{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,12]],"date-time":"2026-05-12T15:21:05Z","timestamp":1778599265501,"version":"3.51.4"},"reference-count":51,"publisher":"Institute of Electrical and Electronics Engineers (IEEE)","issue":"2","license":[{"start":{"date-parts":[[2016,3,1]],"date-time":"2016-03-01T00:00:00Z","timestamp":1456790400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/ieeexplore.ieee.org\/Xplorehelp\/downloads\/license-information\/IEEE.html"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["IEEE\/ACM Trans. Comput. Biol. and Bioinf."],"published-print":{"date-parts":[[2016,3,1]]},"DOI":"10.1109\/tcbb.2015.2443784","type":"journal-article","created":{"date-parts":[[2015,6,11]],"date-time":"2015-06-11T18:43:45Z","timestamp":1434048225000},"page":"365-379","source":"Crossref","is-referenced-by-count":7,"title":["Process Simulation of Complex Biological Pathways in Physical Reactive Space and Reformulated for Massively Parallel Computing Platforms"],"prefix":"10.1109","volume":"13","author":[{"given":"Narayan","family":"Ganesan","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jie","family":"Li","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Vishakha","family":"Sharma","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hanyu","family":"Jiang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Adriana","family":"Compagnoni","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"263","reference":[{"key":"ref39","doi-asserted-by":"publisher","DOI":"10.4049\/jimmunol.174.2.1003"},{"key":"ref38","author":"alberts","year":"2008","journal-title":"Molecular Biology of the Cell"},{"key":"ref33","doi-asserted-by":"publisher","DOI":"10.4108\/ICST.SIMUTOOLS2010.8822"},{"key":"ref32","doi-asserted-by":"publisher","DOI":"10.1109\/IPDPSW.2014.199"},{"key":"ref31","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-319-05960-0_22"},{"key":"ref30","first-page":"15","article-title":"Computational and mathematical models of the JAK-STAT signal transduction pathway","author":"sharma","year":"0","journal-title":"Proc Summer Simulation Multiconf"},{"key":"ref37","doi-asserted-by":"publisher","DOI":"10.1016\/S0014-5793(02)03842-5"},{"key":"ref36","doi-asserted-by":"publisher","DOI":"10.1093\/bib\/bbp073"},{"key":"ref35","article-title":"Sugarscape on steroids: Simulating over one million agents at interactive rates","author":"d\u2019souza","year":"0","journal-title":"Proc Agent Conf"},{"key":"ref34","first-page":"1","article-title":"Data-parallel algorithms for agent-based model simulation of tuberculosis on graphics processing units","author":"d\u2019souza","year":"0","journal-title":"Proc Spring Simul Multiconf"},{"key":"ref28","doi-asserted-by":"publisher","DOI":"10.1017\/CBO9780511816581"},{"key":"ref27","doi-asserted-by":"publisher","DOI":"10.1103\/PhysRev.159.98"},{"key":"ref29","doi-asserted-by":"publisher","DOI":"10.1145\/2382936.2383039"},{"key":"ref2","doi-asserted-by":"publisher","DOI":"10.1088\/1742-6596\/16\/1\/042"},{"key":"ref1","doi-asserted-by":"publisher","DOI":"10.1137\/070692017"},{"key":"ref20","doi-asserted-by":"publisher","DOI":"10.1006\/jcph.1996.0168"},{"key":"ref22","doi-asserted-by":"publisher","DOI":"10.1137\/040605060"},{"key":"ref21","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bti431"},{"key":"ref24","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-540-75140-3_13"},{"key":"ref23","doi-asserted-by":"publisher","DOI":"10.1021\/jp993732q"},{"key":"ref26","doi-asserted-by":"publisher","DOI":"10.1088\/1478-3975\/6\/4\/046001"},{"key":"ref25","article-title":"Diffusion limited reactions","volume":"25","author":"rice","year":"1985","journal-title":"Comprehensive Chemical Kinetics"},{"key":"ref50","first-page":"101","year":"0"},{"key":"ref51","first-page":"524","volume":"19","year":"0"},{"key":"ref10","author":"cox","year":"1965","journal-title":"The Theory of Stochastic Processes"},{"key":"ref11","first-page":"129","article-title":"Versuch einer mathematischen theorie der koagulationskinetik kolloider l&#x00F6;sungen","volume":"92","author":"smoluchowski","year":"1917","journal-title":"Zeitschrift F&#x00FC r Physikalisches Chemie"},{"key":"ref40","doi-asserted-by":"publisher","DOI":"10.1056\/NEJMoa1110556"},{"key":"ref12","doi-asserted-by":"publisher","DOI":"10.1016\/S0167-7799(01)01636-5"},{"key":"ref13","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-7091-0891-8_14"},{"key":"ref14","doi-asserted-by":"publisher","DOI":"10.1152\/ajprenal.00181.2005"},{"key":"ref15","first-page":"3","article-title":"The era of the &#x2018;well-mixed&#x2019; cell is behind us","volume":"125","author":"anderson","year":"2005","journal-title":"J General Physiol"},{"key":"ref16","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.092133899"},{"key":"ref17","doi-asserted-by":"publisher","DOI":"10.1039\/c2mb25168j"},{"key":"ref18","doi-asserted-by":"publisher","DOI":"10.1038\/msb4100188"},{"key":"ref19","doi-asserted-by":"publisher","DOI":"10.1109\/TCBB.2009.23"},{"key":"ref4","doi-asserted-by":"publisher","DOI":"10.1088\/1478-3967\/1\/3\/001"},{"key":"ref3","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btl485"},{"key":"ref6","doi-asserted-by":"publisher","DOI":"10.1049\/iet-syb:20080102"},{"key":"ref5","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1000705"},{"key":"ref8","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2012.05.044"},{"key":"ref7","doi-asserted-by":"publisher","DOI":"10.1016\/B978-0-12-388403-9.00008-4"},{"key":"ref49","first-page":"41","year":"0"},{"key":"ref9","doi-asserted-by":"publisher","DOI":"10.1021\/j100540a008"},{"key":"ref46","doi-asserted-by":"publisher","DOI":"10.1358\/dnp.2005.18.4.908658"},{"key":"ref45","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.M106139200"},{"key":"ref48","first-page":"35","volume":"293","year":"0"},{"key":"ref47","first-page":"77","volume":"5945","year":"0"},{"key":"ref42","doi-asserted-by":"publisher","DOI":"10.1046\/j.1432-1327.1999.00149.x"},{"key":"ref41","doi-asserted-by":"publisher","DOI":"10.4161\/epi.6.4.14515"},{"key":"ref44","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.M102737200"},{"key":"ref43","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.100135197"}],"container-title":["IEEE\/ACM Transactions on Computational Biology and Bioinformatics"],"original-title":[],"link":[{"URL":"http:\/\/xplorestaging.ieee.org\/ielx7\/8857\/7445291\/7122290.pdf?arnumber=7122290","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,10,11]],"date-time":"2021-10-11T02:34:17Z","timestamp":1633919657000},"score":1,"resource":{"primary":{"URL":"http:\/\/ieeexplore.ieee.org\/document\/7122290\/"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2016,3,1]]},"references-count":51,"journal-issue":{"issue":"2"},"URL":"https:\/\/doi.org\/10.1109\/tcbb.2015.2443784","relation":{},"ISSN":["1545-5963"],"issn-type":[{"value":"1545-5963","type":"print"}],"subject":[],"published":{"date-parts":[[2016,3,1]]}}}