{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,7,28]],"date-time":"2024-07-28T02:15:10Z","timestamp":1722132910128},"reference-count":18,"publisher":"Springer Science and Business Media LLC","issue":"1","content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Algorithms Mol Biol"],"published-print":{"date-parts":[[2016,12]]},"DOI":"10.1186\/s13015-016-0086-4","type":"journal-article","created":{"date-parts":[[2016,9,15]],"date-time":"2016-09-15T00:22:20Z","timestamp":1473898940000},"update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":1,"title":["Using a constraint-based regression method for relative quantification of somatic mutations in pyrosequencing signals: a case for NRAS analysis"],"prefix":"10.1186","volume":"11","author":[{"given":"Jerome","family":"Ambroise","sequence":"first","affiliation":[]},{"given":"Jamal","family":"Badir","sequence":"additional","affiliation":[]},{"given":"Louise","family":"Nienhaus","sequence":"additional","affiliation":[]},{"given":"Annie","family":"Robert","sequence":"additional","affiliation":[]},{"given":"Anne-France","family":"Dekairelle","sequence":"additional","affiliation":[]},{"given":"Jean-Luc","family":"Gala","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2016,9,15]]},"reference":[{"issue":"1","key":"86_CR1","doi-asserted-by":"crossref","first-page":"3","DOI":"10.1101\/gr.11.1.3","volume":"11","author":"M Ronaghi","year":"2001","unstructured":"Ronaghi M. Pyrosequencing sheds light on dna sequencing. Genome Res. 2001;11(1):3\u201311.","journal-title":"Genome Res"},{"key":"86_CR2","doi-asserted-by":"crossref","first-page":"56","DOI":"10.1186\/1746-1596-7-56","volume":"7","author":"S Shen","year":"2012","unstructured":"Shen S, Qin D. Pyrosequencing data analysis software: a useful tool for egfr, kras, and braf mutation analysis. Diagn Pathol. 2012;7:56.","journal-title":"Diagn Pathol"},{"issue":"3","key":"86_CR3","doi-asserted-by":"crossref","first-page":"59221","DOI":"10.1371\/journal.pone.0059221","volume":"8","author":"A Skorokhod","year":"2013","unstructured":"Skorokhod A, Helmbold P, Brors B, Schirmacher P, Enk A, Penzel R. Automated universal braf state detection within the activation segment in skin metastases by pyrosequencing-based assay u-brafv600. PloS One. 2013;8(3):59221.","journal-title":"PloS One"},{"issue":"2","key":"86_CR4","doi-asserted-by":"crossref","first-page":"166","DOI":"10.1016\/j.ab.2009.05.027","volume":"391","author":"S Dufort","year":"2009","unstructured":"Dufort S, Richard M-J, de Fraipont F. Pyrosequencing method to detect kras mutation in formalin-fixed and paraffin-embedded tumor tissues. Anal Biochem. 2009;391(2):166\u20138.","journal-title":"Anal Biochem"},{"issue":"1","key":"86_CR5","doi-asserted-by":"crossref","first-page":"13","DOI":"10.1186\/1471-2407-14-13","volume":"14","author":"MA Ihle","year":"2014","unstructured":"Ihle MA, Fassunke J, K\u00f6nig K, Gr\u00fcnewald I, Schlaak M, Kreuzberg N, Tietze L, Schildhaus H-U, B\u00fcttner R, Merkelbach-Bruse S. Comparison of high resolution melting analysis, pyrosequencing, next generation sequencing and immunohistochemistry to conventional sanger sequencing for the detection of p. v600e and non-p. v600e braf mutations. BMC Cancer. 2014;14(1):13.","journal-title":"BMC Cancer"},{"key":"86_CR6","doi-asserted-by":"crossref","first-page":"220","DOI":"10.1016\/j.neuroimage.2014.01.021","volume":"102","author":"H Cao","year":"2014","unstructured":"Cao H, Duan J, Lin D, Shugart YY, Calhoun V, Wang Y-P. Sparse representation based biomarker selection for schizophrenia with integrated analysis of fmri and snps. Neuroimage. 2014;102:220\u20138.","journal-title":"Neuroimage"},{"key":"86_CR7","doi-asserted-by":"publisher","first-page":"403689","DOI":"10.1155\/2009\/403689","volume":"2009","author":"X Hang","year":"2009","unstructured":"Hang X, Wu FX. Sparse representation for classification of tumors using gene expression data. J Biomed Res. 2009;2009:403689. doi: 10.1155\/2009\/403689 .","journal-title":"J Biomed Res"},{"issue":"2","key":"86_CR8","first-page":"1","volume":"2013","author":"W Tang","year":"2013","unstructured":"Tang W, Duan J, Zhang J-G, Wang Y-P. Subtyping glioblastoma by combining mirna and mrna expression data using compressed sensing-based approach. EURASIP J Bioinform Syst Biol. 2013;2013(2):1\u20139.","journal-title":"EURASIP J Bioinform Syst Biol"},{"issue":"16","key":"86_CR9","doi-asserted-by":"crossref","first-page":"1963","DOI":"10.1093\/bioinformatics\/btt339","volume":"29","author":"J Ambroise","year":"2013","unstructured":"Ambroise J, Piette A-S, Delcorps C, Rigouts L, de Jong BC, Irenge L, Robert A, Gala J-L. Adviser-pyro: amplicon identification using sparse representation of pyrosequencing signal. Bioinformatics. 