Transcription events constructed by txrevise

List of pre-computed transcription events constructed by txrevise. See the txrevise home page for more details: https://github.com/kauralasoo/txrevise.

If you use txrevise in your research, please cite the following paper: Alasoo, Kaur, et al. "Genetic effects on promoter usage are highly context-specific and contribute to complex traits." Elife 8 (2019): e41673

We have constructed two types of events. In the main event files we have masked the alternative internal exons in the promoter and 3' end events (labeled upstream and downstream). This ensures that we can reliably distinguish promoter usage and 3' end usage from alternative splicing, which are likely to be driven by distinct molecular mechanisms. The main annotation files are:

• Homo_sapiens.GRCh37.87.version_1.tar.gz 
• Homo_sapiens.GRCh38.92.version_1.tar.gz 
• Homo_sapiens.GRCh38.96.version_1.tar.gz

We have also constructed an alternative set of "raw" annotation files where the alternative internal exons in promoter and 3' end events have not masked. This maximises QTL discovery, because we can now also detect splicing event near promoters and 3 ends, but it comes at the expense that we are no longer able to distinguish between different molecular mechanisms. The raw annotation files are:

• Homo_sapiens.GRCh37.87.raw_events.version_1.tar.gz 
• Homo_sapiens.GRCh38.92.raw_events.version_1.tar.gz