{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,1,9]],"date-time":"2024-01-09T22:45:15Z","timestamp":1704840315393},"reference-count":41,"publisher":"Springer Science and Business Media LLC","issue":"6","license":[{"start":{"date-parts":[[2014,7,6]],"date-time":"2014-07-06T00:00:00Z","timestamp":1404604800000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/www.springer.com\/tdm"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Soft Comput"],"published-print":{"date-parts":[[2015,6]]},"DOI":"10.1007\/s00500-014-1353-2","type":"journal-article","created":{"date-parts":[[2014,7,5]],"date-time":"2014-07-05T11:59:41Z","timestamp":1404561581000},"page":"1635-1646","update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":19,"title":["Protein structure prediction using diversity controlled self-adaptive differential evolution with local search"],"prefix":"10.1007","volume":"19","author":[{"given":"S.","family":"Sudha","sequence":"first","affiliation":[]},{"given":"S.","family":"Baskar","sequence":"additional","affiliation":[]},{"given":"S. Miruna Joe","family":"Amali","sequence":"additional","affiliation":[]},{"given":"S.","family":"Krishnaswamy","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2014,7,6]]},"reference":[{"issue":"8","key":"1353_CR1","doi-asserted-by":"crossref","first-page":"899","DOI":"10.1080\/0305215X.2012.713356","volume":"45","author":"SMJ Amali","year":"2013","unstructured":"Amali SMJ, Baskar S (2013) Fuzzy logic based diversity controlled self adaptive differential evolution. Eng Optim 45(8):899\u2013915","journal-title":"Eng Optim"},{"key":"1353_CR2","doi-asserted-by":"crossref","first-page":"525","DOI":"10.3844\/jcssp.2008.525.529","volume":"4","author":"A Badr","year":"2008","unstructured":"Badr A, Aref IM, Hussien BM, Eman Y (2008) Solving protein folding problem using elitism-based compact genetic algorithm. J Comput Sci 4:525\u2013529","journal-title":"J Comput Sci"},{"key":"1353_CR3","doi-asserted-by":"crossref","unstructured":"Bahamish HAA, Abdullah R, Salam RA (2008a) Protein conformational search using bees algorithm. In: Second Asia International Conference on Modelling & Simulation, Malaysia, pp 911\u2013916","DOI":"10.1109\/AMS.2008.65"},{"key":"1353_CR4","doi-asserted-by":"crossref","unstructured":"Bahamish HAA, Abdullah R, Salam RA (2008b) Swarm intelligence based protein conformational search algorithm. In: Proceedings of the 3rd IMT-GT Regional Conference on Mathematics, Statistics and Applications","DOI":"10.1109\/AMS.2008.65"},{"key":"1353_CR5","doi-asserted-by":"crossref","first-page":"52","DOI":"10.1002\/(SICI)1097-0134(19980701)32:1<52::AID-PROT7>3.0.CO;2-G","volume":"32","author":"U Bastolla","year":"1998","unstructured":"Bastolla U, Frauenkron H, Gerstner E, Grassberger P, Nadler W (1998) Testing a new Monte Carlo algorithm for protein folding. Proteins 32:52\u201366","journal-title":"Proteins"},{"key":"1353_CR6","doi-asserted-by":"crossref","unstructured":"Becerra D, Sandoval A, Restrepo-Montoya D, Nino LF (2010) A parallel multi-objective ab initio approach for protein structure prediction. In: Proceedings of IEEE International Conference on Bioinformatics and Biomedicine (BIBM), pp 137\u2013141","DOI":"10.1109\/BIBM.2010.5706552"},{"key":"1353_CR7","unstructured":"B\u00f6ckenhauer HJ, Bongartz D (2007) Algorithmic aspects of bioinformatics. Natural Computing SeriesSpringer, Berlin"},{"key":"1353_CR8","doi-asserted-by":"crossref","first-page":"187","DOI":"10.1002\/jcc.540040211","volume":"4","author":"BR Brooks","year":"1983","unstructured":"Brooks BR, Bruccoleri RE, Olafson BD, States DJ, Swaminathan S, Karplus M (1983) CHARMM: a program for macromolecular energy minimization and dynamics calculations. J Comput Chem 4:187\u2013217","journal-title":"J Comput Chem"},{"key":"1353_CR9","unstructured":"Browman MJ, Carruthers