Table 2 (Supplemental): Complete data for all 100 expression programs discovered by GeneProgram from the Novartis Gene Atlas v2
Author(s)Gerber, Georg K.; Dowell, Robin D.; Jaakkola, Tommi S.; Gifford, David K.
Computational & Systems Biology
MetadataShow full item record
Table 2 (Supplemental): Complete data for all 100 recurrent expression programs (EPs) discovered by GeneProgram. Each EP has two identifying rows, a list of meta-genes, and a list of significantly enriched GO categories. The first identifying row has three columns: (1) the EP identifier (an arbitrarily assigned number), (2) the number of meta-genes in the EP, and (3) the percentage of samples the EP occurs in. The identifying row lists all tissues that use the EP (h_ = human tissue, m_ = mouse tissue). Numbers in parentheses next to each tissue indicate the degree to which the tissue uses the EP.After the identifying rows the set of meta-genes in the EP are listed. Each meta-gene has eight columns: (1) the human RefSeq identifier, (2) the mouse RefSeq identifier, (3) the empirical mean expression level, (4) the empirical mean occurrence percentage, (5) the human gene name, (6) the human Swis-Prot description, (7) the mouse gene name, and (8) the mouse Swis-Prot description.Following the meta-genes are lists of significant GO categories (the first list uses human annotations, and the second uses mouse annotations). The columns for each line in this list are: (1) GO term, (2) enrichment p-value, (3) number of genes in the EP in the category/total genes in the EP with some GO category, (4) category description, and (5) total number of genes in the category that are also in the dataset analyzed.
Massachusetts Institute of Technology Computer Science and Artificial Intelligence Laboratory