{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,9]],"date-time":"2026-01-09T12:48:32Z","timestamp":1767962912979,"version":"3.49.0"},"reference-count":23,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2012,7,18]],"date-time":"2012-07-18T00:00:00Z","timestamp":1342569600000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/2.0"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["J Bioinform Sys Biology"],"published-print":{"date-parts":[[2012,12]]},"DOI":"10.1186\/1687-4153-2012-9","type":"journal-article","created":{"date-parts":[[2012,7,18]],"date-time":"2012-07-18T14:16:17Z","timestamp":1342620977000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":13,"title":["Approximate maximum likelihood estimation for stochastic chemical kinetics"],"prefix":"10.1186","volume":"2012","author":[{"given":"Aleksandr","family":"Andreychenko","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Linar","family":"Mikeev","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"David","family":"Spieler","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Verena","family":"Wolf","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2012,7,18]]},"reference":[{"issue":"25","key":"20_CR1","doi-asserted-by":"publisher","first-page":"2340","DOI":"10.1021\/j100540a008","volume":"81","author":"DT Gillespie","year":"1977","unstructured":"Gillespie DT: Exact stochastic simulation of coupled chemical reactions. J. Phys. Chem 1977, 81(25):2340-2361. 10.1021\/j100540a008","journal-title":"J. Phys. Chem"},{"key":"20_CR2","doi-asserted-by":"publisher","first-page":"021904","DOI":"10.1103\/PhysRevE.75.021904","volume":"75","author":"A Loinger","year":"2007","unstructured":"Loinger A, Lipshtat A, Balaban NQ, Biham O: Stochastic simulations of genetic switch systems. Phys. Rev. E 2007, 75: 021904.","journal-title":"Phys. Rev. E"},{"key":"20_CR3","doi-asserted-by":"publisher","first-page":"84","DOI":"10.1093\/bioinformatics\/btl552","volume":"23","author":"T Tian","year":"2007","unstructured":"Tian T, Xu S, Gao J, Burrage K: Simulated maximum likelihood method for estimating kinetic rates in gene expression. Bioinformatics 2007, 23: 84-91. 10.1093\/bioinformatics\/btl552","journal-title":"Bioinformatics"},{"key":"20_CR4","doi-asserted-by":"publisher","first-page":"168","DOI":"10.1049\/ip-syb:20050105","volume":"153","author":"S Reinker","year":"2006","unstructured":"Reinker S, Altman R, Timmer J: Parameter estimation in stochastic biochemical reactions. IEEE Proc. Syst. Biol 2006, 153: 168-178.","journal-title":"IEEE Proc. Syst. Biol"},{"issue":"3","key":"20_CR5","doi-asserted-by":"publisher","first-page":"478","DOI":"10.1016\/j.jtbi.2009.10.015","volume":"262","author":"B Uz","year":"2010","unstructured":"Uz B, Arslan E, Laurenzi I: Maximum likelihood estimation of the kinetics of receptor-mediated adhesion. J. Theor. Biol 2010, 262(3):478-487. 10.1016\/j.jtbi.2009.10.015","journal-title":"J. Theor. Biol"},{"issue":"6","key":"20_CR6","doi-asserted-by":"publisher","first-page":"1025","DOI":"10.1016\/j.cell.2005.09.031","volume":"123","author":"I Golding","year":"2005","unstructured":"Golding I, Paulsson J, Zawilski S, Cox E: Real-time kinetics of gene activity in individual bacteria. Cell 2005, 123(6):1025-1036. 10.1016\/j.cell.2005.09.031","journal-title":"Cell"},{"key":"20_CR7","doi-asserted-by":"publisher","first-page":"125","DOI":"10.1007\/s11222-007-9043-x","volume":"18","author":"R Boys","year":"2008","unstructured":"Boys R, Wilkinson D, Kirkwood T: Bayesian inference for a discretely observed stochastic kinetic model. Stat. Comput 2008, 18: 125-135. 