ArticleFrontiers in bioinformatics2023
The HRA Organ Gallery affords immersive superpowers for building and exploring the Human Reference Atlas with virtual reality.
Article in Frontiers in bioinformatics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 10 citations in OpenAlex.
- Multiscale harmonization, semantic integration, and immersive exploration of single-cell data in support of novel biological insights.bioRxiv : the preprint server for biology · 2026Article
- Volumetric Cyclic Immunofluorescence for 3D Spatial Profiling of Immune Structures in Human FFPE Tissue.bioRxiv : the preprint server for biology · 2026Article
- The Common Fund Data Ecosystem (CFDE).bioRxiv : the preprint server for biology · 2026Article
- Cell Type Populations for 3D Anatomical Structures of the Human Reference Atlas.Scientific data · 2026Article
- SparStVR - exploring sparse 3D histology data in virtual reality.Communications engineering · 2026Article
- FUSION: a web-based application for in-depth exploration of multi-omics data with brightfield histology.Nature communications · 2025Article
- Constructing and Using Cell Type Populations of the Human Reference Atlas.bioRxiv : the preprint server for biology · 2025Article
- Construction, Deployment, and Usage of the Human Reference Atlas Knowledge Graph.Scientific data · 2025Article
- Symposia Report of The Annual Biological Sciences Section Meeting of the Gerontological Society of America 2023, Tampa, Florida.The journals of gerontology. Series A, Biological sciences and medical sciences · 2025Article
- Human BioMolecular Atlas Program (HuBMAP): 3D Human Reference Atlas construction and usage.Nature methods · 2025Article
- Construction, Deployment, and Usage of the Human Reference Atlas Knowledge Graph for Linked Open Data.bioRxiv : the preprint server for biology · 2025Article
- Human BioMolecular Atlas Program (HuBMAP): 3D Human Reference Atlas Construction and Usage.bioRxiv : the preprint server for biology · 2024Article
- Specimen, biological structure, and spatial ontologies in support of a Human Reference Atlas.Scientific data · 2023Article
- Challenges and Opportunities for Theory-Grounded Data Visualization in Extended Reality.IEEE computer graphics and applicationsArticle
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
Abstract
The Human Reference Atlas (HRA, https://humanatlas.io) funded by the NIH Human Biomolecular Atlas Program (HuBMAP, https://commonfund.nih.gov/hubmap) and other projects engages 17 international consortia to create a spatial reference of the healthy adult human body at single-cell resolution. The specimen, biological structure, and spatial data that define the HRA are disparate in nature and benefit from a visually explicit method of data integration. Virtual reality (VR) offers unique means to enable users to explore complex data structures in a three-dimensional (3D) immersive environment. On a 2D desktop application, the 3D spatiality and real-world size of the 3D reference organs of the atlas is hard to understand. If viewed in VR, the spatiality of the organs and tissue blocks mapped to the HRA can be explored in their true size and in a way that goes beyond traditional 2D user interfaces. Added 2D and 3D visualizations can then provide data-rich context. In this paper, we present the HRA Organ Gallery, a VR application to explore the atlas in an integrated VR environment. Presently, the HRA Organ Gallery features 55 3D reference organs, 1,203 mapped tissue blocks from 292 demographically diverse donors and 15 providers that link to 6,000+ datasets; it also features prototype visualizations of cell type distributions and 3D protein structures. We outline our plans to support two biological use cases: on-ramping novice and expert users to HuBMAP data available via the Data Portal (https://portal.hubmapconsortium.org), and quality assurance/quality control (QA/QC) for HRA data providers. Code and onboarding materials are available at https://github.com/cns-iu/hra-organ-gallery-in-vr.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.