TY - JOUR
T1 - EFORGE v2.0
T2 - Updated analysis of cell type-specific signal in epigenomic data
AU - Breeze, Charles E.
AU - Reynolds, Alex P.
AU - Van Dongen, Jenny
AU - Dunham, Ian
AU - Lazar, John
AU - Neph, Shane
AU - Vierstra, Jeff
AU - Bourque, Guillaume
AU - Teschendorff, Andrew E.
AU - Stamatoyannopoulos, John A.
AU - Beck, Stephan
PY - 2019/11/1
Y1 - 2019/11/1
N2 - The Illumina Infinium EPIC BeadChip is a new high-throughput array for DNA methylation analysis, extending the earlier 450k array by over 400 000 new sites. Previously, a method named eFORGE was developed to provide insights into cell type-specific and cell-composition effects for 450k data. Here, we present a significantly updated and improved version of eFORGE that can analyze both EPIC and 450k array data. New features include analysis of chromatin states, transcription factor motifs and DNase I footprints, providing tools for epigenome-wide association study interpretation and epigenome editing.
AB - The Illumina Infinium EPIC BeadChip is a new high-throughput array for DNA methylation analysis, extending the earlier 450k array by over 400 000 new sites. Previously, a method named eFORGE was developed to provide insights into cell type-specific and cell-composition effects for 450k data. Here, we present a significantly updated and improved version of eFORGE that can analyze both EPIC and 450k array data. New features include analysis of chromatin states, transcription factor motifs and DNase I footprints, providing tools for epigenome-wide association study interpretation and epigenome editing.
UR - http://www.scopus.com/inward/record.url?scp=85074964176&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=85074964176&partnerID=8YFLogxK
U2 - 10.1093/bioinformatics/btz456
DO - 10.1093/bioinformatics/btz456
M3 - Article
C2 - 31161210
AN - SCOPUS:85074964176
VL - 35
SP - 4767
EP - 4769
JO - Bioinformatics (Oxford, England)
JF - Bioinformatics (Oxford, England)
SN - 1367-4803
IS - 22
ER -