Figure 9 shows the UCSC browser with the “basic” view, which only displays full-length transcripts for every loci unless a partial transcript is the only representative of that locus. This is in demand from users that want a more compact view when browsing the genome. However, the “comprehensive” view shows everything annotated and is designed for the user that is interested in all annotated transcripts in a particular region of the genome. The data set can also be filtered by biotype and annotation method to display the transcript, and submitted nucleotide evidence that each particular transcript was built on is also available on the transcript page. GENCODE data are released and accessible in various formats, which are described in Supplemental Table 8. The gene sets and supporting data are submitted as GTF files to the ENCODE Data Coordination Center (DCC) for integration in the UCSC genome browser and for redistribution.
