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Characterization of the enhancer and promoter landscape of inflammatory bowel disease from human colon biopsies

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Harvard

Boyd, M, Thodberg, M, Vitezic, M, Bornholdt, J, Vitting-Seerup, K, Chen, Y, Coskun, M, Li, Y, Lo, B, Klausen, P, Jan Schweiger, P, Pedersen, AG, Rapin, N, Skovgaard, K, Dahlgaard, K, Andersson, R, Terkelsen, TB, Lilje, B, Troelsen, JT, Petersen, AM, Jensen, KB, Gögenur, I, Thielsen, P, Seidelin, JB, Nielsen, OH & Sandelin, A 2018, 'Characterization of the enhancer and promoter landscape of inflammatory bowel disease from human colon biopsies', Nature Communications, bind 9, nr. 1, s. 1661. https://doi.org/10.1038/s41467-018-03766-z

APA

Boyd, M., Thodberg, M., Vitezic, M., Bornholdt, J., Vitting-Seerup, K., Chen, Y., Coskun, M., Li, Y., Lo, B., Klausen, P., Jan Schweiger, P., Pedersen, A. G., Rapin, N., Skovgaard, K., Dahlgaard, K., Andersson, R., Terkelsen, T. B., Lilje, B., Troelsen, J. T., ... Sandelin, A. (2018). Characterization of the enhancer and promoter landscape of inflammatory bowel disease from human colon biopsies. Nature Communications, 9(1), 1661. https://doi.org/10.1038/s41467-018-03766-z

CBE

Boyd M, Thodberg M, Vitezic M, Bornholdt J, Vitting-Seerup K, Chen Y, Coskun M, Li Y, Lo B, Klausen P, Jan Schweiger P, Pedersen AG, Rapin N, Skovgaard K, Dahlgaard K, Andersson R, Terkelsen TB, Lilje B, Troelsen JT, Petersen AM, Jensen KB, Gögenur I, Thielsen P, Seidelin JB, Nielsen OH, Sandelin A. 2018. Characterization of the enhancer and promoter landscape of inflammatory bowel disease from human colon biopsies. Nature Communications. 9(1):1661. https://doi.org/10.1038/s41467-018-03766-z

MLA

Vancouver

Author

Boyd, Mette ; Thodberg, Malte ; Vitezic, Morana ; Bornholdt, Jette ; Vitting-Seerup, Kristoffer ; Chen, Yun ; Coskun, Mehmet ; Li, Yuan ; Lo, Bobby ; Klausen, Pia ; Jan Schweiger, Pawel ; Pedersen, Anders Gorm ; Rapin, Nicolas ; Skovgaard, Kerstin ; Dahlgaard, Katja ; Andersson, Robin ; Terkelsen, Thilde Bagger ; Lilje, Berit ; Troelsen, Jesper Thorvald ; Petersen, Andreas Munk ; Jensen, Kim Bak ; Gögenur, Ismail ; Thielsen, Peter ; Seidelin, Jakob Benedict ; Nielsen, Ole Haagen ; Sandelin, Albin. / Characterization of the enhancer and promoter landscape of inflammatory bowel disease from human colon biopsies. I: Nature Communications. 2018 ; Bind 9, Nr. 1. s. 1661.

Bibtex

@article{3abf4500b5f34b8a831fec1e2450789d,
title = "Characterization of the enhancer and promoter landscape of inflammatory bowel disease from human colon biopsies",
abstract = "Inflammatory bowel disease (IBD) is a chronic intestinal disorder, with two main types: Crohn's disease (CD) and ulcerative colitis (UC), whose molecular pathology is not well understood. The majority of IBD-associated SNPs are located in non-coding regions and are hard to characterize since regulatory regions in IBD are not known. Here we profile transcription start sites (TSSs) and enhancers in the descending colon of 94 IBD patients and controls. IBD-upregulated promoters and enhancers are highly enriched for IBD-associated SNPs and are bound by the same transcription factors. IBD-specific TSSs are associated to genes with roles in both inflammatory cascades and gut epithelia while TSSs distinguishing UC and CD are associated to gut epithelia functions. We find that as few as 35 TSSs can distinguish active CD, UC, and controls with 85% accuracy in an independent cohort. Our data constitute a foundation for understanding the molecular pathology, gene regulation, and genetics of IBD.",
keywords = "Journal Article",
author = "Mette Boyd and Malte Thodberg and Morana Vitezic and Jette Bornholdt and Kristoffer Vitting-Seerup and Yun Chen and Mehmet Coskun and Yuan Li and Bobby Lo and Pia Klausen and {Jan Schweiger}, Pawel and Pedersen, {Anders Gorm} and Nicolas Rapin and Kerstin Skovgaard and Katja Dahlgaard and Robin Andersson and Terkelsen, {Thilde Bagger} and Berit Lilje and Troelsen, {Jesper Thorvald} and Petersen, {Andreas Munk} and Jensen, {Kim Bak} and Ismail G{\"o}genur and Peter Thielsen and Seidelin, {Jakob Benedict} and Nielsen, {Ole Haagen} and Albin Sandelin",
year = "2018",
month = apr,
day = "1",
doi = "10.1038/s41467-018-03766-z",
language = "English",
volume = "9",
pages = "1661",
journal = "Nature Communications",
issn = "2041-1723",
publisher = "Nature Publishing Group",
number = "1",

