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» Non-additivity in protein-DNA binding
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BMCBI
2010
174views more  BMCBI 2010»
13 years 5 months ago
The effect of prior assumptions over the weights in BayesPI with application to study protein-DNA interactions from ChIP-based h
Background: To further understand the implementation of hyperparameters re-estimation technique in Bayesian hierarchical model, we added two more prior assumptions over the weight...
Junbai Wang
APBC
2004
116views Bioinformatics» more  APBC 2004»
13 years 6 months ago
Structure-Function Relationship in DNA Sequence Recognition by Transcription Factors
Transcription factors play essential role in the gene regulation in higher organisms, binding to multiple target sequences and regulating multiple genes in a complex manner. In or...
Akinori Sarai, Samuel Selvaraj, M. Michael Gromiha...
BMCBI
2008
100views more  BMCBI 2008»
13 years 5 months ago
Extracting transcription factor binding sites from unaligned gene sequences with statistical models
Background: Transcription factor binding sites (TFBSs) are crucial in the regulation of gene transcription. Recently, chromatin immunoprecipitation followed by cDNA microarray hyb...
Chung-Chin Lu, Wei-Hao Yuan, Te-Ming Chen
BMCBI
2010
83views more  BMCBI 2010»
13 years 5 months ago
An effective approach for generating a three-Cys2His2 zinc-finger-DNA complex model by docking
Background: Determination of protein-DNA complex structures with both NMR and X-ray crystallography remains challenging in many cases. High Ambiguity-Driven DOCKing (HADDOCK) is a...
Chun-Chi Chou, M. Rajasekaran, Chinpan Chen
RECOMB
2007
Springer
14 years 5 months ago
A Feature-Based Approach to Modeling Protein-DNA Interactions
Transcription factor (TF) binding to its DNA target site is a fundamental regulatory interaction. The most common model used to represent TF binding specificities is a position spe...
Eilon Sharon, Eran Segal