LM, Kashuba KL, Momany FA, Pottle MS, Rosen SP, Rumsey SM (1983) ECEPP2: empirical conformational energy program for peptides, Quantum Chemistry Program Exchange QCPE. Indiana University, pp 855\u20134784"},{"issue":"2","key":"1353_CR10","doi-asserted-by":"crossref","first-page":"253","DOI":"10.1007\/s11227-009-0368-4","volume":"58","author":"JC Calvo","year":"2011","unstructured":"Calvo JC, Ortega J, Anguita M (2011) Comparison of parallel multi-objective approaches to protein structure prediction. J Supercomput 58(2):253\u2013260","journal-title":"J Supercomput"},{"key":"1353_CR11","first-page":"3","volume-title":"Evolutionary computation in bioinformatics","author":"DW Corne","year":"2002","unstructured":"Corne DW, Fogel G (2002) An introduction to biology and bioinformatics for computer scientists. In: Fogel Corne (ed) Evolutionary computation in bioinformatics. Morgan Kaufmann, Massachusetts, pp 3\u201318"},{"issue":"6","key":"1353_CR12","doi-asserted-by":"crossref","first-page":"139","DOI":"10.1098\/rsif.2005.0083","volume":"3","author":"V Cutello","year":"2006","unstructured":"Cutello V, Narzisi G, Nicosia G (2006) A multi-objective evolutionary approach to the protein structure prediction problem. J R Soc Interf 3(6):139\u2013151","journal-title":"J R Soc Interf"},{"issue":"1","key":"1353_CR13","doi-asserted-by":"crossref","first-page":"4","DOI":"10.1109\/TEVC.2010.2059031","volume":"15","author":"S Das","year":"2011","unstructured":"Das S, Suganthan PN (2011) Differential evolution: a survey of the state-of-the-art. IEEE Trans Evol Comput 15(1):4\u201331","journal-title":"IEEE Trans Evol Comput"},{"key":"1353_CR14","doi-asserted-by":"crossref","first-page":"3","DOI":"10.1016\/j.swevo.2011.02.002","volume":"1","author":"J Derrac","year":"2011","unstructured":"Derrac J, Garc\u00eda S, Molina D, Herrera F (2011) A practical tutorial on the use of nonparametric statistical tests as a methodology for comparing evolutionary and swarm intelligence algorithms. Swarm Evol Comput 1:3\u201318","journal-title":"Swarm Evol Comput"},{"key":"1353_CR15","first-page":"2","volume":"2","author":"PM Dinubhai","year":"2013","unstructured":"Dinubhai PM, Shah HB (2013) Comparative study of multi-class protein structure prediction using advanced soft computing techniques. Int J Eng Sci Innov Technol 2:2","journal-title":"Int J Eng Sci Innov Technol"},{"key":"1353_CR16","doi-asserted-by":"crossref","first-page":"452","DOI":"10.1016\/S0377-2217(01)00122-9","volume":"138","author":"J Ecker","year":"2002","unstructured":"Ecker J, Kupferschmid M, Lawrence C, Reilly A, Scott A (2002) An application of nonlinear optimization in molecular biology. Eur J Oper Res 138:452\u2013458","journal-title":"Eur J Oper Res"},{"key":"1353_CR17","doi-asserted-by":"crossref","first-page":"192","DOI":"10.1016\/S0010-4655(01)00197-7","volume":"138","author":"F Eisenmenger","year":"2001","unstructured":"Eisenmenger F, Hansmann UHE, Hayryan S, Hu CK (2001) [SMMP] : A modern package for protein simulations. Comput Phys. Commun 138:192\u2013212","journal-title":"Comput Phys. Commun"},{"key":"1353_CR18","unstructured":"Eman Y, Badr A, Farag I (2010) Cellular evolutionary algorithms for solving protein folding problem. Egypt Comput Sci J 34\/2"},{"key":"1353_CR19","doi-asserted-by":"crossref","unstructured":"Kaiser CE, Lamont GB, Merkle LD, Gates GH Jr, Pachter R (1997) Real-valued and hybird genetic algorithms for polypeptide structure prediction. The association for computing machinery. In: Proceedings of the Symposium on Applied Computing, New York","DOI":"10.1145\/331697.331755"},{"key":"1353_CR20","doi-asserted-by":"crossref","unstructured":"Klepeis JL, Pieja MJ, Floudas CA (2003) Hybrid global optimization algorithms for protein structure prediction: alternating hybrids. Biophys J 