}

RIS

TY - JOUR

T1 - Characterization of the enhancer and promoter landscape of inflammatory bowel disease from human colon biopsies

AU - Boyd, Mette

AU - Thodberg, Malte

AU - Vitezic, Morana

AU - Bornholdt, Jette

AU - Vitting-Seerup, Kristoffer

AU - Chen, Yun

AU - Coskun, Mehmet

AU - Li, Yuan

AU - Lo, Bobby

AU - Klausen, Pia

AU - Jan Schweiger, Pawel

AU - Pedersen, Anders Gorm

AU - Rapin, Nicolas

AU - Skovgaard, Kerstin

AU - Dahlgaard, Katja

AU - Andersson, Robin

AU - Terkelsen, Thilde Bagger

AU - Lilje, Berit

AU - Troelsen, Jesper Thorvald

AU - Petersen, Andreas Munk

AU - Jensen, Kim Bak

AU - Gögenur, Ismail

AU - Thielsen, Peter

AU - Seidelin, Jakob Benedict

AU - Nielsen, Ole Haagen

AU - Sandelin, Albin

PY - 2018/4/1

Y1 - 2018/4/1

N2 - Inflammatory bowel disease (IBD) is a chronic intestinal disorder, with two main types: Crohn's disease (CD) and ulcerative colitis (UC), whose molecular pathology is not well understood. The majority of IBD-associated SNPs are located in non-coding regions and are hard to characterize since regulatory regions in IBD are not known. Here we profile transcription start sites (TSSs) and enhancers in the descending colon of 94 IBD patients and controls. IBD-upregulated promoters and enhancers are highly enriched for IBD-associated SNPs and are bound by the same transcription factors. IBD-specific TSSs are associated to genes with roles in both inflammatory cascades and gut epithelia while TSSs distinguishing UC and CD are associated to gut epithelia functions. We find that as few as 35 TSSs can distinguish active CD, UC, and controls with 85% accuracy in an independent cohort. Our data constitute a foundation for understanding the molecular pathology, gene regulation, and genetics of IBD.

AB - Inflammatory bowel disease (IBD) is a chronic intestinal disorder, with two main types: Crohn's disease (CD) and ulcerative colitis (UC), whose molecular pathology is not well understood. The majority of IBD-associated SNPs are located in non-coding regions and are hard to characterize since regulatory regions in IBD are not known. Here we profile transcription start sites (TSSs) and enhancers in the descending colon of 94 IBD patients and controls. IBD-upregulated promoters and enhancers are highly enriched for IBD-associated SNPs and are bound by the same transcription factors. IBD-specific TSSs are associated to genes with roles in both inflammatory cascades and gut epithelia while TSSs distinguishing UC and CD are associated to gut epithelia functions. We find that as few as 35 TSSs can distinguish active CD, UC, and controls with 85% accuracy in an independent cohort. Our data constitute a foundation for understanding the molecular pathology, gene regulation, and genetics of IBD.

KW - Journal Article

U2 - 10.1038/s41467-018-03766-z

DO - 10.1038/s41467-018-03766-z

M3 - Journal article

C2 - 29695774

VL - 9

SP - 1661

JO - Nature Communications

JF - Nature Communications

SN - 2041-1723

IS - 1

ER -

ID: 53691543