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» Deconvolving sequence variation in mixed DNA populations
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RECOMB
2002
Springer
14 years 4 months ago
Deconvolving sequence variation in mixed DNA populations
We present an original approach to identifying sequence variants in a mixed DNA population from sequence trace data. The heart of the method is based on parsimony: given a wildtyp...
Andy Wildenberg, Steven Skiena, Pavel Sumazin
BMCBI
2011
12 years 8 months ago
ShoRAH: estimating the genetic diversity of a mixed sample from next-generation sequencing data
Background: With next-generation sequencing technologies, experiments that were considered prohibitive only a few years ago are now possible. However, while these technologies hav...
Osvaldo Zagordi, Arnab Bhattacharya, Nicholas Erik...
BMCBI
2007
163views more  BMCBI 2007»
13 years 4 months ago
Strainer: software for analysis of population variation in community genomic datasets
Background: Metagenomic analyses of microbial communities that are comprehensive enough to provide multiple samples of most loci in the genomes of the dominant organism types will...
John M. Eppley, Gene W. Tyson, Wayne M. Getz, Jill...
BMCBI
2011
12 years 8 months ago
Inference of Chromosome-Specific Copy Numbers Using Population Haplotypes
Background: Using microarray and sequencing platforms, a large number of copy number variations (CNVs) have been identified in humans. In practice, because our human genome is a d...
Yao-Ting Huang, Min-Han Wu
BMCBI
2010
101views more  BMCBI 2010»
13 years 4 months ago
Detection of copy number variation from array intensity and sequencing read depth using a stepwise Bayesian model
Background: Copy number variants (CNVs) have been demonstrated to occur at a high frequency and are now widely believed to make a significant contribution to the phenotypic variat...
Zhengdong D. Zhang, Mark B. Gerstein