Short | TOTAL | PolyA+ | PolyA- | |||
WHOLE CELL | ||||||
NUCLEUS | ||||||
Nucleolus | ||||||
Nucleoplasm | ||||||
Chromatin | ||||||
CYTOSOL | ||||||
RNAseq | ||||||
Polysomes | ||||||
Each compartment is divided into two spaces: a top space for K562, and bottom space for GM12878. | ||||||
For CAGE, + links to the + strand elements, – to the – strand elements. | ||||||
For DiTAGS, a correspondance between the element file and the file submitted to the DCC is provided here: http://genomewiki.ucsc.edu/EncodeDCC/index.php/RNA/Elements/Stranded_PET_clusters | ||||||
For RNAseq of whole cell polyA+ (Caltech) data is unstranded, 1 links to replicate no 1 and 2 to replicate no 2, 400bp links to 400bp insert size data, the elements provided are novel wrt the annotation. | ||||||
For RNAseq of whole cell total (CSHL), data is stranded, the two replicates were pooled for whole cell. | ||||||