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CIBCB
2007
IEEE
14 years 2 months ago
Modeling protein-DNA binding time in Stochastic Discrete Event Simulation of Biological Processes
Abstract— This paper presents a parametric model to estimate the DNA-protein binding time using the DNA and protein structures and details of the binding site. To understand the ...
Preetam Ghosh, Samik Ghosh, Kalyan Basu, Sajal K. ...
RECOMB
2007
Springer
14 years 8 months ago
Framework for Identifying Common Aberrations in DNA Copy Number Data
High-resolution array comparative genomic hybridization (aCGH) provides exon-level mapping of DNA aberrations in cells or tissues. Such aberrations are central to carcinogenesis an...
Amir Ben-Dor, Doron Lipson, Anya Tsalenko, Mark Re...
BMCBI
2010
153views more  BMCBI 2010»
13 years 8 months ago
Pash 3.0: A versatile software package for read mapping and integrative analysis of genomic and epigenomic variation using massi
Background: Massively parallel sequencing readouts of epigenomic assays are enabling integrative genome-wide analyses of genomic and epigenomic variation. Pash 3.0 performs sequen...
Cristian Coarfa, Fuli Yu, Christopher A. Miller, Z...
BMCBI
2010
76views more  BMCBI 2010»
13 years 8 months ago
Validation and characterization of DNA microarray gene expression data distribution and associated moments
Background: The data from DNA microarrays are increasingly being used in order to understand effects of different conditions, exposures or diseases on the modulation of the expres...
Reuben Thomas, Luis de la Torre, Xiaoqing Chang, S...
GECCO
2007
Springer
160views Optimization» more  GECCO 2007»
14 years 2 months ago
Hill climbing on discrete HIFF: exploring the role of DNA transposition in long-term artificial evolution
We show how a random mutation hill climber that does multilevel selection utilizes transposition to escape local optima on the discrete Hierarchical-If-And-Only-If (HIFF) problem....
Susan Khor