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HiGlass: Web-based Visual Exploration and Analysis of Genome Interaction Maps

https://doi.org/10.1101/121889
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1016/j.cell.2014.11.021openalex-snapshot
A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
inferredcites →https://doi.org/10.1016/j.cell.2015.04.004openalex-snapshot
Disruptions of Topological Chromatin Domains Cause Pathogenic Rewiring of Gene-Enhancer Interactions
inferredcites →https://doi.org/10.1016/j.cell.2017.09.026openalex-snapshot
Cohesin Loss Eliminates All Loop Domains
inferredcites →https://doi.org/10.1016/j.cell.2017.09.043openalex-snapshot
Multiscale 3D Genome Rewiring during Mouse Neural Development
inferredcites →https://doi.org/10.1016/j.celrep.2016.04.085openalex-snapshot
Formation of Chromosomal Domains by Loop Extrusion
inferredcites →https://doi.org/10.1016/j.celrep.2016.10.061openalex-snapshot
A Compendium of Chromatin Contact Maps Reveals Spatially Active Regions in the Human Genome
inferredcites →https://doi.org/10.1016/j.cels.2015.07.012openalex-snapshot
Juicebox Provides a Visualization System for Hi-C Contact Maps with Unlimited Zoom
inferredcites →https://doi.org/10.1016/j.cels.2018.01.001openalex-snapshot
Juicebox.js Provides a Cloud-Based Visualization System for Hi-C Data
inferredcites →https://doi.org/10.1016/j.ymeth.2014.10.031openalex-snapshot
The Hitchhiker’s guide to Hi-C analysis: Practical guidelines
inferredcites →https://doi.org/10.1038/nature11049openalex-snapshot
Spatial partitioning of the regulatory landscape of the X-inactivation centre
inferredcites →https://doi.org/10.1038/nature11082openalex-snapshot
Topological domains in mammalian genomes identified by analysis of chromatin interactions
inferredcites →https://doi.org/10.1038/nature11247openalex-snapshot
An integrated encyclopedia of DNA elements in the human genome
inferredcites →https://doi.org/10.1038/nature14450openalex-snapshot
Condensin-driven remodelling of X chromosome topology during dosage compensation
inferredcites →https://doi.org/10.1038/nature22063openalex-snapshot
Cohesin is positioned in mammalian genomes by transcription, CTCF and Wapl
inferredcites →https://doi.org/10.1038/nature23884openalex-snapshot
The 4D nucleome project
inferredcites →https://doi.org/10.1038/nature24281openalex-snapshot
Two independent modes of chromatin organization revealed by cohesin removal
inferredcites →https://doi.org/10.1038/nbt.1754openalex-snapshot
Integrative genomics viewer
inferredcites →https://doi.org/10.1038/nmeth.1422openalex-snapshot
Visualizing genomes: techniques and challenges
inferredcites →https://doi.org/10.1038/nmeth.1436openalex-snapshot
Visualization of omics data for systems biology
inferredcites →https://doi.org/10.1038/nmeth.2148openalex-snapshot
Iterative correction of Hi-C data reveals hallmarks of chromosome organization
inferredcites →https://doi.org/10.1038/nmeth.2440openalex-snapshot
Exploring long-range genome interactions using the WashU Epigenome Browser
inferredcites →https://doi.org/10.1038/nmeth.4325openalex-snapshot
Comparison of computational methods for Hi-C data analysis
inferredcites →https://doi.org/10.1038/nrg3454openalex-snapshot
Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data
inferredcites →https://doi.org/10.1073/pnas.1317788111openalex-snapshot
Cohesin and CTCF differentially affect chromatin architecture and gene expression in human cells
inferredcites →https://doi.org/10.1073/pnas.1518552112openalex-snapshot
Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes
inferredcites →https://doi.org/10.1093/bib/bbw035openalex-snapshot
Features that define the best ChIP-seq peak calling algorithms
inferredcites →https://doi.org/10.1093/bioinformatics/btq351openalex-snapshot
BigWig and BigBed: enabling browsing of large distributed datasets
inferredcites →https://doi.org/10.1093/bioinformatics/btu443openalex-snapshot
Two-dimensional segmentation for analyzing Hi-C data
inferredcites →https://doi.org/10.1093/bioinformatics/btv485openalex-snapshot
Identification of hierarchical chromatin domains
inferredcites →https://doi.org/10.1093/bioinformatics/btx359openalex-snapshot
HUGIn: Hi-C Unifying Genomic Interrogator
inferredcites →https://doi.org/10.1093/nar/gkx644openalex-snapshot
Genome contact map explorer: a platform for the comparison, interactive visualization and analysis of genome contact maps
inferredcites →https://doi.org/10.1101/036764openalex-snapshot
Structural features of the fly chromatin colors revealed by automatic three-dimensional modeling
inferredcites →https://doi.org/10.1101/174649openalex-snapshot
Mitotic chromosomes fold by condensin-dependent helical winding of chromatin loop arrays
inferredcites →https://doi.org/10.1101/sqb.2017.82.034710openalex-snapshot
Emerging Evidence of Chromosome Folding by Loop Extrusion
inferredcites →https://doi.org/10.1109/tvcg.2014.2346452openalex-snapshot
The Effects of Interactive Latency on Exploratory Visual Analysis
inferredcites →https://doi.org/10.1109/tvcg.2017.2745978openalex-snapshot
HiPiler: Visual Exploration of Large Genome Interaction Matrices with Interactive Small Multiples
inferredcites →https://doi.org/10.1111/cgf.12925openalex-snapshot
From Visual Exploration to Storytelling and Back Again
