CellexalVR: A virtual reality platform to visualize and analyze single-cell omics data

Summary: Single-cell RNAseq is a routinely used method to explore heterogeneity within cell populations. Data from these experiments are often visualized using dimension reduction methods such as UMAP and tSNE, where each cell is projected in two or three dimensional space. Three-dimensional project...

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Autores principales:	Oscar Legetth, Johan Rodhe, Stefan Lang, Parashar Dhapola, Mattias Wallergård, Shamit Soneji
Formato:	article
Lenguaje:	EN
Publicado:	Elsevier 2021
Materias:	Bioinformatics Computer science Omics Software engineering Systems biology Transcriptomics Science Q
Acceso en línea:	https://doaj.org/article/7d70ed2f0d934eb0a567f32c61290641
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spelling	oai:doaj.org-article:7d70ed2f0d934eb0a567f32c612906412021-11-20T05:08:52ZCellexalVR: A virtual reality platform to visualize and analyze single-cell omics data2589-004210.1016/j.isci.2021.103251https://doaj.org/article/7d70ed2f0d934eb0a567f32c612906412021-11-01T00:00:00Zhttp://www.sciencedirect.com/science/article/pii/S2589004221012207https://doaj.org/toc/2589-0042Summary: Single-cell RNAseq is a routinely used method to explore heterogeneity within cell populations. Data from these experiments are often visualized using dimension reduction methods such as UMAP and tSNE, where each cell is projected in two or three dimensional space. Three-dimensional projections can be more informative for larger and complex datasets because they are less prone to merging and flattening similar cell-types/clusters together. However, visualizing and cross-comparing 3D projections using current software on conventional flat-screen displays is far from optimal as they are still essentially 2D, and lack meaningful interaction between the user and the data. Here we present CellexalVR (www.cellexalvr.med.lu.se), a feature-rich, fully interactive virtual reality environment for the visualization and analysis of single-cell experiments that allows researchers to intuitively and collaboratively gain an understanding of their data.Oscar LegetthJohan RodheStefan LangParashar DhapolaMattias WallergårdShamit SonejiElsevierarticleBioinformaticsComputer scienceOmicsSoftware engineeringSystems biologyTranscriptomicsScienceQENiScience, Vol 24, Iss 11, Pp 103251- (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Bioinformatics Computer science Omics Software engineering Systems biology Transcriptomics Science Q
spellingShingle	Bioinformatics Computer science Omics Software engineering Systems biology Transcriptomics Science Q Oscar Legetth Johan Rodhe Stefan Lang Parashar Dhapola Mattias Wallergård Shamit Soneji CellexalVR: A virtual reality platform to visualize and analyze single-cell omics data
description	Summary: Single-cell RNAseq is a routinely used method to explore heterogeneity within cell populations. Data from these experiments are often visualized using dimension reduction methods such as UMAP and tSNE, where each cell is projected in two or three dimensional space. Three-dimensional projections can be more informative for larger and complex datasets because they are less prone to merging and flattening similar cell-types/clusters together. However, visualizing and cross-comparing 3D projections using current software on conventional flat-screen displays is far from optimal as they are still essentially 2D, and lack meaningful interaction between the user and the data. Here we present CellexalVR (www.cellexalvr.med.lu.se), a feature-rich, fully interactive virtual reality environment for the visualization and analysis of single-cell experiments that allows researchers to intuitively and collaboratively gain an understanding of their data.
format	article
author	Oscar Legetth Johan Rodhe Stefan Lang Parashar Dhapola Mattias Wallergård Shamit Soneji
author_facet	Oscar Legetth Johan Rodhe Stefan Lang Parashar Dhapola Mattias Wallergård Shamit Soneji
author_sort	Oscar Legetth
title	CellexalVR: A virtual reality platform to visualize and analyze single-cell omics data
title_short	CellexalVR: A virtual reality platform to visualize and analyze single-cell omics data
title_full	CellexalVR: A virtual reality platform to visualize and analyze single-cell omics data
title_fullStr	CellexalVR: A virtual reality platform to visualize and analyze single-cell omics data
title_full_unstemmed	CellexalVR: A virtual reality platform to visualize and analyze single-cell omics data
title_sort	cellexalvr: a virtual reality platform to visualize and analyze single-cell omics data
publisher	Elsevier
publishDate	2021
url	https://doaj.org/article/7d70ed2f0d934eb0a567f32c61290641
work_keys_str_mv	AT oscarlegetth cellexalvravirtualrealityplatformtovisualizeandanalyzesinglecellomicsdata AT johanrodhe cellexalvravirtualrealityplatformtovisualizeandanalyzesinglecellomicsdata AT stefanlang cellexalvravirtualrealityplatformtovisualizeandanalyzesinglecellomicsdata AT parashardhapola cellexalvravirtualrealityplatformtovisualizeandanalyzesinglecellomicsdata AT mattiaswallergard cellexalvravirtualrealityplatformtovisualizeandanalyzesinglecellomicsdata AT shamitsoneji cellexalvravirtualrealityplatformtovisualizeandanalyzesinglecellomicsdata
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CellexalVR: A virtual reality platform to visualize and analyze single-cell omics data

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