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References from LAWS-HiC: A Locally Adaptive Weighting and Screening (LAWS) Approach to Improve Detection of Long-Range Chromatin Interactions from Hi-C Data. Local targets link to admitted publications; unresolved targets remain external evidence.
Gene regulation in the 3D genome
10.1093/hmg/ddy164 · 2018 · External reference
Regulatory landscaping: How enhancer-promoter communication is sculpted in 3D
10.1016/j.molcel.2019.05.032 · 2019 · External reference
Comprehensive mapping of long-range interactions reveals folding principles of the human genome
10.1126/science.1181369 · 2009 · External reference
Resolving the 3D Landscape of Transcription-Linked Mammalian Chromatin Folding
10.1016/j.molcel.2020.03.002 · 2020 · External reference
An Oestrogen-Receptor-α-Bound Human Chromatin Interactome
10.1038/nature08497 · 2009 · External reference
Mapping of Long-Range Chromatin Interactions by Proximity Ligation-Assisted ChIP-Seq
10.1038/cr.2016.137 · 2016 · External reference
HiChIP: Efficient and sensitive analysis of protein-directed genome architecture
10.1038/nmeth.3999 · 2016 · External reference
Mapping 3D Genome Architecture through in Situ DNase Hi-C
10.1038/nprot.2016.126 · 2016 · External reference
A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping
10.1016/j.cell.2014.11.021 · 2014 · External reference
Statistical confidence estimation for Hi-C data reveals regulatory chromatin contacts
10.1101/gr.160374.113 · 2014 · External reference
Identifying statistically significant chromatin contacts from Hi-C data with FitHiC2
10.1038/s41596-019-0273-0 · 2020 · External reference
An integrated model for detecting significant chromatin interactions from high-resolution Hi-C data
10.1038/ncomms15454 · 2017 · External reference
Mustache: Multi-Scale Detection of Chromatin Loops from Hi-C and Micro-C Maps Using Scale-Space Representation
10.1186/s13059-020-02167-0 · 2020 · External reference
Robust Hi-C Maps of Enhancer-Promoter Interactions Reveal the Function of Non-Coding Genome in Neural Development and Diseases
10.1016/j.molcel.2020.06.007 · 2020 · External reference
10.1186/s12859-018-2464-z
10.1186/s12859-018-2464-z · External reference
HiC-ACT: Improved detection of chromatin interactions from Hi-C data via aggregated Cauchy test
10.1016/j.ajhg.2021.01.009 · 2021 · External reference
LAWS: A locally adaptive weighting and screening approach to spatial multiple testing
10.1080/01621459.2020.1859379 · 2022 · External reference
Multiscale 3D genome rewiring during mouse neural development
10.1016/j.cell.2017.09.043 · 2017 · External reference
Condensin-driven remodelling of X chromosome topology during dosage compensation
10.1038/nature14450 · 2015 · External reference
Chromosome modeling on downsampled Hi-C maps enhances the compartmentalization signal
10.1021/acs.jpcb.1c04174 · 2021 · External reference
Controlling the false discovery rate: A practical and powerful approach to multiple testing
10.1111/j.2517-6161.1995.tb02031.x · 1995 · External reference
HiC-DC+ enables systematic 3D interaction calls and differential analysis for Hi-C and HiChIP
10.1038/s41467-021-23749-x · 2021 · External reference
PRROC: Computing and visualizing precision-recall and receiver operating characteristic curves in R
10.1093/bioinformatics/btv153 · 2015 · External reference
Estimates of location based on rank tests
10.1214/aoms/1177704172 · 1963 · External reference
CTCF-Mediated Human 3D Genome Architecture Reveals Chromatin Topology for Transcription
10.1016/j.cell.2015.11.024 · 2015 · External reference
Enhancer-promoter interactions and transcription are largely maintained upon acute loss of CTCF, cohesin, WAPL or YY1
10.1038/s41588-022-01223-8 · 2022 · External reference
Computer vision for pattern detection in chromosome contact maps
10.1038/s41467-020-19562-7 · 2020 · External reference
Integrative analysis of 111 reference human epigenomes
10.1038/nature14248 · 2015 · External reference
A compendium of chromatin contact maps reveals spatially active regions in the human genome
10.1016/j.celrep.2016.10.061 · 2016 · External reference
GENCODE reference annotation for the human and mouse genomes
10.1093/nar/gky955 · 2019 · External reference
The Encyclopedia of DNA elements (ENCODE): Data portal update
10.1093/nar/gkx1081 · 2018 · External reference
10.1038/nature11247
10.1038/nature11247 · External reference
10.1371/journal.pcbi.1006982
10.1371/journal.pcbi.1006982 · External reference
dbSUPER: A database of super-enhancers in mouse and human genome
10.1093/nar/gkv1002 · 2016 · External reference
An atlas of active enhancers across human cell types and tissues
10.1038/nature12787 · 2014 · External reference
10.1371/journal.pone.0114485
10.1371/journal.pone.0114485 · External reference
On Estimating the Relation Between Blood Group and Disease
10.1111/j.1469-1809.1955.tb01348.x · 1955 · External reference
Three-dimensional genome architecture persists in a 52,000-year-old woolly mammoth skin sample
10.1016/j.cell.2024.06.002 · 2024 · External reference
Unresolved reference