inferredcites →https://doi.org/10.1126/science.1181369openalex-snapshot
Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
inferredcites →https://doi.org/10.1126/science.aad9024openalex-snapshot
Activation of proto-oncogenes by disruption of chromosome neighborhoods
inferredcites →https://doi.org/10.1158/1541-7786.mcr-16-0374openalex-snapshot
Nucleome Analysis Reveals Structure–Function Relationships for Colon Cancer
inferredcites →https://doi.org/10.1186/1748-7188-9-14openalex-snapshot
Identification of alternative topological domains in chromatin
inferredcites →https://doi.org/10.1186/s13059-015-0745-7openalex-snapshot
Analysis methods for studying the 3D architecture of the genome
inferredcites →https://doi.org/10.1186/s13059-015-0767-1openalex-snapshot
HiCPlotter integrates genomic data with interaction matrices
inferredcites →https://doi.org/10.1186/s13059-015-0831-xopenalex-snapshot
HiC-Pro: an optimized and flexible pipeline for Hi-C data processing
inferredcites →https://doi.org/10.1186/s13059-017-1161-yopenalex-snapshot
Software tools for visualizing Hi-C data
inferredcites →https://doi.org/10.1186/s13059-018-1519-9openalex-snapshot
The 3D Genome Browser: a web-based browser for visualizing 3D genome organization and long-range chromatin interactions

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1007/978-1-4939-8766-5_16openalex-snapshot
Practical Analysis of Hi-C Data: Generating A/B Compartment Profiles
inferred← citeshttps://doi.org/10.1016/j.cell.2018.11.036openalex-snapshot
Identifying cis Elements for Spatiotemporal Control of Mammalian DNA Replication
inferred← citeshttps://doi.org/10.1016/j.cels.2018.01.001openalex-snapshot
Juicebox.js Provides a Cloud-Based Visualization System for Hi-C Data
inferred← citeshttps://doi.org/10.1016/j.csbj.2018.02.003openalex-snapshot
Computational Methods for Assessing Chromatin Hierarchy
inferred← citeshttps://doi.org/10.1016/j.ymeth.2018.05.008openalex-snapshot
Storage, visualization, and navigation of 3D genomics data
inferred← citeshttps://doi.org/10.1038/nature24281openalex-snapshot
Two independent modes of chromatin organization revealed by cohesin removal
inferred← citeshttps://doi.org/10.1038/s41467-018-07692-yopenalex-snapshot
Chromatin interactions and expression quantitative trait loci reveal genetic drivers of multimorbidities
inferred← citeshttps://doi.org/10.1038/s41467-021-26574-4openalex-snapshot
Inner nuclear protein Matrin-3 coordinates cell differentiation by stabilizing chromatin architecture
inferred← citeshttps://doi.org/10.1038/s41596-021-00651-wopenalex-snapshot
Capture-C: a modular and flexible approach for high-resolution chromosome conformation capture
inferred← citeshttps://doi.org/10.1093/bioinformatics/bty971openalex-snapshot
Genome-wide search of nucleosome patterns using visual analytics
inferred← citeshttps://doi.org/10.1101/2025.06.18.660301openalex-snapshot
Epilogos: information-theoretic navigation of multi-tissue functional genomic annotations
inferred← citeshttps://doi.org/10.1101/239368openalex-snapshot
Chromatin interaction data visualization in the WashU Epigenome Browser
inferred← citeshttps://doi.org/10.1101/244038openalex-snapshot
Heterochromatin drives organization of conventional and inverted nuclei
inferred← citeshttps://doi.org/10.1101/301705openalex-snapshot
Generative Modeling of Multi-mapping Reads with mHi-C Advances Analysis of High Throughput Genome-wide Conformation Capture Studies
inferred← citeshttps://doi.org/10.1101/339085openalex-snapshot
Migration through a small pore disrupts inactive chromatin organization in neutrophil-like cells
inferred← citeshttps://doi.org/10.1101/sqb.2017.82.034710openalex-snapshot
Emerging Evidence of Chromosome Folding by Loop Extrusion
inferred← citeshttps://doi.org/10.1109/bdva.2018.8534028openalex-snapshot
Visual Pattern-Driven Exploration of Big Data
inferred← citeshttps://doi.org/10.1109/tvcg.2017.2745978openalex-snapshot
HiPiler: Visual Exploration of Large Genome Interaction Matrices with Interactive Small Multiples
inferred← citeshttps://doi.org/10.1126/sciadv.aay2078openalex-snapshot
ChIA-PIPE: A fully automated pipeline for comprehensive ChIA-PET data analysis and visualization
inferred← citeshttps://doi.org/10.1186/s12859-020-03652-wopenalex-snapshot
SpectralTAD: an R package for defining a hierarchy of topologically associated domains using spectral clustering
inferred← citeshttps://doi.org/10.1186/s13059-018-1519-9openalex-snapshot
The 3D Genome Browser: a web-based browser for visualizing 3D genome organization and long-range chromatin interactions
inferred← citeshttps://doi.org/10.31219/osf.io/x46ghopenalex-snapshot
Guiro: User-Guided Matrix Reordering Preprint Behrisch2019
inferred← citeshttps://doi.org/10.3410/f.735906976.793572893openalex-snapshot
Faculty Opinions recommendation of Heterochromatin drives compartmentalization of inverted and conventional nuclei.
inferred← citeshttps://doi.org/10.3791/57001openalex-snapshot
Generation of Genome-wide Chromatin Conformation Capture Libraries from Tightly Staged Early Drosophila Embryos
inferred← citeshttps://doi.org/10.3791/57001-vopenalex-snapshot
Generation of Genome-wide Chromatin Conformation Capture Libraries from Tightly Staged Early Drosophila Embryos
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