{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,6,11]],"date-time":"2024-06-11T11:40:23Z","timestamp":1718106023598},"reference-count":48,"publisher":"Springer Science and Business Media LLC","issue":"S13","license":[{"start":{"date-parts":[[2015,12,1]],"date-time":"2015-12-01T00:00:00Z","timestamp":1448928000000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/www.springer.com\/tdm"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2015,12]]},"DOI":"10.1186\/1471-2105-16-s13-s13","type":"journal-article","created":{"date-parts":[[2015,9,26]],"date-time":"2015-09-26T04:03:43Z","timestamp":1443240223000},"update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":2,"title":["A Bayesian approach for inducing sparsity in generalized linear models with multi-category response"],"prefix":"10.1186","volume":"16","author":[{"given":"Behrouz","family":"Madahian","sequence":"first","affiliation":[]},{"given":"Sujoy","family":"Roy","sequence":"additional","affiliation":[]},{"given":"Dale","family":"Bowman","sequence":"additional","affiliation":[]},{"given":"Lih Y","family":"Deng","sequence":"additional","affiliation":[]},{"given":"Ramin","family":"Homayouni","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2015,12,1]]},"reference":[{"issue":"18","key":"7164_CR1","doi-asserted-by":"publisher","first-page":"3423","DOI":"10.1093\/bioinformatics\/bth419","volume":"20","author":"K Bae","year":"2004","unstructured":"Bae K, Mallick BK: Gene selection using a two-Level hierarchical Bayesian model. Bioinformatics. 2004, 20 (18): 3423-3430. 10.1093\/bioinformatics\/bth419.","journal-title":"Bioinformatics"},{"key":"7164_CR2","volume-title":"Statistics: The Exploration and Analysis of Data","author":"J Devore","year":"1997","unstructured":"Devore J, Peck R: Statistics: The Exploration and Analysis of Data. 1997, Duxbury, Pacific Grove CA"},{"issue":"7","key":"7164_CR3","doi-asserted-by":"publisher","first-page":"1227","DOI":"10.1101\/gr.165101","volume":"11","author":"JG Thomas","year":"2001","unstructured":"Thomas JG, Olson JM, Tapscott SJ, Zhao L: An efficient and robust statistical modelling approach to discover differentially expressed genes using genomic expression profiles. Genome Res. 2001, 11 (7): 1227-1236. 10.1101\/gr.165101.","journal-title":"Genome Res"},{"issue":"4","key":"7164_CR4","doi-asserted-by":"publisher","first-page":"546","DOI":"10.1093\/bioinformatics\/18.4.546","volume":"18","author":"W Pan","year":"1996","unstructured":"Pan W: A comparative review of statistical methods for discovering differentially expressed genes in replicated microarray experiments. Bioinformatics. 1996, 18 (4): 546-554.","journal-title":"Bioinformatics"},{"issue":"457","key":"7164_CR5","doi-asserted-by":"publisher","first-page":"77","DOI":"10.1198\/016214502753479248","volume":"97","author":"S Dudoit","year":"2002","unstructured":"Dudoit S, Fridlyand J, Speed TP: Comparison of discrimination methods for the classification of tumors using gene expression data. J Am Stat Assoc. 2002, 97 (457): 77-87. 10.1198\/016214502753479248.","journal-title":"J Am Stat Assoc"},{"issue":"11","key":"7164_CR6","doi-asserted-by":"publisher","first-page":"1454","DOI":"10.1093\/bioinformatics\/18.11.1454","volume":"18","author":"OG Troyanskaya","year":"2002","unstructured":"Troyanskaya OG, Garber ME, Brown PO, Botstein D, Altman RB: Nonparametric methods for identifying differentially expressed genes in microarray data. Bioinformatics. 2002, 18 (11): 1454-1461. 10.1093\/bioinformatics\/18.11.1454.","journal-title":"Bioinformatics"},{"key":"7164_CR7","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/1471-2105-11-58","volume":"11","author":"BA Logsdon","year":"2010","unstructured":"Logsdon BA, Hoffman G, Mezey JG: A variational Bayes algorithm for fast and accurate multiple locus genome-wide association analysis. BMC Bioinformatics. 2010, 11: 1-13. 