8 files

Maize and Sorghum Genesets

posted on 09.09.2015, 21:49 by James Schnable

This dataset consists of a set of bed files describing the positions of syntenic and nonsyntenic genes in maize, as well as aggregate counts for these two gene classes in sliding windows of either 5 MB (step size = 1 MB) or 1 MB (step size = 1 MB, no overlap).

Two additional bed files describe the predicted orthologous locations of sorghum genes within the two subgenomes of maize.

One attempts to predict the location for each sorghum gene in each maize subgenome (33,032*2=66,064) and succeeds in predicting locations in 59,384 cases. 

The second file only considers genes syntenically conserved between sorghum and setaria as a method of eliminating the influence of recent gene insertion hotspots within the sorghum genome. This file is recommended for most applications.

A product of the Schnable Lab@UNL


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