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
收藏
页码：1290 / 1292
页数：3
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