hTFtarget:A Comprehensive Database for Regulations of Human Transcription Factors and Their Targets
- Author:
Zhang QIONG
1
;
Liu WEI
;
Zhang HONG-MEI
;
Xie GUI-YAN
;
Miao YA-RU
;
Xia MENGXUAN
;
Guo AN-YUAN
Author Information
1. Department of Bioinformatics and Systems Biology, Key Laboratory of Molecular Biophysics of the Ministry of Education, Hubei Bioinformatics and Molecular Imaging Key Laboratory, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China
- Keywords:
Transcription factor;
ChIP-seq;
Transcriptional regulation;
Human;
Database
- From:
Genomics, Proteomics & Bioinformatics
2020;18(2):120-128
- CountryChina
- Language:Chinese
-
Abstract:
Transcription factors (TFs) as key regulators play crucial roles in biological processes. The identification of TF–target regulatory relationships is a key step for revealing functions of TFs and their regulations on gene expression. The accumulated data of chromatin immunoprecip-itation sequencing (ChIP-seq) provide great opportunities to discover the TF–target regulations across different conditions. In this study, we constructed a database named hTFtarget, which inte-grated huge human TF target resources (7190 ChIP-seq samples of 659 TFs and high-confidence binding sites of 699 TFs) and epigenetic modification information to predict accurate TF–target regulations. hTFtarget offers the following functions for users to explore TF–target regulations:(1) browse or search general targets of a query TF across datasets;(2) browse TF–target regulations for a query TF in a specific dataset or tissue;(3) search potential TFs for a given target gene or non-coding RNA; (4) investigate co-association between TFs in cell lines; (5) explore potential co-regulations for given target genes or TFs; (6) predict candidate TF binding sites on given DNA sequences; (7) visualize ChIP-seq peaks for different TFs and conditions in a genome browser. hTFtarget provides a comprehensive, reliable and user-friendly resource for exploringhuman TF–target regulations, which will be very useful for a wide range of users in the TF and gene expression regulation community. hTFtarget is available at http://bioinfo.life.hust.edu.cn/hTFtar-get.