10.1007\/s11222-007-9043-x","journal-title":"Stat. Comput"},{"key":"20_CR8","doi-asserted-by":"publisher","first-page":"9","DOI":"10.2307\/1402999","volume":"45","author":"JJ Higgins","year":"1977","unstructured":"Higgins JJ: Bayesian inference and the optimality of maximum likelihood estimation. Int. Stat. Rev 1977, 45: 9-11. 10.2307\/1402999","journal-title":"Int. Stat. Rev"},{"issue":"2","key":"20_CR9","doi-asserted-by":"publisher","first-page":"341","DOI":"10.1111\/j.1467-9876.2009.00696.x","volume":"59","author":"CS Gillespie","year":"2010","unstructured":"Gillespie CS, Golightly A: Bayesian inference for generalized stochastic population growth models with application to aphids. J. R. Stat. Soc. Ser. C 2010, 59(2):341-357. 10.1111\/j.1467-9876.2009.00696.x","journal-title":"J. R. Stat. Soc. Ser. C"},{"issue":"31","key":"20_CR10","doi-asserted-by":"publisher","first-page":"187","DOI":"10.1098\/rsif.2008.0172","volume":"6","author":"T Toni","year":"2009","unstructured":"Toni T, Welch D, Strelkowa N, Ipsen A, Stumpf M: Approximate Bayesian computation scheme for parameter inference and model selection in dynamical systems. J. R. Soc. Interface 2009, 6(31):187-202. 10.1098\/rsif.2008.0172","journal-title":"J. R. Soc. Interface"},{"key":"20_CR11","doi-asserted-by":"crossref","unstructured":"Komorowski M, Finkenst\u00e4dt B, Harper C, Rand D: Bayesian inference of biochemical kinetic parameters using the linear noise approximation. J. R. Stat. Soc. Ser 2009., C 10(343):","DOI":"10.1186\/1471-2105-10-343"},{"key":"20_CR12","first-page":"83","volume-title":"Computer Aided Verification - 23rd International Conference, CAV 2011, Snowbird, UT , USA , July 14-20, 2011. Proceedings, Volume 6806 of Lecture Notes in Computer Science","author":"A Andreychenko","year":"2011","unstructured":"Andreychenko A, Mikeev L, Spieler D, Wolf V: Parameter Identification for Markov Models of Biochemical Reactions. In Computer Aided Verification - 23rd International Conference, CAV 2011, Snowbird, UT , USA , July 14-20, 2011. Proceedings, Volume 6806 of Lecture Notes in Computer Science. Springer; 2011:83-98."},{"key":"20_CR13","volume-title":"Computational Systems Biology - 8th International Workshop, WCSB 2011, Z\u00fcrich, Switzerland, June 6-8, 2011. Proceedings","author":"A Andreychenko","year":"2011","unstructured":"Andreychenko A, Mikeev L, Spieler D, Wolf V: Approximate maximum likelihood estimation for stochastic chemical kinetics. In Computational Systems Biology - 8th International Workshop, WCSB 2011, Z\u00fcrich, Switzerland, June 6-8, 2011. Proceedings. Tampere International Center for Signal Processing. TICSP series # 57; 2011."},{"key":"20_CR14","first-page":"337","volume-title":"Computer Aided Verification, 21st International Conference, CAV 2009, Grenoble, France, June 26 - July 2, 2009. Proceedings, Volume 5643 of Lecture Notes in Computer Science","author":"TA Henzinger","year":"2009","unstructured":"Henzinger TA, Mateescu M, Wolf V: Sliding Window Abstraction for Infinite Markov Chains. In Computer Aided Verification, 21st International Conference, CAV 2009, Grenoble, France, June 26 - July 2, 2009. Proceedings, Volume 5643 of Lecture Notes in Computer Science. Springer; 2009:337-352."},{"key":"20_CR15","doi-asserted-by":"publisher","first-page":"044144","DOI":"10.1063\/1.2145882","volume":"124","author":"B Munsky","year":"2006","unstructured":"Munsky B, Khammash M: The finite state projection algorithm for the solution of the chemical master equation. J. Chem. Phys 2006, 124: 044144.","journal-title":"J. Chem. Phys"},{"key":"20_CR16","first-page":"21","volume-title":"Proceedings of the Markov 150th Anniversary Conference","author":"K Burrage","year":"2006","unstructured":"Burrage K, Hegland M, Macnamara F, Sidje B: A Krylov-based finite state projection algorithm for solving the chemical master equation arising in the discrete modelling of biological systems. In Proceedings of the Markov 150th Anniversary Conference. Boson Books, Bitingduck Press; 2006:21-38."