A unified encyclopedia of human functional DNA elements through fully automated annotation of 164 human cell types

Table 2 Reference SAGA annotations used to train interpretation classifier

Reference	Method	Multi-cell type annotation type	Cell types	States per cell type	Interpreted states
[23]	Segway	Independent	GM12878, H1-hESC, HepG2, HUVEC, K562	25	125
[23]	ChromHMM	Concatenated	GM12878, H1-hESC, HeLa-S3, HepG2, HUVEC, K562	25	25
[39]	ChromHMM	Concatenated	GM12878, H1-hESC, HepG2, HMEC, HSMM, HUVEC, K562, NHEK, NHLF	15	15
[13]	ChromHMM	Concatenated	GM12878, H1-hESC, HMEC, HUVEC, K562, NHLF	15,18,25	58
This work	Segway	Independent	H1-hESC, AG04449, HSMM, RIGHT_ATRIUM	13-27	71

The annotations from [13] were performed on 111 cell types, so we chose a representative six from which to compute features

ISSN: 1474-760X