External reference
HiC-ACT: Improved detection of chromatin interactions from Hi-C data via aggregated Cauchy test
10.1016/j.ajhg.2021.01.009 · ExternalCitation · doi-reference
A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping
10.1016/j.cell.2014.11.021 · ExternalCitation · doi-reference
CTCF-Mediated Human 3D Genome Architecture Reveals Chromatin Topology for Transcription
10.1016/j.cell.2015.11.024 · ExternalCitation · doi-reference
Multiscale 3D genome rewiring during mouse neural development
10.1016/j.cell.2017.09.043 · ExternalCitation · doi-reference
Three-dimensional genome architecture persists in a 52,000-year-old woolly mammoth skin sample
10.1016/j.cell.2024.06.002 · ExternalCitation · doi-reference
A compendium of chromatin contact maps reveals spatially active regions in the human genome
10.1016/j.celrep.2016.10.061 · ExternalCitation · doi-reference
Regulatory landscaping: How enhancer-promoter communication is sculpted in 3D
10.1016/j.molcel.2019.05.032 · ExternalCitation · doi-reference
Resolving the 3D Landscape of Transcription-Linked Mammalian Chromatin Folding
10.1016/j.molcel.2020.03.002 · ExternalCitation · doi-reference
Robust Hi-C Maps of Enhancer-Promoter Interactions Reveal the Function of Non-Coding Genome in Neural Development and Diseases
10.1016/j.molcel.2020.06.007 · ExternalCitation · doi-reference
Chromosome modeling on downsampled Hi-C maps enhances the compartmentalization signal
10.1021/acs.jpcb.1c04174 · ExternalCitation · doi-reference
Mapping of Long-Range Chromatin Interactions by Proximity Ligation-Assisted ChIP-Seq
10.1038/cr.2016.137 · ExternalCitation · doi-reference
An Oestrogen-Receptor-α-Bound Human Chromatin Interactome
10.1038/nature08497 · ExternalCitation · doi-reference
10.1038/nature11247
10.1038/nature11247 · ExternalCitation · doi-reference
An atlas of active enhancers across human cell types and tissues
10.1038/nature12787 · ExternalCitation · doi-reference
Integrative analysis of 111 reference human epigenomes
10.1038/nature14248 · ExternalCitation · doi-reference
Condensin-driven remodelling of X chromosome topology during dosage compensation
10.1038/nature14450 · ExternalCitation · doi-reference
An integrated model for detecting significant chromatin interactions from high-resolution Hi-C data
10.1038/ncomms15454 · ExternalCitation · doi-reference
HiChIP: Efficient and sensitive analysis of protein-directed genome architecture
10.1038/nmeth.3999 · ExternalCitation · doi-reference
Mapping 3D Genome Architecture through in Situ DNase Hi-C
10.1038/nprot.2016.126 · ExternalCitation · doi-reference
Computer vision for pattern detection in chromosome contact maps
10.1038/s41467-020-19562-7 · ExternalCitation · doi-reference
HiC-DC+ enables systematic 3D interaction calls and differential analysis for Hi-C and HiChIP
10.1038/s41467-021-23749-x · ExternalCitation · doi-reference
Enhancer-promoter interactions and transcription are largely maintained upon acute loss of CTCF, cohesin, WAPL or YY1
10.1038/s41588-022-01223-8 · ExternalCitation · doi-reference
Identifying statistically significant chromatin contacts from Hi-C data with FitHiC2
10.1038/s41596-019-0273-0 · ExternalCitation · doi-reference
LAWS: A locally adaptive weighting and screening approach to spatial multiple testing
10.1080/01621459.2020.1859379 · ExternalCitation · doi-reference
PRROC: Computing and visualizing precision-recall and receiver operating characteristic curves in R
10.1093/bioinformatics/btv153 · ExternalCitation · doi-reference
Gene regulation in the 3D genome
10.1093/hmg/ddy164 · ExternalCitation · doi-reference
dbSUPER: A database of super-enhancers in mouse and human genome
10.1093/nar/gkv1002 · ExternalCitation · doi-reference
The Encyclopedia of DNA elements (ENCODE): Data portal update
10.1093/nar/gkx1081 · ExternalCitation · doi-reference
GENCODE reference annotation for the human and mouse genomes
10.1093/nar/gky955 · ExternalCitation · doi-reference
Statistical confidence estimation for Hi-C data reveals regulatory chromatin contacts
10.1101/gr.160374.113 · ExternalCitation · doi-reference
On Estimating the Relation Between Blood Group and Disease
10.1111/j.1469-1809.1955.tb01348.x · ExternalCitation · doi-reference
Controlling the false discovery rate: A practical and powerful approach to multiple testing
10.1111/j.2517-6161.1995.tb02031.x · ExternalCitation · doi-reference
Comprehensive mapping of long-range interactions reveals folding principles of the human genome
10.1126/science.1181369 · ExternalCitation · doi-reference
10.1186/s12859-018-2464-z
10.1186/s12859-018-2464-z · ExternalCitation · doi-reference
Mustache: Multi-Scale Detection of Chromatin Loops from Hi-C and Micro-C Maps Using Scale-Space Representation
10.1186/s13059-020-02167-0 · ExternalCitation · doi-reference
Estimates of location based on rank tests
10.1214/aoms/1177704172 · ExternalCitation · doi-reference
10.1371/journal.pcbi.1006982
10.1371/journal.pcbi.1006982 · ExternalCitation · doi-reference
10.1371/journal.pone.0114485
10.1371/journal.pone.0114485 · ExternalCitation · doi-reference
