Demircioğlu, D., Cukuroglu, E., Kindermans, M., Nandi, T., Calabrese, C., Fonseca, N. A., Kahles, A., Lehmann, K., Stegle, O., Brazma, A., Brooks, A.N., Rätsch, G., Tan, P., Göke, J.(2019). A Pan-cancer Transcriptome Analysis Reveals Pervasive Regulation through Alternative Promoters. Cell, 178(6) 1465-1477.
Software:
proActiv: estimate promoter activity using RNA-Seq data. The proActiv R package is available on https://github.com/GoekeLab/proActiv
Gene and Promoter Annotations:
Gene and promoter annotations used in this study can be downloaded here:
The promoter annotation tables can also be generated from any gtf file using proActiv
Data:
The filtered data is available as supplementary material with the publication: https://www.cell.com/cell/fulltext/S0092-8674(19)30906-7
In addition, the results for all promoters before filtering can be downloaded here:
- Tissue-Specific Promoters
- Cancer-Associated Promoters
- Pan-Cancer-Associated Promoters
- Multi-Cancer type Promoters
- Molecular Subtype Promoters
You can download the complete set of differential promoter tables here, for convenience we recommend the download of the tissue-specific sets provided below.
Tissue-Specific Promoters
Cancer-Associated Promoters
Pan-Cancer-Associated Promoters
Multi-Cancer type Promoters
Molecular Subtype Promoters
Göke Lab 