Figure 5
From: Assessing the impact of human genome annotation choice on RNA-seq expression estimates
The percentage of present genomic elements varies with different annotations and gene or isoform subgroups. Sub-figures (a)-(d) represent different combinations of samples (top: MAQC samples with SRA accession number SRP000727; bottom: thrombin study samples with SRA accession number SRP008482) and expression estimates (left: TPM estimates from OSA package; right: FPKM estimates from TopHat alignment with Cufflinks quantification). The RefSeq annotation usually has the highest percentage of present genomic elements, while the Ensembl or Vega annotation generally has the lowest percentage of present genomic elements. The variation is small when focusing on only common genes.