a catalog of biological databases
|Description:||SEGreg is a comprehensive database containing SEGs identified by our SEGtool from four high-throughput datasets of different cancers/tissues/cell lines (TCGA, BodyMap, CCLE and GTEx), along with their corresponding miRNA and TF regulations collected from several databases. SEGreg will provide useful clues to reveal the functions and regulations of SEGs.|
|University/Institution:||Huazhong University of Science and Technology|
|Address:||Department of Bioinformatics and Systems Biology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan, 430074, China. Tel.: 86-027-87793177|
|Contact name (PI/Team):||An-Yuan Guo|
|Contact email (PI/Helpdesk):||email@example.com|
SEGreg: a database for human specifically expressed genes and their regulations in cancer and normal tissue. [PMID: 29309507]
Human specifically expressed genes (SEGs) usually serve as potential biomarkers for disease diagnosis and treatment. However, the regulation underlying their specific expression remains to be revealed. In this study, we constructed SEG regulation database (SEGreg; available at http://bioinfo.life.hust.edu.cn/SEGreg) for showing SEGs and their transcription factors (TFs) and microRNA (miRNA) regulations under different physiological conditions, which include normal tissue, cancer tissue and cell line. In total, SEGreg collected 6387, 1451, 4506 and 5320 SEGs from expression profiles of 34 cancer types and 55 tissues of The Cancer Genome Atlas, Cancer Cell Line Encyclopedia, Human Body Map and Genotype-Tissue Expression databases/projects, respectively. The cancer or tissue corresponding expressed miRNAs and TFs were identified from miRNA and gene expression profiles, and their targets were collected from several public resources. Then the regulatory networks of all SEGs were constructed and integrated into SEGreg. Through a user-friendly interface, users can browse and search SEGreg by gene name, data source, tissue, cancer type and regulators. In summary, SEGreg is a specialized resource to explore SEGs and their regulations, which provides clues to reveal the mechanisms of carcinogenesis and biological processes.