Data from: Molecular mechanisms of postmating prezygotic reproductive isolation uncovered by transcriptome analysis

Pease JB, Guerrero RF, Sherman N, Hahn M, Moyle LC

Date Published: May 2, 2016

DOI: http://dx.doi.org/10.5061/dryad.j3s5r

 

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Title Commands used for data processing and analysis
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Description Text file containing example commands used for data processing and analysis
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Title Raw read count data
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Description Tab-separated file with information on each locus for all 39 samples
Download de_master_list_v5.2.4_clean.txt (5.724 Mb)
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Title R linear model metadata file
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Description Tab-separated file containing metadata for use in the R linear models
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Title Annotation information for loci
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Description Tab-separated file with gene annotations and coordinates. No coordinates or annotation are available for de novo assembled transcripts labelled "Unmap", "LycoD", or "PennD." Genes starting with Solyc##x are unannotated regions with reference coordinates.
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Title pileup_conv
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Description Python script that converts pileup-format files to allele-specific SNP count text files.
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Title Rmarkdown file for generating the Supplementary Methods, Figures and Tables
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Description A Rmarkdown file that contains instructions for creating the supplementary information PDF with all supplementary figures, tables, and additional methods details.
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Title R source file
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Description R source file that accompanies the Rmarkdown file to perform differential expression calculations
Download solDX_source.R (22.60 Kb)
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Title splitreads_tabulate
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Description Python script that tabulates and collates the split-read pollen/style allele-based count files.
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Title Style-specific unilateral incompatibility differential gene expression results
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Description Tab-separated text file showing results of differential expression on genes showing strong differential expression in the style during UI.
Download style_alleleSpec.filtered.txt (1.799 Kb)
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Title Pollen-specific unilateral incompatibility differential gene expression results
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Description Tab-separated text file showing results of differential expression on genes showing strong differential expression in the pollen during UI.
Download pollen_alleleSpec.filtered.txt (8.097 Kb)
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Title Pollen interspecific differential gene expresssion results
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Description Tab-separated text file showing results of differential expression on genes showing expression differences between S. lycopersicum and S. pennellii pollen
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Title Unilateral incompatibility differential gene expression raw results
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Description Tab-separated file output from R script showing differential expression results from a comparison of style+pollen tissue during unilateral incompatibility to pollinated and unpollinated styles
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Title Unilateral incompatibility differential gene expression filtered results
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Title test2f.meta
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Description Pollen-specific test R metadata file
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Title test2g.meta
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Description Style-specific test R metadata file
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Title http://www.ncbi.nlm.nih.gov/bioproject/PRJNA309342
Description BioProject id for all raw reads (http://www.ncbi.nlm.nih.gov/bioproject/PRJNA309342)
Download //www.ncbi.nlm.nih.gov/bioproject/PRJNA309342 (0 bytes)
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When using this data, please cite the original publication:

Pease JB, Guerrero RF, Sherman NA, Hahn MW, Moyle LC (2016) Molecular mechanisms of postmating prezygotic reproductive isolation uncovered by transcriptome analysis. Molecular Ecology 25(11): 2592–2608. http://dx.doi.org/10.1111/mec.13679

Additionally, please cite the Dryad data package:

Pease JB, Guerrero RF, Sherman N, Hahn M, Moyle LC (2016) Data from: Molecular mechanisms of postmating prezygotic reproductive isolation uncovered by transcriptome analysis. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.j3s5r
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