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Jonathan Silverstein

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Articles

Human BioMolecular Atlas Program (HuBMAP): 3D Human Reference Atlas construction and usage - Nature Methods

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By Katy Börner, Jonathan Silverstein, Matthew Ruffalo, Rahul Satija, Sarah A Teichmann, Gloria Pryhuber, Jean Fan, Chuan Xu, Yun Zhang, Yashvardhan Jain, Andreas Bueckle, Danial Qaurooni
| Nature Verified
Abstract The Human BioMolecular Atlas Program (HuBMAP) aims to construct a 3D Human Reference Atlas (HRA) of the healthy adult body. Experts from 20+ consortia collaborate to develop a Common Coordinate Framework (CCF), knowledge graphs and tools that describe the multiscale structure of the human body (from organs and tissues down to cells, genes and biomarkers) and to use the HRA to characterize changes that occur with aging, disease and other perturbations.
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Homo Sapiens Chromosomal Location Ontology: A Framework for Genomic Data in Biomedical Knowledge Graphs - Scientific Data

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By Benjamin Stear, Jonathan Silverstein
| Nature Verified
Abstract The Homo sapiens Chromosomal Location Ontology (HSCLO) is designed to facilitate the integration of human genomic features into biomedical knowledge graphs from releases GRCh37 and GRCh38 at multiple resolutions. HSCLO comprises two distinct versions, HSCLO37 and HSCLO38, each tailored to its respective human genome release.
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Human BioMolecular Atlas Program (HuBMAP): 3D Human Reference Atlas Construction and Usage

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By Katy Boerner, Philip Blood, Jonathan Silverstein, Matthew Ruffalo
| BioRxiv
Abstract The Human BioMolecular Atlas Program (HuBMAP) aims to construct a reference 3D structural, cellular, and molecular atlas of the healthy adult human body. The HuBMAP Data Portal (https://portal.hubmapconsortium.org) serves experimental datasets and supports data processing, search, filtering, and visualization. The Human Reference Atlas (HRA) Portal (https://humanatlas.io) provides open access to atlas data, code, procedures, and instructional materials.
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