Regulon inference without arbitrary thresholds: three levels of sensitivity
Reconstruction of transcriptional regulatory networks is one of the major challenges facing the bioinformatics community in view of constantly growing number of complete genomes. The comparative genomics approach has been successfully used for the analysis of the transcriptional regulation of many metabolic systems in various bacteria taxa. The key step in this approach is given a position weight matrix, find an optimal threshold for the search of potential binding sites in genomes. In our previous work we proposed an approach for automatic selection of TFBS score threshold coupled with inference of regulon content. In this study we developed two modifications of this approach providing two additional levels of sensitivity.
- Research Organization:
- Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
- Sponsoring Organization:
- Physical Biosciences Division
- DOE Contract Number:
- DE-AC02-05CH11231
- OSTI ID:
- 1005002
- Report Number(s):
- LBNL-4241E-Poster; TRN: US201105%%162
- Resource Relation:
- Conference: 3rd Annual Joint Conference on Systems Biology, Regulatory Genomics and Reverse Engineering Challenges; New York City, NY; November 16 - 20, 2010
- Country of Publication:
- United States
- Language:
- English
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