title: A low-latency, big database system and browser for storage, querying and visualization of 3D genomic data.
abstract: 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/.
authors.affiliation: School Computer Science, McGill University, Canada.
authors.forename: Alexander
authors.initials: A
authors.lastname: Butyaev
authors.affiliation: eXascale InfoLab, University of Fribourg, Switzerland.
authors.forename: Ruslan
authors.initials: R
authors.lastname: Mavlyutov
authors.affiliation: School Computer Science, McGill University, Canada.
authors.forename: Mathieu
authors.initials: M
authors.lastname: Blanchette
authors.affiliation: eXascale InfoLab, University of Fribourg, Switzerland phil@exascale.info.
authors.forename: Philippe
authors.initials: P
authors.lastname: Cudré-Mauroux
authors.affiliation: School Computer Science, McGill University, Canada jeromew@cs.mcgill.ca.
authors.forename: Jérôme
authors.initials: J
authors.lastname: Waldispühl
mesh_terms: D003196:Computer Graphics; D030541:Databases, Genetic; D005796:Genes; D016161:Genes, Retinoblastoma; D015894:Genome, Human; D023281:Genomics; D006801:Humans; D020407:Internet; D008958:Models, Molecular; D020641:Polymorphism, Single Nucleotide