10.1186\/1471-2105-11-1.","journal-title":"BMC Bioinformatics"},{"issue":"6","key":"7164_CR8","doi-asserted-by":"publisher","first-page":"714","DOI":"10.1093\/bioinformatics\/btp041","volume":"25","author":"TT Wu","year":"2009","unstructured":"Wu TT, Chen YF, Hastie T, Sobel E, Lange K: Genome-wide association analysis by Lasso penalized logistic regression. Bioinformatics. 2009, 25 (6): 714-721. 10.1093\/bioinformatics\/btp041.","journal-title":"Bioinformatics"},{"issue":"7","key":"7164_CR9","doi-asserted-by":"publisher","first-page":"565","DOI":"10.1038\/ng.608","volume":"42","author":"J Yang","year":"2010","unstructured":"Yang J, Benyamin B, McEvoy BP, Gordon S, Henders AK, Nyholt DR, et al: Common SNPs explain a large proportion of the heritability for human height. Nature Genet. 2010, 42 (7): 565-569. 10.1038\/ng.608.","journal-title":"Nature Genet"},{"issue":"4","key":"7164_CR10","doi-asserted-by":"publisher","first-page":"516","DOI":"10.1093\/bioinformatics\/btq688","volume":"27","author":"J Li","year":"2011","unstructured":"Li J, Das K, Fu G, Li R, Wu R: The Bayesian Lasso for genome-wide association studies. Bioinformatics. 2011, 27 (4): 516-523. 10.1093\/bioinformatics\/btq688.","journal-title":"Bioinformatics"},{"issue":"1","key":"7164_CR11","doi-asserted-by":"crossref","first-page":"267","DOI":"10.1111\/j.2517-6161.1996.tb02080.x","volume":"58","author":"R Tibshirani","year":"1996","unstructured":"Tibshirani R: Regression shrinkage and selection via the Lasso. J R Stat Soc Series B. 1996, 58 (1): 267-288.","journal-title":"J R Stat Soc Series B"},{"issue":"476","key":"7164_CR12","doi-asserted-by":"publisher","first-page":"1418","DOI":"10.1198\/016214506000000735","volume":"101","author":"H Zou","year":"2006","unstructured":"Zou H: The adaptive Lasso and its oracle properties. J Am Stat Assoc. 2006, 101 (476): 1418-1429. 10.1198\/016214506000000735.","journal-title":"J Am Stat Assoc"},{"issue":"7","key":"7164_CR13","doi-asserted-by":"publisher","first-page":"565","DOI":"10.1038\/ng.608","volume":"42","author":"J Yang","year":"2010","unstructured":"Yang J, Benyamin B, McEvoy BP, Gordon S, Henders AK, Nyholt DR, et al: Common SNPs explain a large proportion of the heritability for human height. Nature Genet. 2010, 42 (7): 565-569. 10.1038\/ng.608.","journal-title":"Nature Genet"},{"issue":"4","key":"7164_CR14","doi-asserted-by":"publisher","first-page":"181","DOI":"10.1109\/TCBB.2004.45","volume":"1","author":"J Ye","year":"2004","unstructured":"Ye J, Li T, Xiong T, Janardan R: Using uncorrelated discriminant analysis for tissue classification with gene expression data. IEEE\/ACM Trans Comput Biol Bioinform. 2004, 1 (4): 181-190. 10.1109\/TCBB.2004.45.","journal-title":"IEEE\/ACM Trans Comput Biol Bioinform"},{"issue":"18","key":"7164_CR15","first-page":"5325","volume":"62","author":"A Calvo","year":"2002","unstructured":"Calvo A, Xiao N, Kang J, Best CJ, Leiva I, Emmert-Buck MR, et al: Alterations in gene expression profiles during prostate cancer progression: functional correlations to tumorigenicity and down-regulation of Selenoprotein-P in mouse and human tumors. Cancer Res. 2002, 62 (18): 5325-5335.","journal-title":"Cancer Res"},{"key":"7164_CR16","doi-asserted-by":"publisher","first-page":"291","DOI":"10.1186\/1471-2105-8-291","volume":"8","author":"G Dalgin","year":"2007","unstructured":"Dalgin G, Alexe G, Scanfeld D, Tamayo P, Mesirov J, Ganesan S, et al: Portraits of breast cancer progression. BMC Bioinformatics. 2007, 8: 291-10.1186\/1471-2105-8-291.","journal-title":"BMC Bioinformatics"},{"key":"7164_CR17","first-page":"136","volume":"8","author":"Y Pyon","year":"2009","unstructured":"Pyon Y, Li J: Identifying gene signatures from cancer progression data using ordinal analysis. BIBM. 2009, 8: 136-141.","journal-title":"BIBM"},{"issue":"3","key":"7164_CR18","doi-asserted-by":"publisher","first-page":"370","DOI":"10.2307\/2344614","volume":"135","author":"JA Nelder","year":"1972","unstructured":"Nelder JA, Wedderburn RWM: Generalized Linear Models. J R Stat Soc A. 1972, 135 (3): 370-384. 