HiCube: interactive visualization of multiscale and multimodal Hi-C and 3D genome data

SUMMARY: HiCube is a lightweight web application for interactive visualization and exploration of diverse types of genomics data at multiscale resolutions. Especially, HiCube displays synchronized views of Hi-C contact maps and 3D genome structures with user-friendly annotation and configuration too...

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Detalles Bibliográficos
Autores principales: Ye, Tiantian, Hu, Yangyang, Pun, Sydney, Ma, Wenxiu
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2023
Materias:
Applications Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10081873/
https://www.ncbi.nlm.nih.gov/pubmed/36961339
http://dx.doi.org/10.1093/bioinformatics/btad154
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author Ye, Tiantian
Hu, Yangyang
Pun, Sydney
Ma, Wenxiu
author_facet Ye, Tiantian
Hu, Yangyang
Pun, Sydney
Ma, Wenxiu
author_sort Ye, Tiantian
collection PubMed
description SUMMARY: HiCube is a lightweight web application for interactive visualization and exploration of diverse types of genomics data at multiscale resolutions. Especially, HiCube displays synchronized views of Hi-C contact maps and 3D genome structures with user-friendly annotation and configuration tools, thereby facilitating the study of 3D genome organization and function. AVAILABILITY AND IMPLEMENTATION: HiCube is implemented in Javascript and can be installed via NPM. The source code is freely available at GitHub (https://github.com/wmalab/HiCube).
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spelling pubmed-100818732023-04-08 HiCube: interactive visualization of multiscale and multimodal Hi-C and 3D genome data Ye, Tiantian Hu, Yangyang Pun, Sydney Ma, Wenxiu Bioinformatics Applications Note SUMMARY: HiCube is a lightweight web application for interactive visualization and exploration of diverse types of genomics data at multiscale resolutions. Especially, HiCube displays synchronized views of Hi-C contact maps and 3D genome structures with user-friendly annotation and configuration tools, thereby facilitating the study of 3D genome organization and function. AVAILABILITY AND IMPLEMENTATION: HiCube is implemented in Javascript and can be installed via NPM. The source code is freely available at GitHub (https://github.com/wmalab/HiCube). Oxford University Press 2023-03-24 /pmc/articles/PMC10081873/ /pubmed/36961339 http://dx.doi.org/10.1093/bioinformatics/btad154 Text en © The Author(s) 2023. Published by Oxford University Press. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Note
Ye, Tiantian
Hu, Yangyang
Pun, Sydney
Ma, Wenxiu
HiCube: interactive visualization of multiscale and multimodal Hi-C and 3D genome data
title HiCube: interactive visualization of multiscale and multimodal Hi-C and 3D genome data
title_full HiCube: interactive visualization of multiscale and multimodal Hi-C and 3D genome data
title_fullStr HiCube: interactive visualization of multiscale and multimodal Hi-C and 3D genome data
title_full_unstemmed HiCube: interactive visualization of multiscale and multimodal Hi-C and 3D genome data
title_short HiCube: interactive visualization of multiscale and multimodal Hi-C and 3D genome data
title_sort hicube: interactive visualization of multiscale and multimodal hi-c and 3d genome data
topic Applications Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10081873/
https://www.ncbi.nlm.nih.gov/pubmed/36961339
http://dx.doi.org/10.1093/bioinformatics/btad154
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AT punsydney hicubeinteractivevisualizationofmultiscaleandmultimodalhicand3dgenomedata
AT mawenxiu hicubeinteractivevisualizationofmultiscaleandmultimodalhicand3dgenomedata

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