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Volumn 18, Issue 1, 2017, Pages

Metabolomics variable selection and classification in the presence of observations below the detection limit using an extension of ERp

Author keywords

Classification; Detection limit; Metabolomics; Probability mass at zero; Variable selection

Indexed keywords

DISTRIBUTION FUNCTIONS; METABOLITES; PROBABILITY; STATISTICAL TESTS;

EID: 85011332663     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/s12859-017-1480-8     Document Type: Article
Times cited : (6)

References (24)
  • 2
    • 84878458408 scopus 로고    scopus 로고
    • The prevention and handling of the missing data
    • Kang H. The prevention and handling of the missing data. Korean J Anesthesiol. 2013;64(5):402-6.
    • (2013) Korean J Anesthesiol , vol.64 , Issue.5 , pp. 402-406
    • Kang, H.1
  • 4
    • 79958273162 scopus 로고    scopus 로고
    • A software complement to AMDIS for processing GC-MS metabolomic data
    • Behrends V, Tredwell GD, Bundy JG. A software complement to AMDIS for processing GC-MS metabolomic data. Anal Biochem. 2011;415:206-8.
    • (2011) Anal Biochem , vol.415 , pp. 206-208
    • Behrends, V.1    Tredwell, G.D.2    Bundy, J.G.3
  • 5
    • 41149106961 scopus 로고    scopus 로고
    • Comparative evaluation of software for deconvolution of metabolomics data based on GC-TOF-MS
    • Lu H, Dunn WB, Shen H, Kell DB, Liang Y. Comparative evaluation of software for deconvolution of metabolomics data based on GC-TOF-MS. Trends Anal Chem. 2008;27(3):215-27.
    • (2008) Trends Anal Chem , vol.27 , Issue.3 , pp. 215-227
    • Lu, H.1    Dunn, W.B.2    Shen, H.3    Kell, D.B.4    Liang, Y.5
  • 6
    • 27144506971 scopus 로고    scopus 로고
    • Fusion of mass spectrometry-based metabolomics data
    • Smilde AK, Van der Werf MJ, Bijlsma S, Van der Werff-van der Vat BJC, Jellema RH. Fusion of mass spectrometry-based metabolomics data. Anal Chem. 2005;77(20):6729-36.
    • (2005) Anal Chem , vol.77 , Issue.20 , pp. 6729-6736
    • Smilde, A.K.1    Werf, M.J.2    Bijlsma, S.3    Vat, B.J.C.4    Jellema, R.H.5
  • 7
    • 70349248346 scopus 로고    scopus 로고
    • Chop-lump tests for vaccine trials
    • Follmann D, Fay MP, Proschan M. Chop-lump tests for vaccine trials. Biometrics. 2009;65:885-93.
    • (2009) Biometrics , vol.65 , pp. 885-893
    • Follmann, D.1    Fay, M.P.2    Proschan, M.3
  • 8
    • 74749083211 scopus 로고    scopus 로고
    • A modified Wilcoxon test for non-negative distributions with a clump of zeros
    • Hallstrom AP. A modified Wilcoxon test for non-negative distributions with a clump of zeros. Stat Med. 2010;29:39-40.
    • (2010) Stat Med , vol.29 , pp. 39-40
    • Hallstrom, A.P.1
  • 9
    • 84928745729 scopus 로고    scopus 로고
    • Kernel approaches for differential expression analysis of mass spectrometry-based metabolomics data
    • Zhan X, Patterson AD, Ghosh D. Kernel approaches for differential expression analysis of mass spectrometry-based metabolomics data. BMC Bioinformatics. 2015;16:77.
    • (2015) BMC Bioinformatics , vol.16 , pp. 77
    • Zhan, X.1    Patterson, A.D.2    Ghosh, D.3
  • 10
    • 62449131424 scopus 로고    scopus 로고
    • Hypothesis Tests for Point-Mass Mixture Data with Application to Omics Data with Many Zero Values
    • Taylor S, Pollard K. Hypothesis Tests for Point-Mass Mixture Data with Application to Omics Data with Many Zero Values. Stat Appl Genet Mol Biol. 2009;8(1):1-43.
    • (2009) Stat Appl Genet Mol Biol , vol.8 , Issue.1 , pp. 1-43
    • Taylor, S.1    Pollard, K.2
  • 11
    • 63149172314 scopus 로고    scopus 로고
    • Nonparametric methods for measurements below detection limit
    • Zhang D, Fan C, Zhang J, Zhang C. Nonparametric methods for measurements below detection limit. Stat Med. 2009;28:700-15.
    • (2009) Stat Med , vol.28 , pp. 700-715
    • Zhang, D.1    Fan, C.2    Zhang, J.3    Zhang, C.4
  • 12
    • 84941650273 scopus 로고    scopus 로고
    • Two-group comparisons of zero-inflated intensity values: the choice of test statistic matters
    • Gleiss A, Dakna M, Mischak H, Heinze G. Two-group comparisons of zero-inflated intensity values: the choice of test statistic matters. Bioinformatics. 2015;31(14):2310-17.
    • (2015) Bioinformatics , vol.31 , Issue.14 , pp. 2310-2317
    • Gleiss, A.1    Dakna, M.2    Mischak, H.3    Heinze, G.4
  • 14
    • 84954357876 scopus 로고    scopus 로고
    • Variable selection for binary classification using error rate p-values applied to metabolomics data
