메뉴 건너뛰기




Volumn 3, Issue JUN, 2015, Pages

MetabNet: An R package for metabolic association analysis of high-resolution metabolomics data

Author keywords

Choline; Metabolic networks; Metabolic pathways; Metabolite identification; Metabolomics; Targeted MWAS

Indexed keywords


EID: 84983288668     PISSN: None     EISSN: 22964185     Source Type: Journal    
DOI: 10.3389/fbioe.2015.00087     Document Type: Article
Times cited : (43)

References (22)
  • 1
    • 79954462033 scopus 로고    scopus 로고
    • AStream: an R package for annotating LC/MS metabolomic data
    • Alonso, A., Julià, A., Beltran, A., Vinaixa, M., Díaz, M., Ibañez, L., et al. (2011). AStream: an R package for annotating LC/MS metabolomic data. Bioinformatics 27, 1339-1340. doi:10.1093/bioinformatics/btr138.
    • (2011) Bioinformatics , vol.27 , pp. 1339-1340
    • Alonso, A.1    Julià, A.2    Beltran, A.3    Vinaixa, M.4    Díaz, M.5    Ibañez, L.6
  • 2
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: a practical and powerful approach to multiple testing
    • Benjamini, Y., and Hochberg, Y. (1995). Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. Series B Stat. Methodol. 57, 289-300.
    • (1995) J. R. Stat. Soc. Series B Stat. Methodol , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 3
    • 84862497463 scopus 로고    scopus 로고
    • Untargeted plasma metabolite profiling reveals the broad systemic consequences of xanthine oxidoreductase inactivation in mice
    • Chen, Q., Park, H. C., Goligorsky, M. S., Chander, P., Fischer, S. M., and Gross, S. S. (2012). Untargeted plasma metabolite profiling reveals the broad systemic consequences of xanthine oxidoreductase inactivation in mice. PLoS ONE 7:e37149. doi:10.1371/journal.pone.0037149.
    • (2012) PLoS ONE , vol.7
    • Chen, Q.1    Park, H.C.2    Goligorsky, M.S.3    Chander, P.4    Fischer, S.M.5    Gross, S.S.6
  • 4
    • 84925520011 scopus 로고    scopus 로고
    • Metabolome-wide association study of phenylalanine in plasma of common marmosets
    • Go, Y. M., Walker, D. I., Soltow, Q. A., Uppal, K., Wachtman, L. M., Strobel, F. H., et al. (2014). Metabolome-wide association study of phenylalanine in plasma of common marmosets. Amino Acids 47, 589-601. doi:10.1007/s00726-014-1893-x.
    • (2014) Amino Acids , vol.47 , pp. 589-601
    • Go, Y.M.1    Walker, D.I.2    Soltow, Q.A.3    Uppal, K.4    Wachtman, L.M.5    Strobel, F.H.6
  • 5
    • 84880531636 scopus 로고    scopus 로고
    • Toward 'omic scale metabolite profiling: a dual separation-mass spectrometry approach for coverage of lipid and central carbon metabolism
    • Ivanisevic, J., Zhu, Z. J., Plate, L., Tautenhahn, R., Chen, S., O'Brien, P. J., et al. (2013). Toward 'omic scale metabolite profiling: a dual separation-mass spectrometry approach for coverage of lipid and central carbon metabolism. Anal. Chem. 85, 6876-6884. doi:10.1021/ac401140h.
    • (2013) Anal. Chem , vol.85 , pp. 6876-6884
    • Ivanisevic, J.1    Zhu, Z.J.2    Plate, L.3    Tautenhahn, R.4    Chen, S.5    O'Brien, P.J.6
  • 6
    • 77958042220 scopus 로고    scopus 로고
    • A practical approach to detect unique metabolic patterns for personalized medicine
    • Johnson, J. M., Yu, T., Strobel, F. H., and Jones, D. P. (2010). A practical approach to detect unique metabolic patterns for personalized medicine. Analyst 135, 2864-2870. doi:10.1039/c0an00333f.
    • (2010) Analyst , vol.135 , pp. 2864-2870
