Research graph
References from Computational Biology Solutions to Identify Enhancers-target Gene Pairs. Local targets link to admitted publications; unresolved targets remain external evidence.
10.1038/nature12753
10.1038/nature12753 · External reference
10.1038/nrg3458
10.1038/nrg3458 · External reference
10.1016/j.cell.2015.08.008
10.1016/j.cell.2015.08.008 · External reference
10.1038/nature11279
10.1038/nature11279 · External reference
10.1038/nrg2957
10.1038/nrg2957 · External reference
10.1186/gb-2012-13-9-r48
10.1186/gb-2012-13-9-r48 · External reference
Mammalian transcriptional hotspots are enriched for tissue specific enhancers near cell type specific highly expressed genes and are predicted to act as transcriptional activator hubs
10.1186/s12859-014-0412-0 · 2014 · External reference
10.1038/nrm3951
10.1038/nrm3951 · External reference
Integrative analysis of 111 reference human epigenomes
10.1038/nature14248 · 2015 · External reference
10.1016/j.ygeno.2009.02.002
10.1016/j.ygeno.2009.02.002 · External reference
In the loop: promoter–enhancer interactions and bioinformatics
2016 · External reference
10.1038/nature11247
10.1038/nature11247 · External reference
10.1038/nature09380
10.1038/nature09380 · External reference
10.1038/nature11082
10.1038/nature11082 · External reference
10.1038/nature12644
10.1038/nature12644 · External reference
10.1126/science.1067799
10.1126/science.1067799 · External reference
10.1126/science.1181369
10.1126/science.1181369 · External reference
10.1038/nature08497
10.1038/nature08497 · External reference
10.1101/gr.185272.114
10.1101/gr.185272.114 · External reference
10.1038/ng.3286
10.1038/ng.3286 · External reference
10.1016/j.cell.2014.11.021
10.1016/j.cell.2014.11.021 · External reference
Multiscale 3D genome rewiring during mouse neural development
10.1016/j.cell.2017.09.043 · 2017 · External reference
10.1007/s12551-018-0489-1
10.1007/s12551-018-0489-1 · External reference
10.1016/0092-8674(81)90413-x
10.1016/0092-8674(81)90413-x · External reference
10.1016/j.cell.2013.09.053
10.1016/j.cell.2013.09.053 · External reference
10.1038/ng.3331
10.1038/ng.3331 · External reference
10.1126/science.1222794
10.1126/science.1222794 · External reference
10.1038/nature22992
10.1038/nature22992 · External reference
10.1007/s00412-015-0530-0
10.1007/s00412-015-0530-0 · External reference
10.1016/j.cell.2015.04.004
10.1016/j.cell.2015.04.004 · External reference
10.1038/s41576-018-0007-0
10.1038/s41576-018-0007-0 · External reference
The Cancer genome atlas research network HL. A Pan-Cancer analysis of enhancer expression in nearly 9000 patient samples
10.1016/j.cell.2018.03.027 · 2018 · External reference
10.1038/nsmb.2784
10.1038/nsmb.2784 · External reference
10.1016/j.tig.2015.11.004
10.1016/j.tig.2015.11.004 · External reference
10.1016/j.gpb.2018.05.003
10.1016/j.gpb.2018.05.003 · External reference
Short DNA sequence patterns accurately identify broadly active human enhancers
10.1186/s12864-017-3934-9 · 2017 · External reference
10.1101/gad.310367.117
10.1101/gad.310367.117 · External reference
10.1126/science.1232542
10.1126/science.1232542 · External reference
10.1038/nbt.2137
10.1038/nbt.2137 · External reference
RAEdb: a database of enhancers identified by high-throughput reporter assays
2019 · External reference
10.1093/nar/gkl822
10.1093/nar/gkl822 · External reference
10.1016/j.celrep.2018.07.041
10.1016/j.celrep.2018.07.041 · External reference
Chromatin state signatures associated with tissue-specific gene expression and enhancer activity in the embryonic limb
10.1101/gr.129817.111 · 2012 · External reference
ChIP-seq accurately predicts tissue-specific activity of enhancers
10.1038/nature07730 · 2010 · External reference
10.1038/ng.1064
10.1038/ng.1064 · External reference
A unique chromatin signature uncovers early developmental enhancers in humans
10.1038/nature09692 · 2010 · External reference
10.1038/nature07829
10.1038/nature07829 · External reference
10.4161/trns.2.6.18747
10.4161/trns.2.6.18747 · External reference
10.1038/ng1966
10.1038/ng1966 · External reference
10.1038/nature11233
10.1038/nature11233 · External reference
10.1038/nbt.1662
10.1038/nbt.1662 · External reference
10.1073/pnas.1016071107
10.1073/pnas.1016071107 · External reference
10.1074/jbc.r111.296491
10.1074/jbc.r111.296491 · External reference
10.1186/1756-8935-7-33
10.1186/1756-8935-7-33 · External reference
10.1016/j.cell.2007.12.014
10.1016/j.cell.2007.12.014 · External reference
10.1002/0471142727.mb2129s109
10.1002/0471142727.mb2129s109 · External reference
10.1038/nmeth.3768
