Saved in:
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
|---|---|
| Format: | Preprint |
| Published: |
2025
|
| Subjects: | |
| Online Access: | https://arxiv.org/abs/2511.05708 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1866909894003654656 |
|---|---|
| author | Turner, Morgan L. Smits, Thomas C. Liaw, Tiffany S. Honick, Brendan Shirey, Bill Choy, Lisa Akhmetov, Nikolay An, Shaokun Betancur, David Bordelon, Dominic Burke, Karl Cao-Berg, Ivan Conroy, John Csonka, Chris Cuda, Penny Donahue, Sean Fisher, Stephen Furst, Derek Hanna, Ed Hardi, Josef Kakar, Tabassum Keller, Mark S. Li, Xiang Ma, Yan McWilliams, Allison Money, Austen Morgan, Richard Moerth, Eric Muerto, Juan Musen, Mark A. Nic, Emily O'Connor, Martin J. Phillips, Gesina Ropelewski, Alex Sablosky, Ryan Saripalli, Sravani Sibilla, Max Simmel, Derek Simmons, Alan Tang, Xu Welling, Joel Yuan, Zhou Hemberg, Martin Ruffalo, Matt Silverstein, Jonathan Blood, Philip Gehlenborg, Nils |
| author_facet | Turner, Morgan L. Smits, Thomas C. Liaw, Tiffany S. Honick, Brendan Shirey, Bill Choy, Lisa Akhmetov, Nikolay An, Shaokun Betancur, David Bordelon, Dominic Burke, Karl Cao-Berg, Ivan Conroy, John Csonka, Chris Cuda, Penny Donahue, Sean Fisher, Stephen Furst, Derek Hanna, Ed Hardi, Josef Kakar, Tabassum Keller, Mark S. Li, Xiang Ma, Yan McWilliams, Allison Money, Austen Morgan, Richard Moerth, Eric Muerto, Juan Musen, Mark A. Nic, Emily O'Connor, Martin J. Phillips, Gesina Ropelewski, Alex Sablosky, Ryan Saripalli, Sravani Sibilla, Max Simmel, Derek Simmons, Alan Tang, Xu Welling, Joel Yuan, Zhou Hemberg, Martin Ruffalo, Matt Silverstein, Jonathan Blood, Philip Gehlenborg, Nils |
| contents | The NIH Human BioMolecular Atlas Program (HuBMAP) Data Portal (https://portal.hubmapconsortium.org/) serves as a comprehensive repository for multi-modal spatial and single-cell data from healthy human tissues. This resource facilitates the NIH HuBMAP consortium's mission to create a widely accessible multi-scale spatial atlas of the healthy human body at single-cell resolution. As of October 2025, the portal hosts 5,032 datasets from 22 different data types spanning 27 organ classes across 310 donors. The portal's infrastructure and user interfaces enable efficient visualization and analysis directly in web browsers through integrated collaborative Jupyter workspaces and interactive Vitessce visualizations for over 1,500 non-spatial, 2D, and 3D spatial datasets. Uniform processing pipelines and rigorous quality control processes ensure comparability of results from different laboratories, organs, and donors for large-scale analyses, while externally processed, community-contributed datasets (EPICs) provide complementary perspectives. The portal interface supports both metadata- and data-driven search functionalities, bulk downloads, and integrated data collections, including supplementary data and visualizations for consortium publications. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2511_05708 |
| institution | arXiv |
| publishDate | 2025 |
| record_format | arxiv |
| spellingShingle | HuBMAP Data Portal: A Resource for Multi-Modal Spatial and Single-Cell Data of Healthy Human Tissues Turner, Morgan L. Smits, Thomas C. Liaw, Tiffany S. Honick, Brendan Shirey, Bill Choy, Lisa Akhmetov, Nikolay An, Shaokun Betancur, David Bordelon, Dominic Burke, Karl Cao-Berg, Ivan Conroy, John Csonka, Chris Cuda, Penny Donahue, Sean Fisher, Stephen Furst, Derek Hanna, Ed Hardi, Josef Kakar, Tabassum Keller, Mark S. Li, Xiang Ma, Yan McWilliams, Allison Money, Austen Morgan, Richard Moerth, Eric Muerto, Juan Musen, Mark A. Nic, Emily O'Connor, Martin J. Phillips, Gesina Ropelewski, Alex Sablosky, Ryan Saripalli, Sravani Sibilla, Max Simmel, Derek Simmons, Alan Tang, Xu Welling, Joel Yuan, Zhou Hemberg, Martin Ruffalo, Matt Silverstein, Jonathan Blood, Philip Gehlenborg, Nils Quantitative Methods The NIH Human BioMolecular Atlas Program (HuBMAP) Data Portal (https://portal.hubmapconsortium.org/) serves as a comprehensive repository for multi-modal spatial and single-cell data from healthy human tissues. This resource facilitates the NIH HuBMAP consortium's mission to create a widely accessible multi-scale spatial atlas of the healthy human body at single-cell resolution. As of October 2025, the portal hosts 5,032 datasets from 22 different data types spanning 27 organ classes across 310 donors. The portal's infrastructure and user interfaces enable efficient visualization and analysis directly in web browsers through integrated collaborative Jupyter workspaces and interactive Vitessce visualizations for over 1,500 non-spatial, 2D, and 3D spatial datasets. Uniform processing pipelines and rigorous quality control processes ensure comparability of results from different laboratories, organs, and donors for large-scale analyses, while externally processed, community-contributed datasets (EPICs) provide complementary perspectives. The portal interface supports both metadata- and data-driven search functionalities, bulk downloads, and integrated data collections, including supplementary data and visualizations for consortium publications. |
| title | HuBMAP Data Portal: A Resource for Multi-Modal Spatial and Single-Cell Data of Healthy Human Tissues |
| topic | Quantitative Methods |
| url | https://arxiv.org/abs/2511.05708 |