ReviewNature cell biology2021
Anatomical structures, cell types and biomarkers of the Human Reference Atlas.
Abstract readReview
In one paragraph
Review in Nature cell biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 84 papers, 1 of them a synthesis that pooled it.
0numbers the graph read from it
0cells of the map it votes in
84citing papers in PubMed, 1 pooled it
–field-weighted citation impact
What it found
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The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
84 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Vasculature segmentation in 3D hierarchical phase-contrast tomography images of human kidneys.Nature communications · 2026Pooled it
- Standardizing Cell Ontology terms for cross-study integration in the female reproductive tract.Science advances · 2026Review
- Multimodal profiling of atherosclerosis: Protocol and pilot data for the AtherOMICS biobank.Science advances · 2026Article
- Analysis of multicellular anatomical structures from spatial omics data using sosta.PLoS computational biology · 2026Article
- HuBMAP Data Portal: a resource for multimodal spatial and single-cell data of healthy human tissues.ArXiv · 2026Article
- Organism-scale annotation with Pan-human Azimuth.bioRxiv : the preprint server for biology · 2026Article
- Cross-dataset annotation harmonization for cell-type hierarchy construction.Bioinformatics (Oxford, England) · 2026Article
- Single-cell transcriptomic comparison of tubular segment maturation in advanced humaniScience · 2026Article
- The Cell Ontology in the age of single-cell omics.Scientific data · 2026Article
- Cell Type Populations for 3D Anatomical Structures of the Human Reference Atlas.Scientific data · 2026Article
- SenNet Portal: Build, Optimization and Usage.bioRxiv : the preprint server for biology · 2026Article
- Spatial architecture of development and disease.Nature reviews. Genetics · 2026Review
- A general strategy for generating expert-guided, simplified views of ontologies.Scientific data · 2026Article
- Regulatory element modules as universal features for single-cell chromatin analysis.bioRxiv : the preprint server for biology · 2025Article
- Engineering strategies and challenges in building the follicular microenvironment for a bioprosthetic ovary.Best practice & research. Clinical obstetrics & gynaecology · 2025Review
- A general strategy for generating expert-guided, simplified views of ontologies.bioRxiv : the preprint server for biology · 2025Article
- Constructing and Using Cell Type Populations of the Human Reference Atlas.bioRxiv : the preprint server for biology · 2025Article
- LLM-based cell type annotation harmonization across single-cell studies using GCTHarmony.Research square · 2025Article
- Brain-wide connectivity and novelty response of the dorsal endopiriform nucleus in mice.Cell reports · 2025Article
- Cell Marker Accordion: interpretable single-cell and spatial omics annotation in health and disease.Nature communications · 2025Article
24 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
36 authors.
Katy BörnerDepartment of Intelligent Systems Engineering, Indiana University, Bloomington, IN, USA. katy@indiana.edu.ORCID http://orcid.org/0000-0002-3321-6137
Sarah A TeichmannWellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK.ORCID http://orcid.org/0000-0002-6294-6366
Ellen M QuardokusDepartment of Intelligent Systems Engineering, Indiana University, Bloomington, IN, USA.
James C GeeDepartment of Radiology, University of Pennsylvania, Philadelphia, PA, USA.
Kristen BrowneDepartment of Health and Human Services, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA.
David Osumi-SutherlandEuropean Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Cambridge, UK.
Bruce W HerrDepartment of Intelligent Systems Engineering, Indiana University, Bloomington, IN, USA.ORCID http://orcid.org/0000-0002-6703-7647
Andreas BueckleDepartment of Intelligent Systems Engineering, Indiana University, Bloomington, IN, USA.ORCID http://orcid.org/0000-0002-8977-498X
Hrishikesh PaulDepartment of Intelligent Systems Engineering, Indiana University, Bloomington, IN, USA.
Muzlifah HaniffaBiosciences Institute, Newcastle University, Newcastle upon Tyne, UK.ORCID http://orcid.org/0000-0002-3927-2084
Laura JardineBiosciences Institute, Newcastle University, Newcastle upon Tyne, UK.
Amy BernardThe Kavli Foundation, Los Angeles, CA, USA.ORCID http://orcid.org/0000-0003-2540-1153
Song-Lin DingAllen Institute, Seattle, WA, USA.
Jeremy A MillerAllen Institute, Seattle, WA, USA.
Shin LinDepartment of Medicine, University of Washington, Seattle, WA, USA.
Marc K HalushkaDepartment of Pathology, Johns Hopkins University School of Medicine, Baltimore, MD, USA.
Avinash BoppanaDepartment of Computer Science, Princeton University, Princeton, NJ, USA.
Teri A LongacreDepartment of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA, USA.
John HickeyDepartment of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA, USA.
Yiing LinDepartment of Surgery, Washington University in St Louis, St Louis, MO, USA.
M Todd ValeriusHarvard Institute of Medicine, Harvard Medical School, Boston, MA, USA.ORCID http://orcid.org/0000-0001-8143-9231
Yongqun HeDepartment of Microbiology and Immunology, and Center for Computational Medicine and Bioinformatics, University of Michigan Medical School, Ann Arbor, MI, USA.ORCID http://orcid.org/0000-0001-9189-9661
Gloria PryhuberDepartment of Pediatrics, University of Rochester, Rochester, NY, USA.
Xin SunBiological Sciences, University of California, San Diego, La Jolla, CA, USA.
Marda JorgensenDepartment of Pathology, Immunology and Laboratory Medicine, University of Florida, Gainesville, FL, USA.
