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TRRUST specifications

Information


Unique identifier OMICS_11957
Name TRRUST
Alternative name Transcriptional Regulatory Relationships Unravelled by Sentence-based Text-mining
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Not allowed
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Maintainer


  • person_outline Insuk Lee

Publication for Transcriptional Regulatory Relationships Unravelled by Sentence-based Text-mining

TRRUST citations

 (4)
library_books

Deconvolution of Transcriptional Networks in Post Traumatic Stress Disorder Uncovers Master Regulators Driving Innate Immune System Function

2017
Sci Rep
PMCID: 5670244
PMID: 29101382
DOI: 10.1038/s41598-017-15221-y

[…] scription Factor (TF) genes that will be referred to as Master Regulators (MRs). We curated a list of known human TFs from three sources including FANTOM5 consortium, a curated set by Vaquerizas, and TRRUST. A total of 2198 TFs were curated from these sources. We then focused on the MRs in the reverse engineered network and checked if any of the identified hub genes were TFs. 1903 TFs exist in the […]

library_books

eDGAR: a database of Disease Gene Associations with annotated Relationships among genes

2017
BMC Genomics
PMCID: 5558190
PMID: 28812536
DOI: 10.1186/s12864-017-3911-3

[…] preventing their renal excretion, and GCM2 (Glial cell missing homolog 2) is a probable transcriptional regulator, considering the SwissProt annotation. The “Transcription Factor (TF) annotation from TRRUST” table in eDGAR reports that GMC2 is a TF that regulates the expression of both PTH and CASR. Moreover, when considering “Interactions from STRING” table, PTH and CASR are in direct interaction […]

library_books

Comprehensive tissue specific gene set enrichment analysis and transcription factor analysis of breast cancer by integrating 14 gene expression datasets

2016
Oncotarget
PMCID: 5351668
PMID: 28036274
DOI: 10.18632/oncotarget.14286

[…] ase (AnimalTFDB, http://www.bioguo.org/AnimalTFDB/index.php) [] and mapped 1,469 TFs to our integrated datasets. We filtered TFs that were differentially expressed in two and more groups and used the TRRUST web server ( http://www.grnpedia.org/trrust/) [] to find the target genes of the commonly dysregulated TFs. TRRUST could provide the information of the regulation type (such as activation and r […]

library_books

Inferring active regulatory networks from gene expression data using a combination of prior knowledge and enrichment analysis

2016
BMC Bioinformatics
PMCID: 4905609
PMID: 27295045
DOI: 10.1186/s12859-016-1040-7

[…] ], on the other hand, are built through a more thorough process that involves manual curation of literature and public datasets. Finally, there are databases employing intermediate approaches such as TRRUST [], which makes use of a text-mining algorithm coupled with manual curation of the results to populate a database of ~8000 interactions.In this work we propose an enrichment analysis tool that […]

Citations

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TRRUST institution(s)
Department of Biotechnology, College of Life Science and Biotechnology, Yonsei University, Seoul, Korea
TRRUST funding source(s)
This work was supported by grants from the National Research Foundation of Korea (2012M3A9B4028641, 2012M3A9C7050151).

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