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dc.contributor.authorChang, Yao-Linen_US
dc.contributor.authorLiu, I-Hsinen_US
dc.contributor.authorKao, Cheng-Yanen_US
dc.contributor.authorYang, Jinn-Moonen_US
dc.date.accessioned2017-04-21T06:48:53Z-
dc.date.available2017-04-21T06:48:53Z-
dc.date.issued2008en_US
dc.identifier.isbn978-1-4244-4098-6en_US
dc.identifier.urihttp://hdl.handle.net/11536/135642-
dc.description.abstractProtein-DNA interactions play a central role in many genetic processes of cells. With the growing crystal structures of protein-DNA complexes, the computational approaches are becoming more and more useful for modeling protein-DNA interactions. This paper proposes template-based alignment with a new scoring function which combined the evolutionary conservation and protein-DNA interacting scores of DNA-contact residues. We showed that the combined scoring function is better to model the protein-DNA interactions than applying only one. Our method achieved high accuracy in identifying DNA-binding domains of 69 representative families and with the correlation 0.6 in predicting the binding free energy of the alanine scanning data. By applying the method to the hormone receptor family, it showed that our method can identify the DNA-binding specificity in different subfamilies. The evolutionary conservation is able to reflect the evolution pressure of DNA-contact residues and the interaction preferences can indicate the binding affinity between the protein and DNA. Experimental results show that both the evolution conservation and the DNA-binding capability of the DNA-contact residues are essential for identifying DNA-binding domains and protein-DNA interactions.en_US
dc.language.isoen_USen_US
dc.titleEvolutionary conservation and interacting preference for identifying Protein-DNA interactionsen_US
dc.typeProceedings Paperen_US
dc.identifier.journal2008 INTERNATIONAL MULTISYMPOSIUMS ON COMPUTER AND COMPUTATIONAL SCIENCES (IMSCCS)en_US
dc.citation.spage1en_US
dc.citation.epage+en_US
dc.contributor.department生物資訊及系統生物研究所zh_TW
dc.contributor.departmentInstitude of Bioinformatics and Systems Biologyen_US
dc.identifier.wosnumberWOS:000268586000001en_US
dc.citation.woscount0en_US
Appears in Collections:Conferences Paper