Evidence map›Paper›PMID 42396208›Full record

ArticleArXiv2026

HuBMAP Data Portal: a resource for multimodal spatial and single-cell data of healthy human tissues.

Morgan L Turner, Thomas C Smits, Tiffany S Liaw, Brendan Honick, Bill Shirey, Lisa Choy, Nikolay Akhmetov, Shaokun An, David Betancur, Dominic Bordelon and 39 more

Abstract readPreprint
PubMed Full text at PMC
In one paragraph

Article in ArXiv, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

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.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

49 authors.

Morgan L TurnerHarvard Medical School, Boston, MA, USA 02115.
Thomas C SmitsHarvard Medical School, Boston, MA, USA 02115.
Tiffany S LiawHarvard Medical School, Boston, MA, USA 02115.
Brendan HonickPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Bill ShireyUniversity of Pittsburgh, Pittsburgh PA, USA 15260.
Lisa ChoyHarvard Medical School, Boston, MA, USA 02115.
Nikolay AkhmetovHarvard Medical School, Boston, MA, USA 02115.
Shaokun AnGene Lay Institute of Immunology and Inflammation, Brigham and Women's Hospital, Harvard Medical School and Massachusetts General Hospital, Boston, MA, USA 02115.
David BetancurPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Dominic BordelonPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Karl BurkeUniversity of Pittsburgh, Pittsburgh PA, USA 15260.
Ivan Cao-BergPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
John ConroyHarvard Medical School, Boston, MA, USA 02115.
Chris CsonkaPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Penny CudaCarnegie Mellon University, Pittsburgh, PA, USA 15213.
Sean DonahueCarnegie Mellon University, Pittsburgh, PA, USA 15213.
Stephen A FisherUniversity of Pennsylvania, Philadelphia, PA, USA 19104.
Derek FurstUniversity of Pittsburgh, Pittsburgh PA, USA 15260.
Ed HannaPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Josef HardiStanford University, Stanford, CA, USA 94305.
Tabassum KakarHarvard Medical School, Boston, MA, USA 02115.
Mark S KellerHarvard Medical School, Boston, MA, USA 02115.
Devin LangeHarvard Medical School, Boston, MA, USA 02115.
Xiang LiPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Yan MaHarvard Medical School, Boston, MA, USA 02115.
Alison McWilliamsPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Austen MoneyHarvard Medical School, Boston, MA, USA 02115.
Richard MorganUniversity of Pittsburgh, Pittsburgh PA, USA 15260.
Eric MörthHarvard Medical School, Boston, MA, USA 02115.
Juan MuertoPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Mark A MusenStanford University, Stanford, CA, USA 94305.
Emily NicPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Martin J O'ConnorStanford University, Stanford, CA, USA 94305.
Gesina PhillipsPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Alexander J RopelewskiPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Ryan SabloskyPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Sravani SaripalliGene Lay Institute of Immunology and Inflammation, Brigham and Women's Hospital, Harvard Medical School and Massachusetts General Hospital, Boston, MA, USA 02115.
Max SibillaUniversity of Pittsburgh, Pittsburgh PA, USA 15260.
Derek SimmelPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Alan SimmonsUniversity of Pittsburgh, Pittsburgh PA, USA 15260.
Xu TangGene Lay Institute of Immunology and Inflammation, Brigham and Women's Hospital, Harvard Medical School and Massachusetts General Hospital, Boston, MA, USA 02115.
Joel WellingPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Zhou YuanUniversity of Pittsburgh, Pittsburgh PA, USA 15260.
Martin HembergGene Lay Institute of Immunology and Inflammation, Brigham and Women's Hospital, Harvard Medical School and Massachusetts General Hospital, Boston, MA, USA 02115.
HuBMAP Consortium
Matthew RuffaloCarnegie Mellon University, Pittsburgh, PA, USA 15213.
Jonathan SilversteinUniversity of Pittsburgh, Pittsburgh PA, USA 15260.
Philip BloodPittsburgh Supercomputing Center, Carnegie Mellon University, Pittsburgh, PA, USA 15213.
Nils GehlenborgHarvard Medical School, Boston, MA, USA 02115.

Funding

Flexible Hybrid Cloud Infrastructure for Seamless Integration and Use of Human Biomolecular Data and Reference Maps [1 of 5]OT2OD033759 · OD · CARNEGIE-MELLON UNIVERSITY · PI BLOOD, PHILIP D., SILVERSTEIN, JONATHAN C. · 2022 to 2025
$20.4M
Penn TMC: Organ-Specific ProjectU54HD104392 · NICHD · UNIVERSITY OF PENNSYLVANIA · PI BARNHART, KURT T · 2020 to 2024
$6.1M
Data Exploration and Visualization Tools for HuBMAP and a Human Reference AtlasOT2OD033758 · OD · HARVARD MEDICAL SCHOOL · PI GEHLENBORG, NILS · 2022 to 2024
$5.0M
Computational tools for uniform processing and integration of human reference atlas data [2 of 5]OT2OD033761 · OD · CARNEGIE-MELLON UNIVERSITY · PI PATEN, BENEDICT, RUFFALO, MATTHEW · 2022 to 2025
$4.2M
NICHD NIH HHS U54 HD104392NIH HHS OT2 OD033758NIH HHS OT2 OD033759NIH HHS OT2 OD033761
6 · The paper itself

Abstract

The NIH Human BioMolecular Atlas Program (HuBMAP) Data Portal (https://portal.hubmapconsortium.org/) serves as a comprehensive repository for multimodal, multi-scale spatial and single-cell data from healthy human tissues. As of August 2026, the portal hosts 9,316 public datasets from 26 data types spanning 29 organ classes across 501 donors. Portal infrastructure and user interfaces support data search and discovery, visualization, and analysis directly in web browsers. These capabilities include metadata- and data-driven search, collaborative Workspaces with access to high-performance compute, and interactive Vitessce visualizations across non-spatial, 2D, and 3D spatial datasets. Data-type-specific uniform processing pipelines and rigorous quality control processes ensure comparability of results across laboratories, organs, and donors, while externally processed community-contributed datasets provide complementary perspectives. Here we describe portal functionality, infrastructure, and design, and highlight its role as a platform for large-scale spatial single-cell research across diverse data types, organs, and scales.

Identifiers

PMID42396208
PMCPMC13321327

What Socratic holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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 Socratic graph.