is an Aggregator.
The Human BioMolecular Atlas Program (HuBMAP) is a transformative NIH Common Fund initiative dedicated to creating an open, global atlas of the human body at the cellular level. HuBMAP develops the tools, technology, and infrastructure needed to map healthy human tissues in unprecedented molecular detail.
Unknown
Unknown
| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| hubmap.data_portal | HuBMAP Data Portal | portal.hubmapconsortium.org | Product | mixed | HuBMAP Data Portal providing access t... |
| hubmap.human_reference_atlas | Human Reference Atlas | humanatlas.io | Product | mixed | Human Reference Atlas providing atlas... |
| hubmap.vitessce | Vitessce | vitessce.io | GraphicalInterface | http | Interactive data visualization tool f... |
| hubmap.workspaces | HuBMAP Workspaces | workspaces | GraphicalInterface | http | Interactive JupyterLab environments f... |
| hubmap.azimuth | Azimuth | azimuth.hubmapconsortium.org | GraphicalInterface | http | Single-cell RNA-seq and ATAC-seq anal... |
| hubmap.fusion | FUSION | fusion.hubmapconsortium.org | GraphicalInterface | http | Functional Unit State Identification ... |
| hubmap.antibody_validation_reports ⚠ | Antibody Validation Reports | avr.xconsortia.org | Product | http | Antibody validation reports for multi... |
| hubmap.data_ingest_portal | Data Ingest Portal | ingest.hubmapconsortium.org | Product | http | Data submission portal for registerin... |
| hubmap.api | HuBMAP APIs | apis.html | ProgrammingInterface | json | HuBMAP API documentation for RESTful ... |
| ID | Name | URL | Category | Format | Relation | Description |
|---|---|---|---|---|---|---|
| prokn.hmaz.anatomy.nodes | ProKN HuBMAP Azimuth Anatomy Nodes | DDKG_HMAZ.Anatomy.nodes.csv (12.4 KB) | GraphProduct | csv | had primary source | HuBMAP Azimuth anatomy nodes used in ... |
| prokn.hmaz.anatomy.has_marker_gene_in_heart.gene.edges | ProKN HuBMAP Azimuth Heart Marker Edges | DDKG_HMAZ.Anatomy.HAS_MARKER_GENE_IN_HEART.Gene.edges.csv (47.2 KB) | GraphProduct | csv | had primary source | HuBMAP Azimuth anatomy to heart marke... |
| prokn.hmaz.anatomy.has_marker_gene_in_kidney.gene.edges | ProKN HuBMAP Azimuth Kidney Marker Edges | DDKG_HMAZ.Anatomy.HAS_MARKER_GENE_IN_KIDNEY.Gene.edges.csv (124.0 KB) | GraphProduct | csv | had primary source | HuBMAP Azimuth anatomy to kidney mark... |
| prokn.hmaz.anatomy.has_marker_gene_in_liver.gene.edges | ProKN HuBMAP Azimuth Liver Marker Edges | DDKG_HMAZ.Anatomy.HAS_MARKER_GENE_IN_LIVER.Gene.edges.csv (55.4 KB) | GraphProduct | csv | had primary source | HuBMAP Azimuth anatomy to liver marke... |
| ubkg.neo4j | UBKG Neo4j Docker Distribution | ubkg-downloads.xconsortia.org | GraphProduct | ❔ | had primary source | Turnkey neo4j distributions that depl... |
| ubkg.csv | UBKG Ontology CSV Files | ubkg-downloads.xconsortia.org | GraphProduct | csv | had primary source | Ontology CSV files that can be import... |
| cfde-gse.graph | CFDE-GSE Knowledge Graph | ❔ | GraphProduct | neo4j | had primary source | Neo4j knowledge graph containing inte... |
| cfde-gse.genesets | CFDE Gene Set Collections | downloads | Product | ❔ | had primary source | Standardized gene set collections fro... |
| enrichr-kg.graph | Enrichr-KG Neo4j Database | ❔ | GraphProduct | neo4j | had primary source | Neo4j graph database integrating Enri... |
| hra.data | HRA Data Downloads | overview-data | Product | mixed | was derived from | Downloadable data files including ana... |
| hra.knowledge-graph | Human Reference Atlas Knowledge Graph | kg | GraphProduct | http | was derived from | HRA Knowledge Graph documentation and... |
| harmonizome.downloads | Harmonizome Downloads | download | Product | mixed | was derived from | Harmonizome 3.0 processed dataset dow... |
| harmonizome.kg-neo4j | Harmonizome Knowledge Graph Neo4j Database | harmonizome-kg.maayanlab.cloud | GraphProduct | neo4j | was derived from | Neo4j knowledge graph serialization o... |
The Human BioMolecular Atlas Program (HuBMAP) is a transformative initiative by the NIH Common Fund that aims to develop an open, global atlas of the human body at the cellular level. This ambitious program brings together a diverse consortium of researchers, institutions, and organizations to create comprehensive maps of healthy human tissues with unprecedented molecular detail.
HuBMAP represents a paradigm shift in our understanding of human biology by providing spatially resolved maps of cellular organization and molecular signatures across diverse human tissues. The program integrates cutting-edge technologies in single-cell analysis, spatial biology, imaging, and data science to create a comprehensive reference atlas of the human body.
The HuBMAP Data Portal provides access to donor, sample, dataset, assay, and collection metadata across healthy human tissues. The project also maintains REST APIs, data submission tooling, visualization environments, and Human Reference Atlas resources for spatially grounded data exploration.
HuBMAP’s core mission is to:
The HuBMAP Data Portal serves as the central hub for discovering, visualizing, and downloading standardized single-cell and spatial tissue data. The portal offers:
HuBMAP employs a diverse array of state-of-the-art technologies:
The Human Reference Atlas provides:
HuBMAP data and tools are advancing scientific discovery across multiple domains:
HuBMAP follows FAIR principles (Findable, Accessible, Interoperable, Reusable) and implements:
The HuBMAP Consortium includes:
All HuBMAP data is made freely available under Creative Commons Attribution 4.0 (CC BY 4.0) licensing, supporting:
HuBMAP continues to evolve with ongoing developments in:
The program represents a foundational resource for understanding human biology and disease, providing the research community with unprecedented insights into cellular organization and function across the human body.
Created: August 05, 2025 | Last modified: June 02, 2026