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dc.contributor.authorKlein, T.
dc.contributor.authorMindek, P.
dc.contributor.authorAutin, L.
dc.contributor.authorGoodsell, D. S.
dc.contributor.authorOlson, A. J.
dc.contributor.authorGröller, E. M.
dc.contributor.authorViola, Ivan
dc.date.accessioned2019-12-02T13:44:15Z
dc.date.available2019-12-02T13:44:15Z
dc.date.issued2019-11-14
dc.identifier.citationKlein, T., Mindek, P., Autin, L., Goodsell, D. S., Olson, A. J., Gröller, E. M., & Viola, I. (2019). Parallel Generation and Visualization of Bacterial Genome Structures. Computer Graphics Forum, 38(7), 57–68. doi:10.1111/cgf.13816
dc.identifier.doi10.1111/cgf.13816
dc.identifier.urihttp://hdl.handle.net/10754/660374
dc.description.abstractVisualization of biological mesoscale models provides a glimpse at the inner workings of living cells. One of the most complex components of these models is DNA, which is of fundamental importance for all forms of life. Modeling the 3D structure of genomes has previously only been attempted by sequential approaches. We present the first parallel approach for the instant construction of DNA structures. Traditionally, such structures are generated with algorithms like random walk, which have inherent sequential constraints. These algorithms result in the desired structure, are easy to control, and simple to formulate. Their execution, however, is very time-consuming, as they are not designed to exploit parallelism. We propose an approach to parallelize the process, facilitating an implementation on the GPU.
dc.description.sponsorshipThis work was funded under the ILLVISATION grant by WWTF (VRG11-010). It is based upon work supported by the King Abdullah University of Science and Technology (KAUST) Office of Sponsored Research (OSR) under Award No. OSR-2019-CPF-4108 and BAS/1/1680-01-01. The Scripps Research Institute researchers acknowledge support from the National Institutes of Health under the grant R01-GM120604. This paper was partly written in collaboration with the VRVis Competence Center. VRVis is funded by BMVIT, BMWFW, Styria, SFG and Vienna Business Agency in the scope of COMET - Competence Centers for Excellent Technologies (854174), which is managed by FFG. The authors would like to thank Nanographics GmbH (nanographics.at) for providing the Marion Software Framework.
dc.publisherWiley
dc.relation.urlhttps://onlinelibrary.wiley.com/doi/abs/10.1111/cgf.13816
dc.rightsArchived with thanks to Computer Graphics Forum
dc.titleParallel Generation and Visualization of Bacterial Genome Structures
dc.typeArticle
dc.contributor.departmentComputer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
dc.contributor.departmentComputer Science Program
dc.contributor.departmentVisual Computing Center (VCC)
dc.identifier.journalComputer Graphics Forum
dc.rights.embargodate2020-11-14
dc.eprint.versionPost-print
dc.contributor.institutionTU Wien Austria
dc.contributor.institutionThe Scripps Research Institute USA
dc.contributor.institutionRCSB Protein Data Bank, Rutgers State University of New Jersey USA
dc.contributor.institutionVRVis Research Center Austria
kaust.personViola, Ivan
kaust.grant.numberBAS/1/1680-01-01
refterms.dateFOA2020-11-14T00:00:00Z
kaust.acknowledged.supportUnitOffice of Sponsored Research (OSR)


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