Data for: Tomato root specialized metabolites evolved through gene duplication and regulatory divergence within a biosynthetic gene cluster

# **Data for: Tomato root specialized metabolites evolved through gene duplication and regulatory divergence within a biosynthetic gene cluster** [https://doi.org/10.5061/dryad.8cz8w9gzh](https://doi.org/10.5061/dryad.8cz8w9gzh) This dataset consists of Table S2 from Tomato root specialized metabolites evolved through gene duplication and regulatory divergence within a biosynthetic gene cluster. ## **Description of the data and file structure** Table S2 summarizes results from differential gene expression analysis and weighted gene coexpression analysis (WGCNA) of 274 publicly available cultivated tomato (Solanum lycopersicum) transcriptome samples, representing 84 tissue-developmental stage sample groups. Table S2 contains 125 columns and 26,364 rows, with results from each gene expressed across the 84 tissue-developmental stage groups (26,364 of 34,620 annotated genes were expressed in our dataset). The WGCNA coexpression network module that each gene falls into is listed in column one. The name, description, and genomic position of each gene are listed in columns two to seven. Columns eight to 41 summarize results from differential gene expression analyses, including relative transcript abundance as log2 adjusted fold-change (adjFC) and multiple-test corrected p-value for each pairwise comparison. Columns 42 to 125 list absolute expression abundance in transcripts per million (TPM) for each of the 84 tissue-developmental stage sample groups. For details on each transcriptome sample, please refer to Table S1 of “Tomato root specialized metabolites evolved through gene duplication and regulatory divergence within a biosynthetic gene cluster”. For details on differential gene expression analysis and WGCNA, please refer to the methods documented in “Tomato root specialized metabolites evolved through gene duplication and regulatory divergence within a biosynthetic gene cluster”.