HIPPIE: a high-throughput identification pipeline for promoter interacting enhancer elements

被引：33

作者：

Hwang, Yih-Chii ^{[1
]}

Lin, Chiao-Feng ^{[2
,3
]}

Valladares, Otto ^{[2
,3
]}

Malamon, John ^{[2
,3
]}

Kuksa, Pavel P. ^{[2
,3
]}

Zheng, Qi ^{[4
]}

Gregory, Brian D. ^{[1
,4
]}

Wang, Li-San ^{[1
,2
,3
]}

机构：

[1] Univ Penn, Genom & Computat Biol Grad Program, Philadelphia, PA 19104 USA

[2] Univ Penn, Inst Biomed Informat, Philadelphia, PA 19104 USA

[3] Univ Penn, Dept Pathol & Lab Med, Philadelphia, PA 19104 USA

[4] Univ Penn, Dept Biol, Philadelphia, PA 19104 USA

来源：

BIOINFORMATICS | 2015年 / 31卷 / 08期

关键词：

D O I：

10.1093/bioinformatics/btu801

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

We implemented a high-throughput identification pipeline for promoter interacting enhancer element to streamline the workflow from mapping raw Hi-C reads, identifying DNA-DNA interacting fragments with high confidence and quality control, detecting histone modifications and DNase hypersensitive enrichments in putative enhancer elements, to ultimately extracting possible intra- and inter-chromosomal enhancer-target gene relationships.

引用

页码：1290 / 1292

页数：3

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