Sci-ModoM, the lighthouse for quantitative epitranscriptomics, is an open source collection of high-throughput whole-transcriptome sequencing RNA modification sites. The data in these tracks are faceted to reproduce the database Search interface: by modification, organism (cell type, tissue, or organ), and detection technology. They are underpinned by the bedRMod (euf-specs) format.
The metadata for each dataset and subtrack is traceable via its EUFID to the Sci-ModoM Browse interface.
Tracks are displayed for selected dataset and toggled on/off using the track configuration page.
Modifications are gradient-colored according to their frequency (or percent modified), as reported for each dataset:
bigRMod files are binary indexed versions of Browser Extensible Data (BED) files with the first nine fields being the same as BED, and an extra 2 fields for coverage and frequency. A 3rd extra field, raw_score, may be present to store the original bedRMod score.
Refer to the metadata for each track for dataset-specific methodology.
The data used to generate these tracks are also accesible via the Sci-ModoM API in bedRMod format.
Thanks to the Human RNome Project. The data were integrated into the UCSC Genome Browser by ...
Boileau E, Wilhelmi H, Busch A, Cappannini, A, Hildebrand A, Bujnicki JM, Dieterich C. Sci-ModoM: a quantitative database of transcriptome-wide high-throughput RNA modification sites. Nucleic Acids Res. 2025 Jan 6;53(D1):D310-D317. doi: 10.1093/nar/gkae972. PMID: 39498498.