KALLISTO estimated counts and LIMMA-fit values for HDAC mutant expression profiles.

Excel-compatible tab-delimited text conforming to JavaTreeView extended CDT format. Each row is a transcript, with the UNIQID column giving the ucsf_hc.01_1.G217B systematic gene name. The NAME column gives short names taken from S1 Data of [86] with additional names and corrections based on human curation. Description and HcG217B_pred (WUSTL G217B predicted gene accessions), HcG217B_rc (Edwards and colleagues G217B transcript accessions [11]), and HcG217B_acc (UCSF1 gene accessions [86]); and Ryp1_ChIP, Ryp2_ChIP, Ryp3_ChIP, and Ryp4_ChIP (indicating genes with promoters bound by Ryp TFs in [17]) are taken from S1 Data of [86]. The next 5 columns give LIMMA BH-adjusted p-values for differential expression in each of the 5 contrasts, and the corresponding LIMMA-fit log2 ratios are given in the final 5 columns. The next 18 columns give KALLISTO estimated counts for each transcript in each sample. GWEIGHT is a place-holder column for JavaTreeView compatibility. The estimated counts in this file are sufficient to recapitulate the LIMMA analysis. (S7_Table.TXT)