Data Used in Gronau et al. Nat Genet 2011


Data

File

Description

Size

Last updated

locus-list-sorted.bed.gz List of 37,574 1kb long genomic loci used in demographic analysis0.3 MBNov 04, 2011
neutralLoci-7genomes.txt.gz Alignments of the seven human individuals and chimp across the 37,574 1kb long loci used in demographic analysis 18 MBNov 04, 2011
individualGenomes.tar.gz Genome-wide genotype data for the seven human individual genomes studied in the paper:   Venter,   YH,   SJK,   ABT,   KB1,   NA18507,   and   NA12891
(see README file)
409.3 MBMay 17, 2012
genomicFilters.tar.gz Genome-wide filters: mappability, selection, etc.  (see README file)53.3 MBMay 17, 2012
filter_CpG.bed.gz Positions of genome-wide CpG site pairs that are masked in demographic analysis 175.7 MBMay 17, 2012
panTro2.tar.gz Alignment of chimpanzee genome (PanTro2) to human reference (one file for differences and one file for 'N's) 199.6 MBMay 17, 2012

Notes

- All genomic positions are given in 0-based coordinates for hg18 (NCMI human genome build 36).
- Some settings have been slightly modified since publication.


Useful Links

  G-PhoCS Generalized Phylogenetic Coalescent Sampler for demographic analysis.
  BSNP A Bayesian SNP caller from short read data with reduced reference bias.

Cite

Gronau I, Hubisz MJ, Gulko B, Danko CG, Siepel A.   Bayesian inference of ancient human demography from individual genome sequences.  Nature Genetics 43 1031–1034.   2011


Contact

For questions not answered in our paper and supplementary material, please contact