| URL: | http://3dgb.cs.mcgill.ca |
| Full name: | 3D genomic database |
| Description: | 3DBG is a novel storage paradigm and database system to store and query genomic data in a 3D space with a lightweight 3D genome browser to visualize and navigate these data from any internet browser. Our system aims to foster the discovery of spatial relationships between genomic elements and accelerate the large-scale analysis of space-dependent regulatory mechanisms. |
| Year founded: | 2015 |
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| Accessibility: |
Accessible
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| Country/Region: | Canada |
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| University/Institution: | McGill University |
| Address: | Jérôme Waldispühl School of Computer Science, McGill University, 3480 University Street, H3A 0E9 Montreal, Canada |
| City: | Montreal |
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| Country/Region: | Canada |
| Contact name (PI/Team): | Jérôme Waldispühl |
| Contact email (PI/Helpdesk): | jeromew@cs.mcgill.ca |
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A low-latency, big database system and browser for storage, querying and visualization of 3D genomic data. [PMID: 25990738]
Recent releases of genome three-dimensional (3D) structures have the potential to transform our understanding of genomes. Nonetheless, the storage technology and visualization tools need to evolve to offer to the scientific community fast and convenient access to these data. We introduce simultaneously a database system to store and query 3D genomic data (3DBG), and a 3D genome browser to visualize and explore 3D genome structures (3DGB). We benchmark 3DBG against state-of-the-art systems and demonstrate that it is faster than previous solutions, and importantly gracefully scales with the size of data. We also illustrate the usefulness of our 3D genome Web browser to explore human genome structures. The 3D genome browser is available at http://3dgb.cs.mcgill.ca/. |