{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,11]],"date-time":"2026-04-11T09:19:58Z","timestamp":1775899198438,"version":"3.50.1"},"reference-count":25,"publisher":"Association for Computing Machinery (ACM)","issue":"7","license":[{"start":{"date-parts":[[2008,7,1]],"date-time":"2008-07-01T00:00:00Z","timestamp":1214870400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.acm.org\/publications\/policies\/copyright_policy#Background"}],"content-domain":{"domain":["dl.acm.org"],"crossmark-restriction":true},"short-container-title":["Commun. ACM"],"published-print":{"date-parts":[[2008,7]]},"abstract":"<jats:p>The ability to perform long, accurate molecular dynamics (MD) simulations involving proteins and other biological macro-molecules could in principle provide answers to some of the most important currently outstanding questions in the fields of biology, chemistry, and medicine. A wide range of biologically interesting phenomena, however, occur over timescales on the order of a millisecond---several orders of magnitude beyond the duration of the longest current MD simulations.<\/jats:p>\n          <jats:p>We describe a massively parallel machine called Anton, which should be capable of executing millisecond-scale classical MD simulations of such biomolecular systems. The machine, which is scheduled for completion by the end of 2008, is based on 512 identical MD-specific ASICs that interact in a tightly coupled manner using a specialized highspeed communication network. Anton has been designed to use both novel parallel algorithms and special-purpose logic to dramatically accelerate those calculations that dominate the time required for a typical MD simulation. The remainder of the simulation algorithm is executed by a programmable portion of each chip that achieves a substantial degree of parallelism while preserving the flexibility necessary to accommodate anticipated advances in physical models and simulation methods.<\/jats:p>","DOI":"10.1145\/1364782.1364802","type":"journal-article","created":{"date-parts":[[2008,6,24]],"date-time":"2008-06-24T12:48:51Z","timestamp":1214311731000},"page":"91-97","update-policy":"https:\/\/doi.org\/10.1145\/crossmark-policy","source":"Crossref","is-referenced-by-count":672,"title":["Anton, a special-purpose machine for molecular dynamics simulation"],"prefix":"10.1145","volume":"51","author":[{"given":"David E.","family":"Shaw","sequence":"first","affiliation":[{"name":"D.E. Shaw Research, New York, NY and Columbia University, New York, NY"}]},{"given":"Martin M.","family":"Deneroff","sequence":"additional","affiliation":[{"name":"D.E. 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