While the remainder of this study focuses on this catalog of putative lincRNAs (Dataset S2), we have provided multiple alternative lincRNA catalogs. These include a combined catalog of the lincRNAs identified in this study merged (see Methods) with a set of additional lincRNAs identified in Cabili, et al. [16] which passed all of our filters except were not expressed at FPKM>1 in any of the RNA-seq datasets analyzed here. The added lincRNAs are expressed at FPKM>1 in one or more of the RNA-seq datasets analyzed in Cabili et al. [16], which are entirely distinct from the datasets analyzed here, and are therefore likely to be genuine lincRNAs by our criteria. This catalog (Dataset S3) includes 54,784 lincRNAs at FPKM>1 (920 additional lincRNAs compared to Dataset S2), 3,764 lincRNAs at FPKM>10 (88 additional lincRNAs), and 942 lincRNAs at FPKM>30 (17 additional lincRNAs). In addition, we have included a catalog of spliced lincRNAs that are expressed at FPKM>1 in at least one dataset (4,576 lincRNAs, Dataset S4), of which 61% are exclusively composed of de novo assembled transcripts discovered in this study.
