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RECOMB
2001
Springer
14 years 10 months ago
A new approach to fragment assembly in DNA sequencing
For the last twenty years fragment assembly in DNA sequencing followed the "overlap - layout - consensus" paradigm that is used in all currently available assembly tools...
Pavel A. Pevzner, Haixu Tang, Michael S. Waterman
BMCBI
2007
247views more  BMCBI 2007»
13 years 10 months ago
A survey of DNA motif finding algorithms
Background: Unraveling the mechanisms that regulate gene expression is a major challenge in biology. An important task in this challenge is to identify regulatory elements, especi...
Modan K. Das, Ho-Kwok Dai
BMCBI
2010
174views more  BMCBI 2010»
13 years 10 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
BMCBI
2010
108views more  BMCBI 2010»
13 years 10 months ago
An intuitionistic approach to scoring DNA sequences against transcription factor binding site motifs
Background: Transcription factors (TFs) control transcription by binding to specific regions of DNA called transcription factor binding sites (TFBSs). The identification of TFBSs ...
Fernando Garcia-Alcalde, Armando Blanco, Adrian J....
RECOMB
2007
Springer
14 years 10 months ago
Design of Compact, Universal DNA Microarrays for Protein Binding Microarray Experiments
Our group has recently developed a compact, universal protein binding microarray (PBM) that can be used to determine the binding preferences of transcription factors (TFs) [1]. Thi...
Anthony A. Philippakis, Aaron M. Qureshi, Michael ...