84:869\u2013882","DOI":"10.1016\/S0006-3495(03)74905-4"},{"key":"1353_CR21","doi-asserted-by":"crossref","unstructured":"K\u00f6nig R, Dandekar T (1999) Refined genetic algorithm simulation to model protein. J Mol Model 5:317\u2013324","DOI":"10.1007\/PL00010719"},{"key":"1353_CR22","doi-asserted-by":"crossref","first-page":"3374","DOI":"10.1063\/1.1387478","volume":"115","author":"F Liang","year":"2001","unstructured":"Liang F, Wong WH (2001) Evolutionary Monte Carlo for protein folding simulations. J. Chem. Phys 115:3374\u20133380","journal-title":"J. Chem. Phys"},{"issue":"2012","key":"1353_CR23","doi-asserted-by":"crossref","first-page":"143","DOI":"10.1142\/S201019451200520X","volume":"9","author":"ZN Mahmood","year":"2012","unstructured":"Mahmood ZN (2012) Protein tertiary structure prediction based on main chain angle using a hybrid bees colony optimization algorithm. Int J Mod Phys Conf Ser 9(2012):143\u2013156","journal-title":"Int J Mod Phys Conf Ser"},{"issue":"1","key":"1353_CR24","doi-asserted-by":"crossref","first-page":"67","DOI":"10.5121\/ijsc.2012.3106","volume":"3","author":"AK Mandle","year":"2012","unstructured":"Mandle AK, Jain P, Shrivastava SK (2012) Protein structure prediction using support vector machine. Int J Soft Comput 3(1):67\u201378","journal-title":"Int J Soft Comput"},{"key":"1353_CR25","doi-asserted-by":"crossref","first-page":"594","DOI":"10.1002\/jcc.540120509","volume":"12","author":"A Nayeem","year":"1991","unstructured":"Nayeem A, Vila J, Scheraga HA (1991) A comparative study of the simulated annealing and Monte-Carlo with minimization approaches to the minimum energy structures of polypeptides: [met]-enkephalin. J Comput Chem 12:594\u2013605","journal-title":"J Comput Chem"},{"key":"1353_CR26","series-title":"Algorithms in Bioinformatics, LNCS","volume-title":"Generalized pattern search and mesh adaptive direct search algorithms for protein structure prediction","author":"G Nicosia","year":"2007","unstructured":"Nicosia G, Stracquadanio G (2007) Generalized pattern search and mesh adaptive direct search algorithms for protein structure prediction., Algorithms in Bioinformatics, LNCSSpringer, Berlin"},{"key":"1353_CR27","doi-asserted-by":"crossref","first-page":"4988","DOI":"10.1529\/biophysj.107.124016","volume":"95","author":"G Nicosia","year":"2008","unstructured":"Nicosia G, Stracquadanio G (2008) Generalized pattern search algorithm for peptide structure prediction. Biophys J 95:4988\u20134999","journal-title":"Biophys J"},{"key":"1353_CR28","doi-asserted-by":"crossref","first-page":"398","DOI":"10.1109\/TEVC.2008.927706","volume":"13","author":"AK Qin","year":"2009","unstructured":"Qin AK, Huang VL, Suganthan PN (2009) Differential evolution algorithm with strategy adaptation for global numerical optimization. IEEE Trans Evol Comput 13:398\u2013417","journal-title":"IEEE Trans Evol Comput"},{"key":"1353_CR29","unstructured":"Ramachandran Plot (1963) http:\/\/dicsoft1.physics.iisc.ernet.in\/rp\/"},{"key":"1353_CR30","doi-asserted-by":"crossref","first-page":"400","DOI":"10.1007\/3-540-44886-1_30","volume":"2671","author":"A Shmygelska","year":"2003","unstructured":"Shmygelska A, Hoos HH (2003) An improved ant colony optimization algorithm for the 2D HP protein folding problem. Lect. Notes Comput. Sci. 2671:400\u2013412","journal-title":"Lect. Notes Comput. Sci."