2013;29(16):1963\u20139.","journal-title":"Bioinformatics"},{"issue":"24","key":"86_CR10","doi-asserted-by":"crossref","first-page":"3590","DOI":"10.1093\/bioinformatics\/btu516","volume":"30","author":"J Ambroise","year":"2014","unstructured":"Ambroise J, Deccache Y, Irenge L, Savov E, Robert A, Gala J-L. Amplicon identification using sparse representation of multiplex pyrosequencing signal (adviser-m-pyro): application to bacterial resistance genotyping. Bioinformatics. 2014;30(24):3590\u20137.","journal-title":"Bioinformatics"},{"key":"86_CR11","doi-asserted-by":"crossref","first-page":"42","DOI":"10.1186\/s12881-015-0186-x","volume":"16","author":"J Ambroise","year":"2015","unstructured":"Ambroise J, Butoescu V, Robert A, Tombal B, Gala JL. Multiplex pyrosequencing assay using adviser-mh-pyro algorithm : a case for rapid and cost-effective genotyping analysis of prostate cancer risk-associated snps. BMC Med Genet. 2015;16:42.","journal-title":"BMC Med Genet"},{"issue":"16","key":"86_CR12","doi-asserted-by":"crossref","first-page":"4014","DOI":"10.1002\/cncr.26724","volume":"118","author":"JA Jakob","year":"2012","unstructured":"Jakob JA, Bassett RL, Ng CS, Curry JL, Joseph RW, Alvarado GC, Rohlfs ML, Richard J, Gershenwald JE, Kim KB. NRAS mutation status is an independent prognostic factor in metastatic melanoma. Cancer. 2012;118(16):4014\u201323.","journal-title":"Cancer"},{"issue":"1","key":"86_CR13","doi-asserted-by":"crossref","first-page":"83","DOI":"10.1002\/ijc.28955","volume":"136","author":"M Schirripa","year":"2015","unstructured":"Schirripa M, Cremolini C, Loupakis F, Morvillo M, Bergamo F, Zoratto F, Salvatore L, Antoniotti C, Marmorino F, Sensi E. Role of nras mutations as prognostic and predictive markers in metastatic colorectal cancer. Int J Cancer. 2015;136(1):83\u201390.","journal-title":"Int J Cancer"},{"issue":"Suppl 1","key":"86_CR14","first-page":"49","volume":"29","author":"DA Armbruster","year":"2008","unstructured":"Armbruster DA, Pry T. Limit of blank, limit of detection and limit of quantitation. Clin Biochem Rev. 2008;29(Suppl 1):49.","journal-title":"Clin Biochem Rev"},{"key":"86_CR15","doi-asserted-by":"crossref","unstructured":"Tibshirani R. Regression shrinkage and selection via the lasso. J R Stat Soc Series B (Methodological), 1996, 267\u201388","DOI":"10.1111\/j.2517-6161.1996.tb02080.x"},{"key":"86_CR16","doi-asserted-by":"crossref","unstructured":"Tibshirani RJ. Lasso and sparsity in statistics. Statistics in action: a Canadian Outlook. 2014, 79","DOI":"10.1201\/b16597-6"},{"key":"86_CR17","unstructured":"Goeman J, Meijer R, Chaturvedi N. Penalized: L1 (lasso and fused lasso) and l2 (ridge) penalized estimation in glms and in the cox model. 2012.\u00a0 http:\/\/cran.r-project.org\/web\/packages\/penalized\/index.html . Accessed 22 Aug 2016."},{"issue":"1","key":"86_CR18","doi-asserted-by":"crossref","first-page":"70","DOI":"10.1002\/bimj.200900028","volume":"52","author":"JJ Goeman","year":"2010","unstructured":"Goeman JJ. L1 penalized estimation in the cox proportional hazards model. Biom J. 2010;52(1):70\u201384.","journal-title":"Biom J"}],"container-title":["Algorithms for Molecular Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s13015-016-0086-4.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,6,19]],"date-time":"2024-06-19T10:51:07Z","timestamp":1718794267000},"score":1,"resource":{"primary":{"URL":"http:\/\/almob.biomedcentral.com\/articles\/10.1186\/s13015-016-0086-4"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2016,9,15]]},"references-count":18,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2016,12]]}},"alternative-id":["86"],"URL":"https:\/\/doi.org\/10.1186\/s13015-016-0086-4","relation":{},"ISSN":["1748-7188"],"issn-type":[{"value":"1748-7188","type":"electronic"}],"subject":[],"published":{"date-parts":[[2016,9,15]]},"article-number":"24"}}