{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,2,1]],"date-time":"2024-02-01T18:43:00Z","timestamp":1706812980169},"reference-count":25,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2015,1,27]],"date-time":"2015-01-27T00:00:00Z","timestamp":1422316800000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["J Bioinform Sys Biology"],"published-print":{"date-parts":[[2015,12]]},"DOI":"10.1186\/s13637-014-0020-3","type":"journal-article","created":{"date-parts":[[2015,1,26]],"date-time":"2015-01-26T10:01:00Z","timestamp":1422266460000},"update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":6,"title":["Optimal cancer prognosis under network uncertainty"],"prefix":"10.1186","volume":"2015","author":[{"given":"Mohammadmahdi R","family":"Yousefi","sequence":"first","affiliation":[]},{"given":"Lori A","family":"Dalton","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2015,1,27]]},"reference":[{"key":"20_CR1","unstructured":"Understanding Cancer Prognosis. (\n                    www.cancer.gov\/cancertopics\/factsheet\/Support\/prognosis-stats\n                    \n                  )."},{"issue":"2","key":"20_CR2","doi-asserted-by":"publisher","first-page":"261","DOI":"10.1093\/bioinformatics\/18.2.261","volume":"18","author":"I Shmulevich","year":"2002","unstructured":"I Shmulevich, ER Dougherty, S Kim, W Zhang, Probabilistic Boolean networks: A rule-based uncertainty model for gene regulatory networks. Bioinformatics 18(2), 261\u2013274 (2002).","journal-title":"Bioinformatics"},{"issue":"9","key":"20_CR3","doi-asserted-by":"publisher","first-page":"2256","DOI":"10.1109\/TSP.2013.2251336","volume":"61","author":"BJ Yoon","year":"2013","unstructured":"BJ Yoon, X Qian, ER Dougherty, Quantifying the objective cost of uncertainty in complex dynamical systems. IEEE Trans. Signal Process. 61(9), 2256\u20132266 (2013).","journal-title":"IEEE Trans. Signal Process"},{"issue":"5","key":"20_CR4","doi-asserted-by":"publisher","first-page":"1301","DOI":"10.1016\/j.patcog.2012.10.018","volume":"46","author":"LA Dalton","year":"2013","unstructured":"LA Dalton, ER Dougherty, Optimal classifiers with minimum expected error within a Bayesian framework \u2013 Part I: Discrete and Gaussian models. Pattern Recognit. 46(5), 1301\u20131314 (2013).","journal-title":"Pattern Recognit"},{"issue":"5","key":"20_CR5","doi-asserted-by":"publisher","first-page":"1288","DOI":"10.1016\/j.patcog.2012.10.019","volume":"46","author":"LA Dalton","year":"2013","unstructured":"LA Dalton, ER Dougherty, Optimal classifiers with minimum expected error within a Bayesian framework \u2013 Part II: Properties and performance analysis. Pattern Recognit. 46(5), 1288\u20131300 (2013).","journal-title":"Pattern Recognit"},{"key":"20_CR6","doi-asserted-by":"crossref","unstructured":"HY Chuang, E Lee, YT Liu, D Lee, T Ideker, Network-based classification of breast cancer metastasis. Mol. Syst. Biol. 3(140) (2007).","DOI":"10.1038\/msb4100180"},{"issue":"11","key":"20_CR7","doi-asserted-by":"publisher","first-page":"e1000217","DOI":"10.1371\/journal.pcbi.1000217","volume":"4","author":"E Lee","year":"2008","unstructured":"E Lee, HY Chuang, JW Kim, T Ideker, D Lee, Inferring pathway activity toward precise disease classification. PLoS Comput. Biol. 4(11), e1000217 (2008).","journal-title":"PLoS Comput. Biol."