10.2307\/2344614.","journal-title":"J R Stat Soc A"},{"issue":"419","key":"7164_CR19","doi-asserted-by":"publisher","first-page":"861","DOI":"10.1080\/01621459.1992.10475289","volume":"87","author":"C Ritter","year":"1992","unstructured":"Ritter C, Tanner MA: Facilitating the Gibbs sampler: the Gibbs stopper and the griddy-Gibbs sampler. J Am Stat Assoc. 1992, 87 (419): 861-868. 10.1080\/01621459.1992.10475289.","journal-title":"J Am Stat Assoc"},{"key":"7164_CR20","volume-title":"Chapman and Hall\/CRC","author":"H Madsen","year":"2011","unstructured":"Madsen H, Thyregod P: Introduction to General and Generalized Linear Models. Chapman and Hall\/CRC. 2011, London"},{"issue":"5","key":"7164_CR21","doi-asserted-by":"publisher","first-page":"1356","DOI":"10.1214\/aos\/1015957397","volume":"28","author":"K Knight","year":"2000","unstructured":"Knight K, Fu W: Asymptotics for Lasso-type estimators. Ann Stat. 2000, 28 (5): 1356-1378. 10.1214\/aos\/1015957397.","journal-title":"Ann Stat"},{"issue":"482","key":"7164_CR22","doi-asserted-by":"publisher","first-page":"681","DOI":"10.1198\/016214508000000337","volume":"103","author":"T Park","year":"2008","unstructured":"Park T, Casella G: The Bayesian Lasso. J Am Stat Assoc. 2008, 103 (482): 681-686. 10.1198\/016214508000000337.","journal-title":"J Am Stat Assoc"},{"issue":"4","key":"7164_CR23","doi-asserted-by":"publisher","first-page":"835","DOI":"10.1093\/biomet\/asp047","volume":"96","author":"C Hans","year":"2009","unstructured":"Hans C: Bayesian Lasso regression. Biometrika. 2009, 96 (4): 835-845. 10.1093\/biomet\/asp047.","journal-title":"Biometrika"},{"issue":"1","key":"7164_CR24","first-page":"119","volume":"23","author":"A Armagan","year":"2011","unstructured":"Armagan A, Dunson DB, Lee J: Generalized Double Pareto shrinkage. Stat Sin. 2011, 23 (1): 119-143.","journal-title":"Stat Sin"},{"issue":"8","key":"7164_CR25","doi-asserted-by":"publisher","first-page":"611","DOI":"10.4236\/ojs.2014.48057","volume":"4","author":"B Madahian","year":"2014","unstructured":"Madahian B, Faghihi U: A fully Bayesian sparse probit model for text categorization. Open Journal of Statistics. 2014, 4 (8): 611-619. 10.4236\/ojs.2014.48057.","journal-title":"Open Journal of Statistics"},{"key":"7164_CR26","volume-title":"Multivariate Statistical Inference and Applications","author":"AC Rencher","year":"1998","unstructured":"Rencher AC: Multivariate Statistical Inference and Applications. 1998, Wiley & Sons, New York"},{"issue":"7","key":"7164_CR27","doi-asserted-by":"publisher","first-page":"518","DOI":"10.4236\/ojs.2014.47049","volume":"4","author":"B Madahian","year":"2014","unstructured":"Madahian B, Deng L, Homayouni R: Application of sparse Bayesian generalized linear model to gene expression data for classification of prostate cancer subtypes. Open Journal of Statistics. 2014, 4 (7): 518-526. 10.4236\/ojs.2014.47049.","journal-title":"Open Journal of Statistics"},{"issue":"1","key":"7164_CR28","doi-asserted-by":"publisher","first-page":"41","DOI":"10.1038\/ng1935","volume":"39","author":"SA Tomlins","year":"2007","unstructured":"Tomlins SA, Mehra R, Rhodes DR, Cao X, Wang L, Dhanasekaran SM, et al: Integrative molecular concept modeling of prostate cancer progression. Nat Genet. 2007, 39 (1): 41-51. 10.1038\/ng1935.","journal-title":"Nat Genet"},{"issue":"422","key":"7164_CR29","doi-asserted-by":"publisher","first-page":"669","DOI":"10.1080\/01621459.1993.10476321","volume":"88","author":"J Albert","year":"1993","unstructured":"Albert J, Chib S: Bayesian analysis of binary and polychotomous response data. J Am Stat Assoc. 1993, 88 (422): 669-679. 