},{"key":"1353_CR31","doi-asserted-by":"crossref","first-page":"341","DOI":"10.1023\/A:1008202821328","volume":"11","author":"R Storn","year":"1997","unstructured":"Storn R, Price KV (1997) Differential evolution\u2014a simple and efficient heuristic for global optimization over continuous spaces. J Glob Optim 11:341\u2013359","journal-title":"J Glob Optim"},{"key":"1353_CR32","volume-title":"Prediction of topological contacts in proteins using learning classifier systems. Soft computing","author":"M Stout","year":"2009","unstructured":"Stout M, Bacardit J, Hirst JD, Smith RE, Krasnogor N (2009) Prediction of topological contacts in proteins using learning classifier systems. Soft computing. Springer, Berlin"},{"key":"1353_CR33","unstructured":"Sudha S, Baskar S, Krishnaswamy S (2013a) Protein tertiary structure prediction using evolutionary algorithms. Int J Emerg Technol Comput Appl Sci 3(3):338\u2013348"},{"key":"1353_CR34","doi-asserted-by":"crossref","unstructured":"Sudha S, Baskar S, Krishnaswamy S (2013b) Multi-objective approach for protein structure prediction. Swarm, evolutionary, and memetic computing. Lect Notes Comput Sci 8298(2013):511\u2013522","DOI":"10.1007\/978-3-319-03756-1_46"},{"key":"1353_CR35","unstructured":"Takahashi O, Kita H, Kobayashi S (1999) Protein folding by a hierarchical genetic algorithm. In: Proceedings of 4th Internation Symposium on Artificial Life and Robotics (AROB\u201999)"},{"key":"1353_CR36","first-page":"1185","volume-title":"A grid-based genetic algorithm combined with an adaptive simulated annealing for protein structure prediction. Soft Computing","author":"AA Tantar","year":"2008","unstructured":"Tantar AA, Melab N, Talbi EG (2008) A grid-based genetic algorithm combined with an adaptive simulated annealing for protein structure prediction. Soft Computing. Springer, Berlin, pp 1185\u20131198"},{"key":"1353_CR37","unstructured":"Unger R, Moult J (1993) Genetic algorithm for 3D protein folding simulations. In: Proceedings of 5th International Conference on Genetic Algorithms, pp 581\u2013588"},{"key":"1353_CR38","doi-asserted-by":"crossref","first-page":"11196","DOI":"10.1021\/jp049581v","volume":"108","author":"K Vengadesan","year":"2004","unstructured":"Vengadesan K, Gautham N (2004) Energy landscale of met-enkephalin and leu-enkephalin drawn using mutually orthogonal latin squares sampling. J Phys Chem B 108:11196\u201311205","journal-title":"J Phys Chem B"},{"key":"1353_CR39","doi-asserted-by":"crossref","unstructured":"Zhang Y, Wu L, Wang S (2013) Solving two-dimensional HP model by firefly algorithm and simplified energy function. Math Probl Eng 2013:9. doi: 10.1155\/2013\/398141","DOI":"10.1155\/2013\/398141"},{"key":"1353_CR40","doi-asserted-by":"crossref","first-page":"331","DOI":"10.1007\/978-3-642-42042-9_42","volume":"8227","author":"NM Zakaria","year":"2013","unstructured":"Zakaria NM, Alqattan RA (2013) A comparison between artificial bee colony and particle swarm optimization algorithms for protein structure prediction problem. Neural information processing. Lect Notes Comput Sci 8227:331\u2013340","journal-title":"Lect Notes Comput Sci"},{"key":"1353_CR41","doi-asserted-by":"crossref","first-page":"2399","DOI":"10.1529\/biophysj.106.083899","volume":"91","author":"L Zhan","year":"2006","unstructured":"Zhan L, Chen JZY, Liu WK (2006) Conformational study of Met-enkephalin based on the ECEPP force fields. Biophys J 91:2399\u20132404","journal-title":"Biophys J"}],"container-title":["Soft Computing"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/s00500-014-1353-2.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1007\/s00500-014-1353-2\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/s00500-014-1353-2","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,8,12]],"date-time":"2019-08-12T12:52:08Z","timestamp":1565614328000},"score":1,"resource":{"primary":{"URL":"http:\/\/link.springer.com\/10.1007\/s00500-014-1353-2"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2014,7,6]]},"references-count":41,"journal-issue":{"issue":"6","published-print":{"date-parts":[[2015,6]]}},"alternative-id":["1353"],"URL":"https:\/\/doi.org\/10.1007\/s00500-014-1353-2","relation":{},"ISSN":["1432-7643","1433-7479"],"issn-type":[{"value":"1432-7643","type":"print"},{"value":"1433-7479","type":"electronic"}],"subject":[],"published":{"date-parts":[[2014,7,6]]}}}