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Simple models of genomic variation in human SNP density.

Publication ,  Journal Article
Sainudiin, R; Clark, AG; Durrett, RT
Published in: BMC genomics
June 2007

Descriptive hierarchical Poisson models and population-genetic coalescent mixture models are used to describe the observed variation in single-nucleotide polymorphism (SNP) density from samples of size two across the human genome.Using empirical estimates of recombination rate across the human genome and the observed SNP density distribution, we produce a maximum likelihood estimate of the genomic heterogeneity in the scaled mutation rate theta. Such models produce significantly better fits to the observed SNP density distribution than those that ignore the empirically observed recombinational heterogeneities.Accounting for mutational and recombinational heterogeneities can allow for empirically sound null distributions in genome scans for "outliers", when the alternative hypotheses include fundamentally historical and unobserved phenomena.

Duke Scholars

Published In

BMC genomics

DOI

EISSN

1471-2164

ISSN

1471-2164

Publication Date

June 2007

Volume

8

Start / End Page

146

Related Subject Headings

  • Recombination, Genetic
  • Polymorphism, Single Nucleotide
  • Poisson Distribution
  • Mutation
  • Models, Statistical
  • Likelihood Functions
  • Humans
  • Genetic Variation
  • Databases, Genetic
  • DNA Mutational Analysis
 

Citation

APA
Chicago
ICMJE
MLA
NLM
Sainudiin, R., Clark, A. G., & Durrett, R. T. (2007). Simple models of genomic variation in human SNP density. BMC Genomics, 8, 146. https://doi.org/10.1186/1471-2164-8-146
Sainudiin, Raazesh, Andrew G. Clark, and Richard T. Durrett. “Simple models of genomic variation in human SNP density.BMC Genomics 8 (June 2007): 146. https://doi.org/10.1186/1471-2164-8-146.
Sainudiin R, Clark AG, Durrett RT. Simple models of genomic variation in human SNP density. BMC genomics. 2007 Jun;8:146.
Sainudiin, Raazesh, et al. “Simple models of genomic variation in human SNP density.BMC Genomics, vol. 8, June 2007, p. 146. Epmc, doi:10.1186/1471-2164-8-146.
Sainudiin R, Clark AG, Durrett RT. Simple models of genomic variation in human SNP density. BMC genomics. 2007 Jun;8:146.
Journal cover image

Published In

BMC genomics

DOI

EISSN

1471-2164

ISSN

1471-2164

Publication Date

June 2007

Volume

8

Start / End Page

146

Related Subject Headings

  • Recombination, Genetic
  • Polymorphism, Single Nucleotide
  • Poisson Distribution
  • Mutation
  • Models, Statistical
  • Likelihood Functions
  • Humans
  • Genetic Variation
  • Databases, Genetic
  • DNA Mutational Analysis