A novel strategy to search conserved transcription factor binding sites among coexpressing genes in human. | Zendy

Yosuke  Hatanaka | Zendy; Masao  Nagasaki | Zendy; Rui  Yamaguchi | Zendy; Takeshi  Obayashi | Zendy; Kazuyuki  Numata | Zendy; Andrè  Fujita | Zendy; Teppei  Shimamura | Zendy; Yoshinori  Tamada | Zendy; Seiya  Imoto | Zendy; Kengo  Kinoshita | Zendy; Kenta  Nakai | Zendy; Satoru  Miyano | Zendy

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A novel strategy to search conserved transcription factor binding sites among coexpressing genes in human.

Author(s) -

Yosuke Hatanaka,

Masao Nagasaki,

Rui Yamaguchi,

Takeshi Obayashi,

Kazuyuki Numata,

Andrè Fujita,

Teppei Shimamura,

Yoshinori Tamada,

Seiya Imoto,

Kengo Kinoshita,

Kenta Nakai,

Satoru Miyano

Publication year - 2008

Publication title -

genome informatics. international conference on genome informatics

Language(s) - English

DOI - 10.11234/gi1990.20.212

We report various transcription factor binding sites (TFBSs) conserved among co-expressed genes in human promoter region using expression and genomic data. Assuming similar promoter structure induces similar transcriptional regulation, hence induces similar expression profile, we compared the promoter structure similarities between co-expressed genes. Comprehensive TF binding site predictions for all human genes were conducted for 19,777 promoter regions around the transcription start site (TSS) given from DBTSS and promoter similarity search were conducted among coexpressing genes data provided from newly developed COXPRESdb. Combination of Position Weight Matrix (PWM) motif prediction and bootstrap method, 7,313 genes have at least one statistically significant conserved TFBS. We also applied basket method analysis for seeking combinatorial activities of those conserved TFBSs.

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