| [1] Oliver S G, Winson M K, Kell D B, et al. Systematic functional analysis of the yeast genome. Trends Biotechnol, 1998, 16(9):373-378.
[2] Barabasi A L, Oltvai Z N. Network biology:understanding the cell's functional organization. Nat Rev Genet, 2004, 5(2):101-113.
[3] Lazar A G, Romanciuc F, Socaciu M A, et al. Bioinformatics Tools for Metabolomic Data Processing and Analysis Using Untargeted Liquid Chromatography Coupled With Mass Spectrometry. Bulletin of University of Agricultural Sciences. 2015, 72(2):103-115.
[4] Swerdlow R H. Bioenergetics and metabolism:a bench to bedside perspective. Journal of Neurochemistry. 2016, 139(52):126-135.
[5] Pornputtapong N, Nookaew I, Nielsen J. Human metabolic atlas:an online resource for human metabolism. Database, 2015:1-9.
[6] Patti G J, Yanes O, Siuzdak G. Innovation:Metabolomics:the apogee of the omics trilogy. Nature reviews. Molecular cell biology, 2012, 13(4):263-269.
[7] Ratcliffe R G. Probing plant metabolism with NMR. Annu.Rev.Plant Physiol.Plant Mol.Biol, 2001, 52(52):499-526.
[8] Gadian D G, Radda G K. NMR studies of tissue metabolism. Biochemistry, 1981,50:69-83.
[9] Pan Z, Raftery D. Comparing and combining NMR spectroscopy and mass spectrometry in metabolomics. Analytical and bioanalytical chemistry, 2007, 387(2):525-527.
[10] Krone N, Hughes B A, Lavery G G, et al. Gas chromatography/mass spectrometry (GC/MS) remains a pre-eminent discovery tool in clinical steroid investigations even in the era of fast liquid chromatography tandem mass spectrometry (LC/MS/MS). The Journal of steroid biochemistry and molecular biology, 2010,121(3-5):496-504.
[11] Drexler D M, Reily M D, Shipkova P A. Advances in mass spectrometry applied to pharmaceutical metabolomics. Analytical and bioanalytical chemistry, 2011,399(8):2645-2653.
[12] Stycznski M P, Moxley J F, Tong L V, et al. Systematic identification of conserved metabolites in GC/MS data for metabolomics and biomarker discovery. Analytical Chemistry, 2007,79(3):966-973.
[13] Schauer N, Steinhauser D, Strelkov S, et al. GC-MS libraries for the rapid identification of metabolites in complex biological samples. FEBS Letters, 2005,579(6):1332-1337.
[14] Gika H G, Theodoridis G A, Wingate J E, et al. Within-Day reproducibility of an HPLC-MS-Based method for metabonomic analysis:application to human urine. Journal of Proteome Research, 2007, 6(8):3291-3303.
[15] Coble J B, Fraga C G. Comparative evaluation of preprocessing freeware on chromatography/mass spectrometry data for signature discovery. Journal of Chromatography A. 2014, 1358:155-164.
[16] Katajamaa M, Oresic M. Data processing for mass spectrometry-based metabolomics. Journal of chromatography, 2007,1158(1-2):318-328.
[17] Yao Y, Sun T, Wang T, et al. Analysis of Metabolomics Datasets with High-Performance Computing and Metabolite Atlases. Metabolites, 2015, 5(3), 431-442.
[18] Sugimoto M, Kawakami M, Robert M, et al. Bioinformatics tools for mass spectroscopy-based metabolomic data processing and analysis. Current Bioinformatics, 2012,7(1):96-108.
[19] Smith C A, Want E J, O'Maille G, et al. XCMS:Processing mass spectrometry data for metabolite Profiling using nonlinear peak alignment, matching, and identification. Anal Chem, 2006,78(3):779-787.
[20] Benton H P, Wong D M, Trauger S A, et al. XCMS2:Processing tandem mass spectrometry data for metabolite identification and structural characterization. Anal Chem, 2008, 80(16):6382-6389.
[21] Brakhage A A. Regulation of fungal secondary metabolism. Nat Rev Microbiol, 2013, 11(1):21-32.
[22] Barabasi A L, Gulbahce N, Loscalzo J. Network medicine:a network-based approach to human disease. Nat Rev Genet, 2011,12(1):56-68.
[23] Fernanndez A F, Llorach R, Andres L C, et al. An R package to analyse LC/MS metabolomic data:MAIT (Metabolite Automatic Identification Toolkit). Bioinformatics, 2014, 30(13):1937-1939.
[24] Faust K, Dupont P, Callut J,et al. Pathway discovery in metabolic networks by subgraph extraction. Bioinformatics, 2010,26(9):1211-1218.
[25] Cakir T, Patil K R, Onsan Z, et al. Integration of metabolome data with metabolic networks reveals reporter reactions. Mol Syst Biol, 2006, 2(1):50.
[26] Daran L P, Pronk J T, Heijnen J J, et al. When transcriptome meets metabolome:fast cellular responses of yeast to sudden relief of glucose limitation. Mol Syst Biol, 2006, 2(1):49.
[27] Plongthongkum N, Lutz M, Berggren W T, et al. The metabolome of induced pluripotent stem cells reveals metabolic changes occurring in somatic cell reprogramming. Cell Res, 2012, 22(1):168-177.
[28] Ghesquière B, Wong B W, Kuchnio A. Metabolism of stromal and immune cells in health and disease. Nature, 2014, 511(7508):167-176.
[29] Yizhak K, Chaneton B, Gottlieb B et al. Modeling cancer metabolism on a genome scale. Molecular Systems Biology. 2015, 11(6):817.
[30] Uzunlulu M, Caklili OT, Oguz A. Association between metabolic syndrome and cancer. Annals of Nutrition & Metabolism. 2016, 68(3):173-179.
[31] Ma Z, Shi X, Zhang G, et al. Metabolism and metabolic inhibition of xanthotoxol in human liver microsomes. Evidence-Based Complementary and Alternative Medicine. 2016,2:1-8.
[32] Psychogios N, Hau D D, Peng J, et al. The human Serum metabolome. PloS ONE, 2011, 6(2):e16957.
[33] Shlomi T, Cabili M N, Herrgard M J, et al. Network-based prediction of human tissue-specific metabolism. Nat Biotechnol, 2008,26(9):1003-1010.
[34] Nicholson G, Rantalainen M, Maher A D, et al. Human metabolic profiles are stably controlled by genetic and environmental variation. Mol Syst Biol, 2011, 7(1):525.
[35] Somel M, Liu X, Khaitovich P. Human brain evolution:transcripts, metabolites and their regulators. Nat Rev Neurosci, 2013,14(2):112-127. |
