFNLR1, was linked to GRHL3 in our dataset, a gene essential in skin repair and development. Our findings, therefore, indicate a renewed importance of skin related factors in the risk of disease.

AB - Chromatin looping between regulatory elements and gene promoters presents a potential mechanism whereby disease risk variants affect their target genes. Here we use H3K27ac HiChIP, a method for assaying the active chromatin interactome in two cell lines: keratinocytes and skin lymphoma derived CD8+ T cells. We integrate public datasets for a lymphoblastoid cell line and primary CD4+ T cells and identify gene targets at risk loci for skin-related disorders. Interacting genes enrich for pathways of known importance in each trait, such as cytokine response (psoriatic arthritis, psoriasis) and replicative senescence (melanoma). We show examples of how our analysis can inform changes in the current understanding of multiple psoriasis associated risk loci. For example, the variant rs10794648, which is generally assigned to IFNLR1, was linked to GRHL3 in our dataset, a gene essential in skin repair and development. Our findings, therefore, indicate a renewed importance of skin related factors in the risk of disease.

U2 - 10.1016/j.jid.2021.01.015

DO - 10.1016/j.jid.2021.01.015

M3 - Article

VL - 141

SP - 1975

EP - 1984

JO - The Journal of Investigative Dermatology

JF - The Journal of Investigative Dermatology

SN - 0022-202X

IS - 8

ER -