10.1080\/01621459.1993.10476321.","journal-title":"J Am Stat Assoc"},{"key":"7164_CR30","doi-asserted-by":"publisher","DOI":"10.1007\/978-0-387-71265-9","volume-title":"Introduction to Applied Bayesian Statistics and Estimation for Social Scientists","author":"SM Lynch","year":"2007","unstructured":"Lynch SM: Introduction to Applied Bayesian Statistics and Estimation for Social Scientists. 2007, Springer, New York"},{"issue":"3","key":"7164_CR31","doi-asserted-by":"publisher","first-page":"667","DOI":"10.1093\/biomet\/65.3.667","volume":"65","author":"SM Mudholkar","year":"1978","unstructured":"Mudholkar SM, George EO: A remark on the shape of the logistic distribution. Biometrika. 1978, 65 (3): 667-668. 10.1093\/biomet\/65.3.667.","journal-title":"Biometrika"},{"issue":"1","key":"7164_CR32","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1111\/j.2517-6161.1995.tb02031.x","volume":"57","author":"Y Benjamini","year":"1995","unstructured":"Benjamini Y, Hochberg Y: Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc B. 1995, 57 (1): 289-300.","journal-title":"J R Stat Soc B"},{"issue":"9","key":"7164_CR33","doi-asserted-by":"publisher","first-page":"1","DOI":"10.18637\/jss.v011.i09","volume":"11","author":"A Karatzoglou","year":"2004","unstructured":"Karatzoglou A, Smola A, Hornik K, Zeileis A: kernlab an S4 package for kernel methods in R. J Stat Softw. 2004, 11 (9): 1-20.","journal-title":"J Stat Softw"},{"issue":"3","key":"7164_CR34","first-page":"18","volume":"2","author":"A Liaw","year":"2002","unstructured":"Liaw A, Wiener M: Classification and regression by Random Forest. R News. 2002, 2 (3): 18-22.","journal-title":"R News"},{"key":"7164_CR35","volume-title":"Markov Chain Monte Carlo in Practice","author":"W Gilks","year":"1996","unstructured":"Gilks W, Richardson S, Spiegelhalter D: Markov Chain Monte Carlo in Practice. 1996, Chapman and Hall, London"},{"issue":"410","key":"7164_CR36","doi-asserted-by":"publisher","first-page":"881","DOI":"10.1080\/01621459.1990.10476213","volume":"85","author":"AE Gelfand","year":"1990","unstructured":"Gelfand AE, Smith AFM: Sampling-based approaches to calculating marginal densities. J Am Stat Assoc. 1990, 85 (410): 881-889.","journal-title":"J Am Stat Assoc"},{"issue":"4","key":"7164_CR37","doi-asserted-by":"publisher","first-page":"e18851","DOI":"10.1371\/journal.pone.0018851","volume":"6","author":"L Xu","year":"2011","unstructured":"Xu L, Furlotte N, Lin Y, Heinrich K, Berry MW, George EO, Homayouni R: Functional cohesion of gene sets determined by Latent Semantic Indexing of PubMed abstracts. PLoS One. 2011, 6 (4): e18851-10.1371\/journal.pone.0018851.","journal-title":"PLoS One"},{"issue":"1","key":"7164_CR38","doi-asserted-by":"publisher","first-page":"104","DOI":"10.1093\/bioinformatics\/bth464","volume":"21","author":"R Homayouni","year":"2005","unstructured":"Homayouni R, Heinrich K, Wei L, Berry M: Gene clustering by Latent Semantic Indexing of MEDLINE abstracts. Bioinformatics. 2005, 21 (1): 104-115. 10.1093\/bioinformatics\/bth464.","journal-title":"Bioinformatics"},{"key":"7164_CR39","doi-asserted-by":"publisher","first-page":"S19","DOI":"10.1186\/1471-2105-12-S10-S19","volume":"12 Suppl 10","author":"S Roy","year":"2011","unstructured":"Roy S, Heinrich K, Phan V, Berry MW, Homayouni R: Latent Semantic Indexing of PubMed abstracts for identification of transcription factor candidates from microarray derived gene sets. BMC Bioinformatics. 2011, 12 Suppl 10: S19-","journal-title":"BMC Bioinformatics"},{"issue":"4","key":"7164_CR40","doi-asserted-by":"publisher","first-page":"e96063","DOI":"10.1371\/journal.pone.0096063","volume":"9","author":"PW Novianti","year":"2014","unstructured":"Novianti PW, Roes KC, Eijkemans MJ: Evaluation of gene expression classification studies: factors associated with classification performance. PLoS One. 2014, 9 (4): e96063-10.1371\/journal.pone.0096063.","journal-title":"PLoS One"},{"issue":"2","key":"7164_CR41","doi-asserted-by":"publisher","first-page":"147","DOI":"10.1093\/jnci\/djk018","volume":"99","author":"A Dupuy","year":"2007","unstructured":"Dupuy A, Simon RM: Critical review of published microarray studies for cancer outcome and guidelines on statistical analysis and reporting. J Natl Cancer Inst. 2007, 99 (2): 147-157. 