    • Van Reenen M, Reinecke CJ, Westerhuis JA, Venter JH. Variable selection for binary classification using error rate p-values applied to metabolomics data. BMC Bioinformatics. 2016;17:33.
    • (2016) BMC Bioinformatics , vol.17 , pp. 33
    • Reenen, M.1    Reinecke, C.J.2    Westerhuis, J.A.3    Venter, J.H.4
  • 16
    • 38849189982 scopus 로고    scopus 로고
    • Youden index and the optimal threshold for markers with mass at zero
    • Schisterman EF, Faraggi D, Reiser B, Hu J. Youden index and the optimal threshold for markers with mass at zero. Stat Med. 2008;27(2):297-315.
    • (2008) Stat Med , vol.27 , Issue.2 , pp. 297-315
    • Schisterman, E.F.1    Faraggi, D.2    Reiser, B.3    Hu, J.4
  • 17
    • 49849105414 scopus 로고    scopus 로고
    • Youden index and optimal cut-point estimated from observations affected by a lower limit of detection
    • Ruopp MD, Perkins NJ, Whitcomb BW, Schisterman EF. Youden index and optimal cut-point estimated from observations affected by a lower limit of detection. Biom J. 2008;50(3):419-30.
    • (2008) Biom J , vol.50 , Issue.3 , pp. 419-430
    • Ruopp, M.D.1    Perkins, N.J.2    Whitcomb, B.W.3    Schisterman, E.F.4
  • 19
    • 84976358808 scopus 로고    scopus 로고
    • A putative urinary biosignature for diagnosis and follow-up of tuberculous meningitis in children: outcome of a metabolomics study disclosing host-pathogen responses
    • Mason S, van Furth AM T, Solomons R, Wevers RA, Van Reenen M, Reinecke CJ. A putative urinary biosignature for diagnosis and follow-up of tuberculous meningitis in children: outcome of a metabolomics study disclosing host-pathogen responses. Metabolomics. 2016;12:110.
    • (2016) Metabolomics , vol.12 , pp. 110
    • Mason, S.1    Furth AM, T.2    Solomons, R.3    Wevers, R.A.4    Reenen, M.5    Reinecke, C.J.6
  • 20
    • 33745235266 scopus 로고    scopus 로고
    • Role of the methylcitrate cycle in Mycobacterium tuberculosis metabolism, intracellular growth, and virulence
    • Muñoz-Elías EJ, Upton AM, Cherian J, McKinney JD. Role of the methylcitrate cycle in Mycobacterium tuberculosis metabolism, intracellular growth, and virulence. Mol Microbiol. 2006;60(5):1109-22.
    • (2006) Mol Microbiol , vol.60 , Issue.5 , pp. 1109-1122
    • Muñoz-Elías, E.J.1    Upton, A.M.2    Cherian, J.3    McKinney, J.D.4
  • 21
    • 44349163542 scopus 로고    scopus 로고
    • Functional characterization of a vitamin B12-dependent methylmalonyl pathway in mycobacterium tuberculosis: implications for propionate metabolism during growth on fatty acids
    • Savvi S, Warner DF, Kana BD, McKinney JD, Mizrahi V, Dawes SS. Functional characterization of a vitamin B12-dependent methylmalonyl pathway in mycobacterium tuberculosis: implications for propionate metabolism during growth on fatty acids. J Bacteriol. 2008;190(1):3886-95.
    • (2008) J Bacteriol , vol.190 , Issue.1 , pp. 3886-3895
    • Savvi, S.1    Warner, D.F.2    Kana, B.D.3    McKinney, J.D.4    Mizrahi, V.5    Dawes, S.S.6
  • 22
    • 84861395618 scopus 로고    scopus 로고
    • M. tuberculosis induces potent activation of IDO-1, but this is not essential for the immunological control of infection
    • Blumenthal A, Nagalingam G, Huch JH, Walker L, Guillemin GJ, Smythe GA. M. tuberculosis induces potent activation of IDO-1, but this is not essential for the immunological control of infection. PLoS One. 2012;7:e37314.
    • (2012) PLoS One , vol.7
    • Blumenthal, A.1    Nagalingam, G.2    Huch, J.H.3    Walker, L.4    Guillemin, G.J.5    Smythe, G.A.6
  • 23
    • 84908150714 scopus 로고    scopus 로고
    • Role of Gut-Brain Axis in the Aetiology of Neurodevelopmental Disorders with Reference to Autism
    • El-Ansary A, Shake GH, Rizk MZ. Role of Gut-Brain Axis in the Aetiology of Neurodevelopmental Disorders with Reference to Autism. J Clin Toxicol S6:005. doi: 10.4172/2161-0495.S6-005
    • J Clin Toxicol S6:005
    • El-Ansary, A.1    Shake, G.H.2    Rizk, M.Z.3
  • 24
    • 84961132383 scopus 로고    scopus 로고
    • A metabonomic investigation on the biochemical perturbation in post-stroke patients with depressive disorder (PSD)
    • Ding X, Liu R, Li W, Ni H, Liu Y, Wu D, Yang S, Liu J, Xiao B, Liu S. A metabonomic investigation on the biochemical perturbation in post-stroke patients with depressive disorder (PSD). Metab Brain Dis. 2016;31(2):279-87.
    • (2016) Metab Brain Dis , vol.31 , Issue.2 , pp. 279-287
    • Ding, X.1    Liu, R.2    Li, W.3    Ni, H.4    Liu, Y.5    Wu, D.6    Yang, S.7    Liu, J.8    Xiao, B.9    Liu, S.10


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.