YY1TargetDB: an integral information resource for Yin Yang 1 target loci
| Autor: | Huating Wang, Kun Sun, Andy M. Guo, Xiaoxi Su, Hao Sun |
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| Rok vydání: | 2013 |
| Předmět: |
Chromatin Immunoprecipitation
Locus (genetics) Computational biology Biology ENCODE General Biochemistry Genetics and Molecular Biology Annotation Mice User-Computer Interface Databases Genetic Animals Humans Transcription factor YY1 Transcription Factor Genetics Internet Reproducibility of Results Molecular Sequence Annotation Chromatin Centralized database Genetic Loci embryonic structures Original Article General Agricultural and Biological Sciences Chromatin immunoprecipitation Information Systems Protein Binding |
| Zdroj: | Database: The Journal of Biological Databases and Curation |
| ISSN: | 1758-0463 |
| Popis: | Yin Yang 1 (YY1), a ubiquitously expressed transcription factor, plays a critical role in regulating cell development, differentiation, cellular proliferation and tumorigenesis. Previous studies identified many YY1-regulated target genes in both human and mouse. Emerging global mapping by Chromatin ImmnoPrecipitation (ChIP)-based high-throughput experiments indicate that YY1 binds to a vast number of loci genome-wide. However, the information is widely scattered in many disparate poorly cross-indexed literatures; a large portion was only published recently by the ENCODE consortium with limited annotation. A centralized database, which annotates and organizes YY1-binding loci and target motifs in a systematic way with easy access, will be valuable resources for the research community. We therefore implemented a web-based YY1 Target loci Database (YY1TargetDB). This database contains YY1-binding loci (binding peaks) from ChIP-seq and ChIP-on-chip experiments, computationally predicated YY1 and cofactor motifs within each locus. It also collects the experimentally verified YY1-binding motifs from individual researchers. The current version of YY1TargetDB contains 92 314 binding loci identified by ChIP-based experiments; 157 200 YY1-binding motifs in which 42 are experimentally verified and 157 158 are computationally predicted; and 130 759 binding motifs for 47 cofactors. Database URL: http://www.myogenesisdb.org/YY1TargetDB. |
| Databáze: | OpenAIRE |
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