Data from: Genomic islands of speciation separate cichlid ecomorphs in an East African crater lake

Malinsky M, Challis RJ, Tyers AM, Schiffels S, Terai Y, Ngatunga BP, Miska EA, Durbin R, Genner MJ, Turner GF

Date Published: December 23, 2015

DOI: http://dx.doi.org/10.5061/dryad.770mc

 

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Title SNP chip (Sequenom MassARRAY) primers
Downloaded 15 times
Description Primers for the SNP chip used in the mate-choice experiments (Figure 4; Table S10).
Download I1150_cichlid_design_PCR_primers_sorted_used.txt (7.24 Kb)
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Title All whole-genome variant calls (after BEAGLE genotype refinement)
Downloaded 92 times
Description The final product of our variant calling pipeline; obtained as described under: "Variant calling, filtering, and genotype refinement" in Supplementary Methods. This file includes both SNPs and indels. High coverage (15x) Massoko littoral and benthic samples are denoted by "HC" in sample names.
Download Massoko_Dryad_VCF_final.vcf.gz (577.4 Mb)
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Title Main whole genome phylogenetic tree
Downloaded 11 times
Description Figure 2A
Download Massoko_mainWGtree_forDryad.nexus (19.07 Kb)
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Title Bootstrap replicates for whole genome phylogenetic tree
Downloaded 18 times
Description Bootstrap replicates for Figure 2A
Download Massoko_bootstrapReplicates_forDryad.nexus (613.8 Kb)
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When using this data, please cite the original publication:

Malinsky M, Challis RJ, Tyers AM, Schiffels S, Terai Y, Ngatunga BP, Miska EA, Durbin R, Genner MJ, Turner GF (2015) Genomic islands of speciation separate cichlid ecomorphs in an East African crater lake. Science 350(6267): 1493-1498. http://dx.doi.org/10.1126/science.aac9927

Additionally, please cite the Dryad data package:

Malinsky M, Challis RJ, Tyers AM, Schiffels S, Terai Y, Ngatunga BP, Miska EA, Durbin R, Genner MJ, Turner GF (2015) Data from: Genomic islands of speciation separate cichlid ecomorphs in an East African crater lake. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.770mc
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