{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,11]],"date-time":"2026-03-11T20:19:01Z","timestamp":1773260341721,"version":"3.50.1"},"reference-count":8,"publisher":"Oxford University Press (OUP)","issue":"12","license":[{"start":{"date-parts":[[2022,5,9]],"date-time":"2022-05-09T00:00:00Z","timestamp":1652054400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100001412","name":"Council of Scientific & Industrial Research","doi-asserted-by":"publisher","award":["JRF 09\/079(2650)\/2015-EMR-I"],"award-info":[{"award-number":["JRF 09\/079(2650)\/2015-EMR-I"]}],"id":[{"id":"10.13039\/501100001412","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Department of Biotechnology [through the Bioengineering and Biodesign Initiative Phase 2 at the Indian Institute of Science"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,6,13]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Summary<\/jats:title><jats:p>Molecular dynamics (MD) simulations have become an integral part of biomolecular study. Most MD software suites do not include analysis tools and those which do create very basic visualizations. Molecular Dynamics Data Visualizer (MD DaVis) is a python package developed to facilitate quick comparative analysis of MD trajectories of similar proteins or the same protein under different conditions. MD DaVis can quickly generate interactive visualization from molecular dynamics trajectories with a few simple steps. Interactive plots eliminate the need to make multiple plots for comparison, improving productivity and saving time.<\/jats:p><\/jats:sec><jats:sec><jats:title>Availability and implementation<\/jats:title><jats:p>MD DaVis is an open-source Python 3 package (https:\/\/pypi.org\/project\/md-davis\/) distributed under MIT license. The source code is available at https:\/\/github.com\/djmaity\/md-davis or https:\/\/doi.org\/10.5281\/zenodo.6227047.<\/jats:p><\/jats:sec><jats:sec><jats:title>Supplementary information<\/jats:title><jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p><\/jats:sec>","DOI":"10.1093\/bioinformatics\/btac314","type":"journal-article","created":{"date-parts":[[2022,5,3]],"date-time":"2022-05-03T19:15:44Z","timestamp":1651605344000},"page":"3299-3301","source":"Crossref","is-referenced-by-count":22,"title":["MD DaVis: interactive data visualization of protein molecular dynamics"],"prefix":"10.1093","volume":"38","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-8032-646X","authenticated-orcid":false,"given":"Dibyajyoti","family":"Maity","sequence":"first","affiliation":[{"name":"IISc Mathematics Initiative, Department of Mathematics, Indian Institute of Science , Bangalore 560012, India"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3591-5978","authenticated-orcid":false,"given":"Debnath","family":"Pal","sequence":"additional","affiliation":[{"name":"Department of Computational and Data Sciences, Indian Institute of Science , Bangalore 560012, India"}]}],"member":"286","published-online":{"date-parts":[[2022,5,9]]},"reference":[{"key":"2023041408193160200_","doi-asserted-by":"crossref","first-page":"43","DOI":"10.1016\/0010-4655(95)00042-E","article-title":"GROMACS: a message-passing parallel molecular dynamics implementation","volume":"91","author":"Berendsen","year":"1995","journal-title":"Comput. 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