Maize and Sorghum Genesets

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

本数据集包含若干BED格式文件（BED），用于描述玉米（maize）中共线性基因与非共线性基因的位置信息，同时附带了两类基因在两类滑动窗口下的聚合计数结果：一类窗口大小为5 MB，步长为1 MB；另一类窗口大小为1 MB，步长为1 MB且无重叠。另有两份BED格式文件，用于描述高粱（sorghum）基因在玉米两个亚基因组中的预测直系同源定位结果。其中一份文件尝试为每个高粱基因在两个玉米亚基因组中分别预测其定位（共计33032×2=66064个预测任务），最终在59384个任务中成功得到定位结果。第二份文件仅考虑高粱与狗尾草属（Setaria）间共线性保守的基因，以此消除高粱基因组内近期基因插入热点的影响，该文件被推荐用于绝大多数研究应用场景。本数据集为施纳布尔实验室（Schnable Lab@UNL，美国内布拉斯加大学林肯分校）的研究成果。