Data from: Comparative population genomics of latitudinal variation in D. simulans and D. melanogaster

Machado HE, Bergland AO, Behrman EL, O'Brien KR, Schmidt PS, Petrov DA

Date Published: October 29, 2015

DOI: http://dx.doi.org/10.5061/dryad.3hf2q

 

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Title D. melanogaster SNP allele frequency
Downloaded 8 times
Description D. melanogaster population allele frequency (*.freq) and number of chromosomes () for each SNP used in the final analyses. These data were originally published in Bergland et al 2014. The number of chromosomes is calculated as an effective number of chromosomes based on a model of pool-seq error (see Methods). The SNPs are in the coordinates of D. melanogaster genome release 5.5 (FlyBase).
Download mel_freq_dp_final_Oct2015.txt (61.45 Mb)
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Title D. simulans SNP allele frequency
Downloaded 11 times
Description D. simulans population allele frequency (*.freq) and number of chromosomes (*.dp) for each SNP used in the final analyses. The number of chromosomes for the pool-seq populations (*.Np) is calculated as an effective number of chromosomes based on a model of pool-seq error (see Methods). The SNPs are in the coordinates of the D. simulans genome v2 as published in Hu et al 2013.
Download sim_freq_dp_final_Oct2015.txt (375.8 Mb)
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Title D. melanogaster median Fst and latitude
Downloaded 5 times
Description D. melanogaster Fst values for pair-wise population comparisons and the latitude of each population. The analysis of isolation by distance used the median Fst (median.Fst) and the difference in latitude (lat.diff) between the two populations being compared.
Download mel_populations_latitude_Fst40.txt (620 bytes)
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Title D. simulans median Fst and latitude
Downloaded 5 times
Description D. simulans Fst values for pair-wise population comparisons and the latitude of each population. The analysis of isolation by distance used the median Fst (median.Fst) and the difference in latitude (lat.diff) between the two populations being compared.
Download sim_populations_latitude_Fst40.txt (949 bytes)
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Title D. melanogaster clinal regressions
Downloaded 7 times
Description D. melanogaster results of the regression of allele frequency with latitude, per SNP. The SNPs are in the coordinates of D. melanogaster genome release 5.5 (FlyBase).
Download melclinal_auto2x_Np_Dec2014_qvalue.txt (40.03 Mb)
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Title D. simulans clinal regressions
Downloaded 10 times
Description D. simulans results of the regression of allele frequency with latitude, per SNP. The SNPs are in the coordinates of the D. simulans genome v2 as published in Hu et al 2013.
Download simclinal_auto2x_Np_Dec2014_qvalue.txt (154.5 Mb)
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Title D. melanogaster and D. simulans shared clinal genes
Downloaded 11 times
Description Genes found to have at least one clinal SNP in both D. melanogaster and D. simulans.
Download sharedgenes.txt (25.11 Kb)
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When using this data, please cite the original publication:

Machado HE, Bergland AO, Behrman EL, O'Brien KR, Schmidt PS, Petrov DA (2015) Data from: Comparative population genomics of latitudinal variation in D. simulans and D. melanogaster. Molecular Ecology 25(3): 723–740. http://dx.doi.org/10.1111/mec.13446

Additionally, please cite the Dryad data package:

Machado HE, Bergland AO, Behrman EL, O'Brien KR, Schmidt PS, Petrov DA (2015) Data from: Comparative population genomics of latitudinal variation in D. simulans and D. melanogaster. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.3hf2q
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