    • Johnson, J.M.1    Yu, T.2    Strobel, F.H.3    Jones, D.P.4
  • 7
    • 84864223921 scopus 로고    scopus 로고
    • Nutritional metabolomics: progress in addressing complexity in diet and health
    • Jones, D. P., Park, Y., and Ziegler, T. R. (2012). Nutritional metabolomics: progress in addressing complexity in diet and health. Annu. Rev. Nutr. 32, 183-202. doi:10.1146/annurev-nutr-072610-145159.
    • (2012) Annu. Rev. Nutr , vol.32 , pp. 183-202
    • Jones, D.P.1    Park, Y.2    Ziegler, T.R.3
  • 10
    • 84923205184 scopus 로고    scopus 로고
    • Metabolite identification for mass spectrometry-based metabolomics using multiple types of correlated ion information
    • Lynn, K. S., Cheng, M. L., Chen, Y. R., Hsu, C., Chen, A., Lih, T. M., et al. (2015). Metabolite identification for mass spectrometry-based metabolomics using multiple types of correlated ion information. Anal. Chem. 87, 2143-2151. doi:10.1021/ac503325c.
    • (2015) Anal. Chem , vol.87 , pp. 2143-2151
    • Lynn, K.S.1    Cheng, M.L.2    Chen, Y.R.3    Hsu, C.4    Chen, A.5    Lih, T.M.6
  • 11
    • 84891338758 scopus 로고    scopus 로고
    • The nature of nurture: refining the definition of the exposome
    • Miller, G. W., and Jones, D. P. (2013). The nature of nurture: refining the definition of the exposome. Toxicol. Sci. 137, 1-2. doi:10.1093/toxsci/kft251.
    • (2013) Toxicol. Sci , vol.137 , pp. 1-2
    • Miller, G.W.1    Jones, D.P.2
  • 12
    • 34848903220 scopus 로고    scopus 로고
    • From correlation to causation networks: a simple approximate learning algorithm and its application to high-dimensional plant gene expression data
    • Opgen-Rhein, R., and Strimmer, K. (2007). From correlation to causation networks: a simple approximate learning algorithm and its application to high-dimensional plant gene expression data. BMC Syst. Biol. 1:37. doi:10.1186/1752-0509-1-37.
    • (2007) BMC Syst. Biol , vol.1 , pp. 37
    • Opgen-Rhein, R.1    Strimmer, K.2
  • 13
    • 84883153807 scopus 로고    scopus 로고
    • Metabolome-wide association study of neovascular age-related macular degeneration
    • Osborn, M. P., Park, Y., Parks, M. B., Burgess, L. G., Uppal, K., Lee, K., et al. (2013). Metabolome-wide association study of neovascular age-related macular degeneration. PLoS ONE 8:e72737. doi:10.1371/journal.pone.0072737.
    • (2013) PLoS ONE , vol.8
    • Osborn, M.P.1    Park, Y.2    Parks, M.B.3    Burgess, L.G.4    Uppal, K.5    Lee, K.6
  • 14
    • 84881229945 scopus 로고    scopus 로고
    • Characterization of plasma thiol redox potential in a common marmoset model of aging
    • Roede, J. R., Uppal, K., Liang, Y., Promislow, D. E., Wachtman, L. M., and Jones, D. P. (2013). Characterization of plasma thiol redox potential in a common marmoset model of aging. Redox Biol. 1, 387-393. doi:10.1016/j.redox.2013.06.003.
    • (2013) Redox Biol , vol.1 , pp. 387-393
    • Roede, J.R.1    Uppal, K.2    Liang, Y.3    Promislow, D.E.4    Wachtman, L.M.5    Jones, D.P.6
  • 15
    • 15944364151 scopus 로고    scopus 로고
    • An empirical Bayes approach to inferring large-scale gene association networks
    • Schäfer, J., and Strimmer, K. (2005). An empirical Bayes approach to inferring large-scale gene association networks. Bioinformatics 21, 754-764. doi:10.1093/bioinformatics/bti062.
    • (2005) Bioinformatics , vol.21 , pp. 754-764
    • Schäfer, J.1    Strimmer, K.2
  • 16
    • 0242490780 scopus 로고    scopus 로고