Andrea J RadtkeCenter for Advanced Tissue Imaging, Laboratory of Immune System Biology, NIAID, NIH, Bethesda, MD, USA.ORCID http://orcid.org/0000-0003-4379-8967
Clive WasserfallDepartment of Pathology, Immunology and Laboratory Medicine, University of Florida, Gainesville, FL, USA.
Fiona GintyBiology and Applied Physics, General Electric Research, Niskayuna, NY, USA.
Jonhan HoDepartment of Dermatology, University of Pittsburgh, Pittsburgh, PA, USA.
Joel SunshineDepartment of Dermatology, Johns Hopkins School of Medicine, Baltimore, MD, USA.
Rebecca T BeuschelCenter for Advanced Tissue Imaging, Laboratory of Immune System Biology, NIAID, NIH, Bethesda, MD, USA.
Maigan BruskoDepartment of Pathology, Immunology and Laboratory Medicine, University of Florida, Gainesville, FL, USA.
Sujin LeeDivision of Vascular Surgery and Endovascular Therapy, Massachusetts General Hospital, Boston, MA, USA.
Rajeev MalhotraHarvard Institute of Medicine, Harvard Medical School, Boston, MA, USA.ORCID http://orcid.org/0000-0003-0120-4630
Sanjay JainDepartment of Medicine, Washington University School of Medicine, St Louis, MO, USA.
Griffin WeberDepartment of Biomedical Informatics, Harvard Medical School, Boston, MA, USA.
Funding
The USC (Re)Building the Kidney Coordinating CenterU01DK107350 · NIDDK · UNIVERSITY OF SOUTHERN CALIFORNIA · PI KESSELMAN, CARL, VALERIUS, MICHAEL TODD · 2015 to 2019
$9.0MProject 3 - Lymph NodesU54AI142766 · NIAID · UNIVERSITY OF FLORIDA · PI WASSERFALL, CLIVE H · 2018 to 2021
$6.9MVanderbilt University Biomolecular Multimodal Imaging Center for 3-Dimensional Tissue MappingU54DK120058 · NIDDK · VANDERBILT UNIVERSITY · PI SPRAGGINS, JEFFREY M · 2018 to 2021
$5.7MOrgan Specific ProjectU54HL145608 · NHLBI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI JAIN, SANJAY, ZHANG, KUN · 2018 to 2021
$5.6MA Spatially Resolved Molecular Atlas of Human EndotheliumU54HL145611 · NHLBI · CALIFORNIA INSTITUTE OF TECHNOLOGY · PI CAI, LONG · 2018 to 2021
$4.9MUSC GUDMAP Coordinating CenterU24DK110814 · NIDDK · UNIVERSITY OF SOUTHERN CALIFORNIA · PI KESSELMAN, CARL · 2016 to 2020
$4.4MThe Human Body Atlas: High-Resolution, Functional Mapping of Voxel, Vector, and Meta DatasetsOT2OD026671 · OD · TRUSTEES OF INDIANA UNIVERSITY · PI BORNER, KATY · 2018 to 2021
$3.5MEngineering the Skin Immune System to Induce Systemic Immune ResponsesR01AR079233 · NIAMS · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI FALO, LOUIS D · 2021 to 2025
$3.3MMultiscale, Multimodal Analysis of Skin and Spatial Cell OrganizationU54AR081775 · NIAMS · GENERAL ELECTRIC GLOBAL RESEARCH CTR · PI FALO, LOUIS D, GINTY, FIONA · 2022 to 2025
$2.6MMulti-Scale 3-D Image Analytics for High Dimensional Spatial Mapping of Normal TissuesUH3CA246594 · NCI · GENERAL ELECTRIC GLOBAL RESEARCH CTR · PI GINTY, FIONA · 2019 to 2021
$2.1MSingle-nucleus sequencing and in situ mapping of mRNA molecules in human kidneyUH3DK114933 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI JAIN, SANJAY, ZHANG, KUN · 2019 to 2021
$1.8MmyAURA: Personalized Web Service for Epilepsy ManagementR01LM012832 · NLM · TRUSTEES OF INDIANA UNIVERSITY · PI BORNER, KATY, MILLER, WENDY RENEE · 2018 to 2021
$1.3MNCI NIH HHS UG3 CA256960NCI NIH HHS UH3 CA246594NHLBI NIH HHS U54 HL145608NHLBI NIH HHS U54 HL145611NHLBI NIH HHS UG3 HL145609NIAID NIH HHS U54 AI142766NIAMS NIH HHS R01 AR079233NIAMS NIH HHS U54 AR081775NIDDK NIH HHS U01 DK107350NIDDK NIH HHS U24 DK110814NIDDK NIH HHS U54 DK120058NIDDK NIH HHS UH3 DK114933NIH HHS OT2 OD026671NLM NIH HHS R01 LM012832
Abstract
The Human Reference Atlas (HRA) aims to map all of the cells of the human body to advance biomedical research and clinical practice. This Perspective presents collaborative work by members of 16 international consortia on two essential and interlinked parts of the HRA: (1) three-dimensional representations of anatomy that are linked to (2) tables that name and interlink major anatomical structures, cell types, plus biomarkers (ASCT+B). We discuss four examples that demonstrate the practical utility of the HRA.
Indexed as
Atlases as TopicCell BiologyCell LineageSingle-Cell AnalysisBiomarkersCellsComputer GraphicsDiseaseGenomicsHigh-Throughput Nucleotide SequencingHumansPhenotypeTranscriptomeBiomarkers
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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.