Transcription initiation peaks based on FANTOM5 CAGE data on hg38 and mm10

Overview

Decomposition-based peak identification (DPI, https://github.com/hkawaji/dpi1) is applied to the re-processed (re-aligned) FANTOM5 data, upon hg38 (GRCh38) and mm10 (GRCm38), obtained from below:

• http://fantom.gsc.riken.jp/5/datafiles/reprocessed/hg38_v1/basic/
• http://fantom.gsc.riken.jp/5/datafiles/reprocessed/mm10_v1/basic/

The same parameters to the ones used in the previous paper (Forrest ARR, Kawaji H, Rehli M, et al. Nature 507: 462–470, 2014) was used.

Data files

Four data files per assembly are prepared as below.

1. tag cluster in the original definition (*.tc.bed.gz)
2. full set of DPI peaks (*.tc.decompose_smoothing_merged.bed.gz)
3. permissive set of DPI peaks (*.tc.decompose_smoothing_merged.ctssMaxCounts3.bed.gz)
4. robust set of DPI peaks (*.tc.decompose_smoothing_merged.ctssMaxCounts11_ctssMaxTpm1.bed.gz)

Acknowledgement

This data set is supported by Research Grant from MEXT to RIKEN Preventive Medicine and Diagnosis Innovation Program, RIKEN Center for Life Science Technologies, and JSPS KAKENHI Grant-in-Aid for Scientific Research No. 16H02902.