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CLUMPP: a cluster matching and permutation program for dealing with label switching and multimodality in analysis of population structure
Three algorithms for aligning multiple replicate analyses of the same data set using the computer program CLUMPP (CLUster Matching and Permutation Program) are described.
distruct: a program for the graphical display of population structure
- N. Rosenberg
- 10 December 2003
In analysis of multilocus genotypes from structured populations, individual coefficients of membership in subpopulations are often estimated using programs such as STRUCTURE . DISTRUCT provides a…
Association mapping in structured populations.
- J. Pritchard, M. Stephens, N. Rosenberg, P. Donnelly
- BiologyAmerican journal of human genetics
- 1 July 2000
This article describes a novel, statistically valid, method for case-control association studies in structured populations that uses a set of unlinked genetic markers to infer details of population structure, and to estimate the ancestry of sampled individuals, before using this information to test for associations within subpopulations.
Genetic Structure of Human Populations
General agreement of genetic and predefined populations suggests that self-reported ancestry can facilitate assessments of epidemiological risks but does not obviate the need to use genetic information in genetic association studies.
Inferring species trees directly from biallelic genetic markers: bypassing gene trees in a full coalescent analysis.
Clumpak: a program for identifying clustering modes and packaging population structure inferences across K
- N. Kopelman, Jonathan Mayzel, M. Jakobsson, N. Rosenberg, I. Mayrose
- BiologyMolecular ecology resources
- 1 September 2015
Clumpak, available at http://clumpak.tau.ac.il, simplifies the use of model-based analyses of population structure in population genetics and molecular ecology by automating the postprocessing of results of model‐based population structure analyses.
The Pattern of Polymorphism in Arabidopsis thaliana
The data support the utility of A. thaliana as a model for evolutionary functional genomics and suggest there is a genome-wide excess of rare alleles and too much variation between genomic regions in the level of polymorphism.
ADZE: a rarefaction approach for counting alleles private to combinations of populations
A generalized rarefaction approach for counting alleles private to combinations of populations, which supports the possibility of a migration out of Africa into Oceania separate from the migrations responsible for the majority of the ancestry of the modern populations of Asia.
Support from the relationship of genetic and geographic distance in human populations for a serial founder effect originating in Africa.
- Sohini Ramachandran, Omkar Deshpande, C. Roseman, N. Rosenberg, M. Feldman, L. Cavalli-Sforza
- BiologyProceedings of the National Academy of Sciences…
- 1 November 2005
It is found that heterozygosities in the globally distributed populations of the data set are best explained by an expansion originating in Africa and that no geographic origin outside of Africa accounts as well for the observed patterns of genetic diversity.