10.1093\/jnci\/djk018.","journal-title":"J Natl Cancer Inst"},{"issue":"12","key":"7164_CR42","doi-asserted-by":"publisher","first-page":"951","DOI":"10.1038\/nrd961","volume":"1","author":"A Butte","year":"2002","unstructured":"Butte A: The use and analysis of microarray data. Nat Rev Drug Discov. 2002, 1 (12): 951-960. 10.1038\/nrd961.","journal-title":"Nat Rev Drug Discov"},{"issue":"2","key":"7164_CR43","doi-asserted-by":"publisher","first-page":"73","DOI":"10.2325\/jbcs.12.73","volume":"12","author":"L Puszatri","year":"2005","unstructured":"Puszatri L, Symmans FW, Hortobagyi GN: Development of pharmacogenomic markers to select prospective chemotherapy for breast cancer. Breast Cancer. 2005, 12 (2): 73-85. 10.1007\/BF02966817.","journal-title":"Breast Cancer"},{"issue":"2","key":"7164_CR44","doi-asserted-by":"publisher","first-page":"185","DOI":"10.1142\/S0219720005001004","volume":"3","author":"C Ding","year":"2005","unstructured":"Ding C, Peng H: Minimum redundancy feature selection from microarray gGene expression data. J Bioinform Comput Biol. 2005, 3 (2): 185-205. 10.1142\/S0219720005001004.","journal-title":"J Bioinform Comput Biol"},{"key":"7164_CR45","doi-asserted-by":"publisher","first-page":"S6","DOI":"10.1186\/1471-2164-12-S5-S6","volume":"12 Suppl 5","author":"C Chang","year":"2011","unstructured":"Chang C, Wang J, Zhao C, Fostel J, Tong W, Bushel P, et al: Maximizing biomarker discovery by minimizing gene signatures. BMC Genomics. 2011, 12 Suppl 5: S6-","journal-title":"BMC Genomics"},{"issue":"4","key":"7164_CR46","doi-asserted-by":"publisher","first-page":"243","DOI":"10.1016\/S0306-4379(02)00072-8","volume":"28","author":"Y Lu","year":"2003","unstructured":"Lu Y, Han J: Cancer classification using gene expression data. Information Systems. 2003, 28 (4): 243-268. 10.1016\/S0306-4379(02)00072-8.","journal-title":"Information Systems"},{"issue":"Suppl 13","key":"7164_CR47","doi-asserted-by":"publisher","first-page":"S4","DOI":"10.1186\/1471-2105-15-S13-S4","volume":"15","author":"E Hemphill","year":"2014","unstructured":"Hemphill E, Lindsay J, Lee C, Mandoiu II, Nelson CE: Feature selection and classifier performance on diverse biological datasets. BMC Bioinformatics. 2014, 15 (Suppl 13): S4-10.1186\/1471-2105-15-S13-S4.","journal-title":"BMC Bioinformatics"},{"issue":"43","key":"7164_CR48","doi-asserted-by":"publisher","first-page":"15545","DOI":"10.1073\/pnas.0506580102","volume":"102","author":"A Subramanian","year":"2005","unstructured":"Subramanian A, Tamayo P, Mootha V, Mukherjee S, Ebert B, Gillette M, et al: Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci. 2005, 102 (43): 15545-15550. 10.1073\/pnas.0506580102.","journal-title":"Proc Natl Acad Sci"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-16-S13-S13.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/1471-2105-16-S13-S13\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2105-16-S13-S13.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,6,11]],"date-time":"2024-06-11T11:19:44Z","timestamp":1718104784000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/1471-2105-16-S13-S13"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2015,12]]},"references-count":48,"journal-issue":{"issue":"S13","published-print":{"date-parts":[[2015,12]]}},"alternative-id":["7164"],"URL":"https:\/\/doi.org\/10.1186\/1471-2105-16-s13-s13","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2015,12]]},"assertion":[{"value":"1 December 2015","order":1,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"S13"}}