},{"issue":"12","key":"20_CR8","doi-asserted-by":"publisher","first-page":"e8161","DOI":"10.1371\/journal.pone.0008161","volume":"4","author":"J Su","year":"2009","unstructured":"J Su, BJ Yoon, ER Dougherty, Accurate and reliable cancer classification based on probabilistic inference of pathway activity. PLoS One 4(12), e8161 (2009).","journal-title":"PLoS One"},{"issue":"Suppl 6","key":"20_CR9","doi-asserted-by":"publisher","first-page":"S8","DOI":"10.1186\/1471-2105-11-S6-S8","volume":"11","author":"J Su","year":"2010","unstructured":"J Su, BJ Yoon, ER Dougherty, Identification of diagnostic subnetwork markers for cancer in human protein-protein interaction network. BMC Bioinf 11(Suppl 6), S8 (2010).","journal-title":"BMC Bioinf"},{"issue":"5","key":"20_CR10","doi-asserted-by":"publisher","first-page":"e1003047","DOI":"10.1371\/journal.pcbi.1003047","volume":"9","author":"E Bilal","year":"2013","unstructured":"E Bilal, J Dutkowski, J Guinney, IS Jang, BA Logsdon, G Pandey, Sauerwine B A, Y Shimoni, HK Moen Vollan, BH Mecham, OM Rueda, J Tost, C Curtis, MJ Alvarez, VN Kristensen, S Aparicio, AL B\u00f8rresen-Dale, C Caldas, A Califano, SH Friend, T Ideker, EE Schadt, GA Stolovitzky, AA Margolin, Improving breast cancer survival analysis through competition-based multidimensional modeling. PLoS Comput. Biol. 9(5), e1003047 (2013).","journal-title":"PLoS Comput. Biol"},{"issue":"10","key":"20_CR11","doi-asserted-by":"publisher","first-page":"2783","DOI":"10.1016\/j.patcog.2013.02.017","volume":"46","author":"M Shahrokh Esfahani","year":"2013","unstructured":"M Shahrokh Esfahani, J Knight, A Zollanvari, BJ Yoon, ER Dougherty, Classifier design given an uncertainty class of feature distributions via regularized maximum likelihood and the incorporation of biological pathway knowledge in steady-state phenotype classification. Pattern Recognit. 46(10), 2783\u20132797 (2013).","journal-title":"Pattern Recognit"},{"key":"20_CR12","doi-asserted-by":"publisher","first-page":"202","DOI":"10.1109\/TCBB.2013.143","volume":"11","author":"M Shahrokh Esfahani","year":"2014","unstructured":"M Shahrokh Esfahani, Dougherty E R, Incorporation of biological pathway knowledge in the construction of priors for optimal Bayesian classification. IEEE\/ACM Trans. Comput. Biol. Bioinf. 11, 202\u2013218 (2014).","journal-title":"IEEE\/ACM Trans. Comput. Biol. Bioinf"},{"issue":"14","key":"20_CR13","doi-asserted-by":"publisher","first-page":"4781","DOI":"10.1073\/pnas.0305937101","volume":"101","author":"F Li","year":"2004","unstructured":"F Li, T Long, Y Lu, Q Ouyang, C Tang, The yeast cell-cycle network is robustly designed. Proc. Nat. Acad. Sci. USA. 101(14), 4781\u20134786 (2004).","journal-title":"Proc. Nat. Acad. Sci. USA"},{"issue":"7","key":"20_CR14","doi-asserted-by":"publisher","first-page":"e1000442","DOI":"10.1371\/journal.pcbi.1000442","volume":"5","author":"Y Wu","year":"2009","unstructured":"Y Wu, X Zhang, J Yu, Q Ouyang, Identification of a topological characteristic responsible for the biological robustness of regulatory networks. PLoS Comput Biol 5(7), e1000442 (2009).","journal-title":"PLoS Comput Biol"},{"issue":"17","key":"20_CR15","doi-asserted-by":"publisher","first-page":"1917","DOI":"10.1093\/bioinformatics\/btn336","volume":"24","author":"A Garg","year":"2008","unstructured":"A Garg, AD Cara, I Xenarios, L Mendoza, GD Micheli, Synchronous versus asynchronous modeling of gene regulatory networks. Bioinformatics 24(17), 1917\u20131925 (2008).","journal-title":"Bioinformatics"},{"issue":"10","key":"20_CR16","doi-asserted-by":"publisher","first-page":"4966","DOI":"10.1109\/TSP.2008.928089","volume":"56","author":"X Qian","year":"2008","unstructured":"X Qian, ER Dougherty, Effect of function perturbation on the steady-state distribution of genetic regulatory networks: Optimal structural intervention. IEEE Trans. Signal Process 56(10), 4966\u201376 (2008).","journal-title":"IEEE Trans. Signal Process"},{"issue":"1-2","key":"20_CR17","doi-asserted-by":"publisher","first-page":"169","DOI":"10.1023\/A:1023909812213","volume":"52","author":"A Datta","year":"2003","unstructured":"A Datta, A Choudhary, ML Bittner, ER Dougherty, External control in Markovian genetic regulatory networks. Machine Learning. 