2014-02-05
Marina Lizio (marina.lizio@riken.jp)
Coordinate bed files for both human and mouse CAGE peaks were added. Both robust set and permissive set of peaks are available.
hg19.cage_peak_coord_*.bed.gz
mm9.cage_peak_coord_*.bed.gz
 
2012-12-07
Marina Lizio (marina.lizio@riken.jp)
Clustering of CAGE TSS following DPI method (kawaji@gsc.riken.jp)
This folder contains CAGE peaks expression tables for the robust set of peaks. Annotations are provided for the permissive set of peaks.

hg19.cage_peak_ann.txt.gz - CAGE peak based table with annotated peaks for human samples
hg19.cage_peak_tpm.osc.txt.gz - CAGE peak based expression table (RLE normalized) for human samples [see edgeR documentation for further details about normalization method]
hg19.cage_peak_counts.osc.txt.gz - CAGE peak based expression table for human samples
hg19.cage_peak_tpm_ann.osc.txt.gz - CAGE peak based expression table (RLE normalized) for human with annotation
hg19.cage_peak_counts_ann.osc.txt.gz - CAGE peak based expression table for human with annotation
hg19.cage_peak_relative_expr.txt.gz - CAGE peak based relative expression (log10 expression relative to median) for human
mm9.cage_peak_ann.txt.gz - CAGE peak based table with annotated peaks for mouse samples
mm9.cage_peak_tpm.osc.txt.gz - CAGE peak based expression table (RLE normalized) for mouse samples
mm9.cage_peak_counts.osc.txt.gz - CAGE peak based expression table for human samples
mm9.cage_peak_tpm_ann.osc.txt.gz - CAGE peak based expression table (RLE normalized) for mouse with annotation
mm9.cage_peak_counts_ann.osc.txt.gz - CAGE peak based expression table for mouse with annotation
mm9.cage_peak_relative_expr.txt.gz - CAGE peak based relative expression (log10 expression relative to median) for mouse