TRRUST v2: an expanded reference database of human and mouse transcriptional regulatory interactions

• Published in: Nucleic acids research Vol. 46; no. D1; pp. D380 - D386
• Main Authors: Han, Heonjong, Cho, Jae-Won, Lee, Sangyoung, Yun, Ayoung, Kim, Hyojin, Bae, Dasom, Yang, Sunmo, Kim, Chan Yeong, Lee, Muyoung, Kim, Eunbeen, Lee, Sungho, Kang, Byunghee, Jeong, Dabin, Kim, Yaeji, Jeon, Hyeon-Nae, Jung, Haein, Nam, Sunhwee, Chung, Michael, Kim, Jong-Hoon, Lee, Insuk
• Format: Journal Article
• Language: English
• Published: England Oxford University Press 04.01.2018
• Subjects: Animals; Database Issue; Databases, Genetic; Gene Expression Regulation; Humans; Mice; Regulatory Elements, Transcriptional; Transcription Factors - metabolism; Transcription, Genetic; User-Computer Interface
• ISSN: 0305-1048; 1362-4962
• DOI: 10.1093/nar/gkx1013

Abstract Transcription factors (TFs) are major trans-acting factors in transcriptional regulation. Therefore, elucidating TF-target interactions is a key step toward understanding the regulatory circuitry underlying complex traits such as human diseases. We previously published a reference TF-target interaction database for humans-TRRUST (Transcriptional Regulatory Relationships Unraveled by Sentence-based Text mining)-which was constructed using sentence-based text mining, followed by manual curation. Here, we present TRRUST v2 (www.grnpedia.org/trrust) with a significant improvement from the previous version, including a significantly increased size of the database consisting of 8444 regulatory interactions for 800 TFs in humans. More importantly, TRRUST v2 also contains a database for TF-target interactions in mice, including 6552 TF-target interactions for 828 mouse TFs. TRRUST v2 is also substantially more comprehensive and less biased than other TF-target interaction databases. We also improved the web interface, which now enables prioritization of key TFs for a physiological condition depicted by a set of user-input transcriptional responsive genes. With the significant expansion in the database size and inclusion of the new web tool for TF prioritization, we believe that TRRUST v2 will be a versatile database for the study of the transcriptional regulation involved in human diseases.