},{"issue":"6","key":"20_CR17","doi-asserted-by":"publisher","first-page":"441","DOI":"10.1049\/iet-syb.2010.0005","volume":"4","author":"M Mateescu","year":"2010","unstructured":"Mateescu M, Wolf V, Didier F, Henzinger T: Fast adaptive uniformisation of the chemical master equation. IET Syst. Biol 2010, 4(6):441-452. 10.1049\/iet-syb.2010.0005","journal-title":"IET Syst. Biol"},{"issue":"6","key":"20_CR18","doi-asserted-by":"publisher","first-page":"2562","DOI":"10.1137\/060662629","volume":"29","author":"R Sidje","year":"2007","unstructured":"Sidje R, Burrage K, MacNamara S: Inexact uniformization method for computing transient distributions of Markov chains. SIAM J. Sci. Comput 2007, 29(6):2562-2580. 10.1137\/060662629","journal-title":"SIAM J. Sci. Comput"},{"key":"20_CR19","doi-asserted-by":"publisher","DOI":"10.1007\/978-1-4612-1768-8_11","volume-title":"System Identification: Theory for the, User","author":"L Ljung","year":"1998","unstructured":"Ljung L: System Identification: Theory for the, User. 1998."},{"key":"20_CR20","unstructured":"Global Optimization Toolbox: User\u2019s Guide (r2011b). Mathworks 2011 [http:\/\/www.mathworks.com\/help\/pdf_doc\/gads\/gads_tb.pdf] []"},{"issue":"3","key":"20_CR21","doi-asserted-by":"publisher","first-page":"328","DOI":"10.1287\/ijoc.1060.0175","volume":"19","author":"Z Ugray","year":"2007","unstructured":"Ugray Z, Lasdon L, Plummer JC, Glover F, Kelly J, Marti R: Scatter search and local NLP solvers: a multistart framework for global optimization. INFORMS J. Comput 2007, 19(3):328-340. 10.1287\/ijoc.1060.0175","journal-title":"INFORMS J. Comput"},{"issue":"3","key":"20_CR22","doi-asserted-by":"publisher","first-page":"e14752","DOI":"10.1371\/journal.pone.0014752","volume":"6","author":"JX Zhou","year":"2011","unstructured":"Zhou JX, Brusch L, Huang S: Predicting pancreas cell fate decisions and reprogramming with a hierarchical multi-attractor model. PLoS ONE 2011, 6(3):e14752. 10.1371\/journal.pone.0014752","journal-title":"PLoS ONE"},{"key":"20_CR23","first-page":"55","volume-title":"Computational Methods in Systems Biology, 8th International Conference, CMSB 2010, Trento, Italy, September 29 - October 1, 2010. Proceedings","author":"TA Henzinger","year":"2010","unstructured":"Henzinger TA, Mikeev L, Mateescu M, Wolf V: Hybrid numerical solution of the chemical master equation. In Computational Methods in Systems Biology, 8th International Conference, CMSB 2010, Trento, Italy, September 29 - October 1, 2010. Proceedings. ACM; 2010:55-65."}],"container-title":["EURASIP Journal on Bioinformatics and Systems Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1687-4153-2012-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/1687-4153-2012-9\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/1687-4153-2012-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,9,1]],"date-time":"2021-09-01T21:28:11Z","timestamp":1630531691000},"score":1,"resource":{"primary":{"URL":"https:\/\/bsb-eurasipjournals.springeropen.com\/articles\/10.1186\/1687-4153-2012-9"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2012,7,18]]},"references-count":23,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2012,12]]}},"alternative-id":["20"],"URL":"https:\/\/doi.org\/10.1186\/1687-4153-2012-9","relation":{},"ISSN":["1687-4153"],"issn-type":[{"value":"1687-4153","type":"electronic"}],"subject":[],"published":{"date-parts":[[2012,7,18]]},"assertion":[{"value":"8 January 2012","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"7 July 2012","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"18 July 2012","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"9"}}