Title |
Assessing quality and completeness of human transcriptional regulatory pathways on a genome-wide scale
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Published in |
Biology Direct, February 2011
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DOI | 10.1186/1745-6150-6-15 |
Pubmed ID | |
Authors |
Evgeny Shmelkov, Zuojian Tang, Iannis Aifantis, Alexander Statnikov |
Abstract |
Pathway databases are becoming increasingly important and almost omnipresent in most types of biological and translational research. However, little is known about the quality and completeness of pathways stored in these databases. The present study conducts a comprehensive assessment of transcriptional regulatory pathways in humans for seven well-studied transcription factors: MYC, NOTCH1, BCL6, TP53, AR, STAT1, and RELA. The employed benchmarking methodology first involves integrating genome-wide binding with functional gene expression data to derive direct targets of transcription factors. Then the lists of experimentally obtained direct targets are compared with relevant lists of transcriptional targets from 10 commonly used pathway databases. |
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Guinea | 1 | 33% |
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Brazil | 1 | <1% |
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Turkey | 1 | <1% |
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Immunology and Microbiology | 7 | 6% |
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