General Information of GWAS
Summary Statistics

General GWAS Summary
Project: Genome-wide association study of 107 phenotypes (Atwell et al.) Experiment Type Genome-wide Association Study
Date Started:Sept. 30, 2014, 11:30 a.m.Date Finished:Sept. 30, 2014, 11:30 a.m.

Selected Species and Dataset
Selected Species: Arabidopsis thaliana
Selected Dataset: AtPolyDB (call method 75, Horton et al.)
Selected Gene Annotation Set: Gene Annotations (TAIR9)

Selected SNPs, Encodings and Filters
Selected SNPs: All SNPs selected MAF Filter:0.1
SNP encoding: Additive Selected Principle Components:0

Selected Phenotype
Phenotype Name: Emco5 Selected Transformation:None
Selected Algorithm: EMMAX Histogram:
Algorithm Details
Number of SNPs before Filtering: 214051 Number of SNPs after Filtering:176870
Number of Samples before Filtering: 86 Number of Samples after Filtering: 86
AIC Null-Model: 77.21 AICc Null-Model:77.26
BIC Null-Model: 79.66
Variance Explained by the Null Model: 5.9e-04


authorstitlepub yearjournalvolumepagesdoi
Matthew Horton et al.Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegMap panel2012Nature Genetics44212-21610.1038/ng.1042
Jun Cao et al.Whole-genome sequencing of multiple Arabidopsis thaliana populations2011Nature Genetics43956-96310.1038/ng.911
Susanna Atwell et al.Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines2010Nature465627-63110.1038/nature08800
Hyun Kang et al.Variance component model to account for sample structure in genome-wide association studies2010Nature Genetics42348-35410.1038/ng.548