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RECOMB
2007
Springer
14 years 4 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
BMCBI
2010
83views more  BMCBI 2010»
13 years 4 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
BMCBI
2008
103views more  BMCBI 2008»
13 years 4 months ago
Parameter estimation for robust HMM analysis of ChIP-chip data
Background: Tiling arrays are an important tool for the study of transcriptional activity, proteinDNA interactions and chromatin structure on a genome-wide scale at high resolutio...
Peter Humburg, David Bulger, Glenn Stone
CIBCB
2005
IEEE
13 years 6 months ago
A Transcriptional Approach to Gene Clustering
— We present an integrative method for clustering coregulated genes and elucidating their underlying regulatory mechanisms. We use multi-state partition functions and thermodynam...
Ilias Tagkopoulos
VISUALIZATION
2002
IEEE
13 years 9 months ago
PMR: Point to Mesh Rendering, A Feature-Based Approach
Within the field of computer graphics and visualization, it is often necessary to visualize polygonal models with large number of polygons. Display quality is mandatory, but it i...
Tamal K. Dey, James Hudson