52(1-2), 169\u2013191 (2003).","journal-title":"Machine Learning"},{"issue":"12","key":"20_CR18","doi-asserted-by":"publisher","first-page":"3542","DOI":"10.1109\/TBME.2013.2272891","volume":"60","author":"MR Yousefi","year":"2013","unstructured":"MR Yousefi, A Datta, ER Dougherty, Optimal intervention in Markovian gene regulatory networks with random-length therapeutic response to antitumor drug. IEEE Trans. Biomed. Eng. 60(12), 3542\u20133552 (2013).","journal-title":"IEEE Trans. Biomed. Eng"},{"key":"20_CR19","unstructured":"C Derman, Finite State Markovian Decision Processes (Academic Press, New York, 1970)."},{"issue":"14","key":"20_CR20","doi-asserted-by":"publisher","first-page":"1758","DOI":"10.1093\/bioinformatics\/btt242","volume":"29","author":"MR Yousefi","year":"2013","unstructured":"MR Yousefi, ER Dougherty, Intervention in gene regulatory networks with maximal phenotype alteration. Bioinformatics 29(14), 1758\u20131767 (2013).","journal-title":"Bioinformatics"},{"key":"20_CR21","unstructured":"LCM Kallenberg, Linear Programming and Finite Markovian Control Problems (Mathematisch Centrum, Amsterdam, 1983)."},{"key":"20_CR22","unstructured":"E Altman, Constrained Markov Decision Processes (Boca Raton, Chapman Hall\/CRC, 1999)."},{"issue":"9","key":"20_CR23","doi-asserted-by":"publisher","first-page":"4871","DOI":"10.1109\/TSP.2010.2050314","volume":"58","author":"I Ivanov","year":"2010","unstructured":"I Ivanov, P Simeonov, N Ghaffari, X Qian, ER Dougherty, Selection policy-induced reduction mappings for Boolean networks. IEEE Trans. Signal Process. 58(9), 4871\u20134882 (2010).","journal-title":"IEEE Trans. Signal Process"},{"issue":"14","key":"20_CR24","doi-asserted-by":"publisher","first-page":"e124","DOI":"10.1093\/bioinformatics\/btl210","volume":"22","author":"A Naldi","year":"2006","unstructured":"Faur\u00e9 A, A Naldi, C Chaouiya, D Thieffry, Dynamical analysis of a generic Boolean model for the control of the mammalian cell cycle. Bioinformatics 22(14), e124\u2013e131 (2006).","journal-title":"Bioinformatics"},{"key":"20_CR25","doi-asserted-by":"publisher","first-page":"27","DOI":"10.1093\/nar\/28.1.27","volume":"28","author":"M Kanehisa","year":"2000","unstructured":"M Kanehisa, S Goto, KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 28, 27\u201330 (2000).","journal-title":"Nucleic Acids Res"}],"container-title":["EURASIP Journal on Bioinformatics and Systems Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/article\/10.1186\/s13637-014-0020-3\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s13637-014-0020-3.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s13637-014-0020-3","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s13637-014-0020-3.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,3,26]],"date-time":"2019-03-26T22:42:19Z","timestamp":1553640139000},"score":1,"resource":{"primary":{"URL":"https:\/\/bsb-eurasipjournals.springeropen.com\/articles\/10.1186\/s13637-014-0020-3"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2015,1,27]]},"references-count":25,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2015,12]]}},"alternative-id":["20"],"URL":"https:\/\/doi.org\/10.1186\/s13637-014-0020-3","relation":{},"ISSN":["1687-4153"],"issn-type":[{"value":"1687-4153","type":"electronic"}],"subject":[],"published":{"date-parts":[[2015,1,27]]},"assertion":[{"value":"21 July 2014","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"25 November 2014","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"27 January 2015","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"1"}}