Fig. 2
From: Impact of human gene annotations on RNA-seq differential expression analysis
Complexity of gene models was significantly different among human gene annotations. We calculated mappability, the fraction of reads derived from a transcript that aligned to the original transcript, using 100 bases length reads for each transcript annotated in major human gene annotations (see also “Materials and methods”). The value of mappability ranges from 0 to 1, with higher values indicating lower uncertainty for mapping reads. (A)–(E) show the distribution of transcript mappability for GENCODE, GENCODE-Basic (a subset of GENCODE), RefSeq, RefSeq-Curated (a subset of RefSeq), and NONCODE, respectively. Colored bars indicate the frequency of mRNAs (blue), lncRNAs (yellow), and other biotypes (red). Dotted vertical lines indicate the average mappability for each gene annotation