    • Cytoscape: a software environment for integrated models of biomolecular interaction networks
    • Shannon, P., Markiel, A., Ozier, O., Baliga, N. S., Wang, J. T., Ramage, D., et al. (2003). Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res. 13, 2498-2504. doi:10.1101/gr.1239303.
    • (2003) Genome Res , vol.13 , pp. 2498-2504
    • Shannon, P.1    Markiel, A.2    Ozier, O.3    Baliga, N.S.4    Wang, J.T.5    Ramage, D.6
  • 17
    • 84874349187 scopus 로고    scopus 로고
    • High-performance metabolic profiling with dual chromatography-Fourier-transform mass spectrometry (DC-FTMS) for study of the exposome
    • Soltow, Q. A., Strobel, F. H., Mansfield, K. G., Wachtman, L., Park, Y., and Jones, D. P. (2013). High-performance metabolic profiling with dual chromatography-Fourier-transform mass spectrometry (DC-FTMS) for study of the exposome. Metabolomics 9, 132-143. doi:10.1007/s11306-011-0332-1.
    • (2013) Metabolomics , vol.9 , pp. 132-143
    • Soltow, Q.A.1    Strobel, F.H.2    Mansfield, K.G.3    Wachtman, L.4    Park, Y.5    Jones, D.P.6
  • 18
    • 84876563088 scopus 로고    scopus 로고
    • Intestinal microbial metabolism of phosphatidylcholine and cardiovascular risk
    • Tang, W. H., Wang, Z., Levison, B. S., Koeth, R. A., Britt, E. B., Fu, X., et al. (2013). Intestinal microbial metabolism of phosphatidylcholine and cardiovascular risk. N. Engl. J. Med. 368, 1575-1584. doi:10.1056/NEJMoa1109400.
    • (2013) N. Engl. J. Med , vol.368 , pp. 1575-1584
    • Tang, W.H.1    Wang, Z.2    Levison, B.S.3    Koeth, R.A.4    Britt, E.B.5    Fu, X.6
  • 19
    • 84872187695 scopus 로고    scopus 로고
    • xMSanalyzer: automated pipeline for improved feature detection and downstream analysis of large-scale, non-targeted metabolomics data
    • Uppal, K., Soltow, Q. A., Strobel, F. H., Pittard, W. S., Gernert, K. M., Yu, T., et al. (2013). xMSanalyzer: automated pipeline for improved feature detection and downstream analysis of large-scale, non-targeted metabolomics data. BMC Bioinformatics 14:15. doi:10.1186/1471-2105-14-15.
    • (2013) BMC Bioinformatics , vol.14 , pp. 15
    • Uppal, K.1    Soltow, Q.A.2    Strobel, F.H.3    Pittard, W.S.4    Gernert, K.M.5    Yu, T.6
  • 20
    • 23844523425 scopus 로고    scopus 로고
    • Complementing the genome with an "exposome": the outstanding challenge of environmental exposure measurement in molecular epidemiology
    • Wild, C. P. (2005). Complementing the genome with an "exposome": the outstanding challenge of environmental exposure measurement in molecular epidemiology. Cancer Epidemiol. Biomarkers Prevent. 14, 1847-1850. doi:10.1158/1055-9965.EPI-05-0456.
    • (2005) Cancer Epidemiol. Biomarkers Prevent , vol.14 , pp. 1847-1850
    • Wild, C.P.1
  • 21
    • 84858668898 scopus 로고    scopus 로고
    • The exposome: from concept to utility
    • Wild, C. P. (2012). The exposome: from concept to utility. Int. J. Epidemiol. 41, 24-32. doi:10.1093/ije/dyr236.
    • (2012) Int. J. Epidemiol , vol.41 , pp. 24-32
    • Wild, C.P.1
  • 22
    • 67650733222 scopus 로고    scopus 로고
    • apLCMS-adaptive processing of high-resolution LC/MS data
    • Yu, T., Park, Y., Johnson, J. M., and Jones, D. P. (2009). apLCMS-adaptive processing of high-resolution LC/MS data. Bioinformatics 25, 1930-1936. doi:10.1093/bioinformatics/btp291.
    • (2009) Bioinformatics , vol.25 , pp. 1930-1936
    • Yu, T.1    Park, Y.2    Johnson, J.M.3    Jones, D.P.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.