Ontology highlight
ABSTRACT:
SUBMITTER: Chen CY
PROVIDER: S-EPMC2268170 | biostudies-literature | 2008 Feb
REPOSITORIES: biostudies-literature
Chen Chien-Yu CY Tsai Huai-Kuang HK Hsu Chen-Ming CM May Chen Mei-Ju MJ Hung Hao-Geng HG Huang Grace Tzu-Wei GT Li Wen-Hsiung WH
Proceedings of the National Academy of Sciences of the United States of America 20080213 7
A gapped transcription factor-binding site (TFBS) contains one or more highly degenerate positions. Discovering gapped motifs is difficult, because allowing highly degenerate positions in a motif greatly enlarges the search space and complicates the discovery process. Here, we propose a method for discovering TFBSs, especially gapped motifs. We use ChIP-chip data to judge the binding strength of a TF to a putative target promoter and use orthologous sequences from related species to judge the de ...[more]