Data from: Purifying selection maintains dosage-sensitive genes during degeneration of the threespine stickleback Y chromosome

White MA, Kitano J, Peichel CL

Date Published: September 9, 2015

DOI: http://dx.doi.org/10.5061/dryad.0tn0s

 

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Title pamlDivergence
Downloaded 10 times
Description This program calls the X and Y chromosome alleles for every SNP and indel, finds the longest open reading frame, constructs the sequence alignments, and calls PAML to calculate dN, dS, and dN/dS for every transcript.
Download pamlDivergence.pl (44.49 Kb)
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Title XYDifferentialExpression
Downloaded 5 times
Description This program computes the normalized X:Y RNA expression ratios for each transcript.
Download XYDifferentialExpression.pl (27.47 Kb)
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When using this data, please cite the original publication:

White MA, Kitano J, Peichel CL (2015) Purifying selection maintains dosage-sensitive genes during degeneration of the threespine stickleback Y chromosome. Molecular Biology and Evolution 32(8): 1981-1995. http://dx.doi.org/10.1093/molbev/msv078

Additionally, please cite the Dryad data package:

White MA, Kitano J, Peichel CL (2015) Data from: Purifying selection maintains dosage-sensitive genes during degeneration of the threespine stickleback Y chromosome. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.0tn0s
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