10.1038/nmeth.3768 · External reference
DNase I footprint analysis of protein-DNA binding
2001 · External reference
10.1186/s13059-019-1642-2
10.1186/s13059-019-1642-2 · External reference
10.1186/gb-2008-9-9-r137
10.1186/gb-2008-9-9-r137 · External reference
10.1038/nbt1010-1045
10.1038/nbt1010-1045 · External reference
10.1038/ng.759
10.1038/ng.759 · External reference
10.1371/journal.pone.0096303
10.1371/journal.pone.0096303 · External reference
10.1093/bib/bbv101
10.1093/bib/bbv101 · External reference
Unresolved reference
2010 · External reference
Unsupervised pattern discovery in human chromatin structure through genomic segmentation
10.1038/nmeth.1937 · 2012 · External reference
10.1038/nmeth.1906
10.1038/nmeth.1906 · External reference
10.1371/journal.pcbi.1002968
10.1371/journal.pcbi.1002968 · External reference
DEEP: a general computational framework for predicting enhancers
10.1093/nar/gku1058 · 2014 · External reference
10.1038/nature09033
10.1038/nature09033 · External reference
10.1371/journal.pbio.1000384
10.1371/journal.pbio.1000384 · External reference
10.1126/science.1259418
10.1126/science.1259418 · External reference
10.1038/nrg.2016.4
10.1038/nrg.2016.4 · External reference
10.1038/nmeth0306-211
10.1038/nmeth0306-211 · External reference
10.1038/nprot.2012.005
10.1038/nprot.2012.005 · External reference
10.1101/gr.084541.108
10.1101/gr.084541.108 · External reference
10.1126/science.1162228
10.1126/science.1162228 · External reference
10.1038/nature12209
10.1038/nature12209 · External reference
Native elongating transcript sequencing (NET-seq)
10.1002/0471142727.mb0414s98 · 2012 · External reference
10.1126/science.1229386
10.1126/science.1229386 · External reference
10.1038/nprot.2016.086
10.1038/nprot.2016.086 · External reference
10.1126/science.1181421
10.1126/science.1181421 · External reference
10.1126/science.aad9841
10.1126/science.aad9841 · External reference
10.1038/nature13182
10.1038/nature13182 · External reference
10.1038/nature21374
10.1038/nature21374 · External reference
10.1038/s41592-018-0014-2
10.1038/s41592-018-0014-2 · External reference
10.1038/nature12787
10.1038/nature12787 · External reference
10.1038/ng.3142
10.1038/ng.3142 · External reference
10.1093/nar/gkv1189
10.1093/nar/gkv1189 · External reference
Ensembl 2019
2018 · External reference
10.1038/nature11243
10.1038/nature11243 · External reference
10.1038/nature11232
10.1038/nature11232 · External reference
10.1101/gr.152140.112
10.1101/gr.152140.112 · External reference
Inferring regulatory element landscapes and transcription factor networks from cancer methylomes
2015 · External reference
ELMER v.2: an R/Bioconductor package to reconstruct gene regulatory networks from DNA methylation and transcriptome profiles
2018 · External reference
10.1101/gr.164079.113
10.1101/gr.164079.113 · External reference
Global view of enhancer-promoter interactome in human cells
2014 · External reference
McEnhancer: predicting gene expression via semi-supervised assignment of enhancers to target genes
10.1186/s13059-017-1316-x · 2017 · External reference
Systematic identification of mammalian regulatory motifs' target genes and functions
10.1038/nmeth.1188 · 2008 · External reference
10.1038/ng.3950
10.1038/ng.3950 · External reference
10.1038/nature09906
10.1038/nature09906 · External reference
PETModule: a motif module based approach for enhancer target gene prediction
2016 · External reference
10.1038/ng.3539
10.1038/ng.3539 · External reference
10.1016/j.stem.2013.04.013
10.1016/j.stem.2013.04.013 · External reference
10.1038/s41588-017-0030-7
10.1038/s41588-017-0030-7 · External reference
10.1016/j.stem.2013.05.010
10.1016/j.stem.2013.05.010 · External reference
10.1038/s41588-018-0221-x
10.1038/s41588-018-0221-x · External reference
10.1038/ng.947
10.1038/ng.947 · External reference
10.1093/nar/gkv865
10.1093/nar/gkv865 · External reference
FOCS: a novel method for analyzing enhancer and gene activity map, an extensive enhancer–promoter
10.1186/s13059-018-1432-2 · 2018 · External reference
GeneHancer: genome-wide integration of enhancers and target genes in GeneCards
10.1093/database/bax028 · 2017 · External reference
Constructing 3D interaction maps from 1D epigenomes
2016 · External reference
Genome-wide enhancer - gene regulatory maps in two vertebrate genomes
2018 · External reference
10.1038/ncomms7904
10.1038/ncomms7904 · External reference
10.1038/ng.2653
10.1038/ng.2653 · External reference
10.1038/nmeth.4325
10.1038/nmeth.4325 · External reference
10.1038/nrg2641
10.1038/nrg2641 · External reference
Unresolved reference
2010 · External reference
