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Volumn 9, Issue 8, 2014, Pages

In-Silico prediction of key metabolic differences between two non-small cell lung cancer subtypes

Author keywords

[No Author keywords available]

Indexed keywords

ACETOACETIC ACID; ACETONE; GLUTAMIC ACID; GLYCEROL; MANNOSE; METHYLGLYOXAL; PHENYLALANINE; TETRAHYDROFOLIC ACID;

EID: 84905472554     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0103998     Document Type: Article
Times cited : (13)

References (31)
  • 1
    • 78049485263 scopus 로고    scopus 로고
    • Estimates of worldwide burden of cancer in 2008: GLOBOCAN 2008
    • doi:10.1002/ijc.25516
    • Ferlay J, Shin H-R, Bray F, Forman D, Mathers C, et al. (2010) Estimates of worldwide burden of cancer in 2008: GLOBOCAN 2008. Int J cancer 127: 2893-2917. doi:10.1002/ijc.25516.
    • (2010) Int J Cancer , vol.127 , pp. 2893-2917
    • Ferlay, J.1    Shin, H.-R.2    Bray, F.3    Forman, D.4    Mathers, C.5
  • 2
    • 84857784212 scopus 로고    scopus 로고
    • Cancer biomarkers: Selecting the right drug for the right patient
    • doi:10.1038/nrd3651
    • Kelloff GJ, Sigman CC (2012) Cancer biomarkers: selecting the right drug for the right patient. Nat Rev Drug Discov 11: 201-214. doi:10.1038/nrd3651.
    • (2012) Nat Rev Drug Discov , vol.11 , pp. 201-214
    • Kelloff, G.J.1    Sigman, C.C.2
  • 3
    • 80052242132 scopus 로고    scopus 로고
    • Targeting cancer metabolism: A therapeutic window opens
    • doi:10.1038/nrd3504
    • Vander Heiden MG (2011) Targeting cancer metabolism: a therapeutic window opens. Nat Rev Drug Discov 10: 671-684. doi:10.1038/nrd3504.
    • (2011) Nat Rev Drug Discov , vol.10 , pp. 671-684
    • Vander Heiden, M.G.1
  • 4
    • 72049125350 scopus 로고    scopus 로고
    • Cancer-associated IDH1 mutations produce 2-hydroxyglutarate
    • doi:10.1038/nature08617
    • Dang L, White DW, Gross S, Bennett BD, Bittinger MA, et al. (2009) Cancer-associated IDH1 mutations produce 2-hydroxyglutarate. Nature 462: 739-744. doi:10.1038/nature08617.
    • (2009) Nature , vol.462 , pp. 739-744
    • Dang, L.1    White, D.W.2    Gross, S.3    Bennett, B.D.4    Bittinger, M.A.5
  • 6
    • 84877315835 scopus 로고    scopus 로고
    • A community-driven global reconstruction of human metabolism
    • doi:10.1038/nbt.2488
    • Thiele I, Swainston N, Fleming RMT, Hoppe A, Sahoo S, et al. (2013) A community-driven global reconstruction of human metabolism. Nat Biotech 31: 419-425. doi:10.1038/nbt.2488.
    • (2013) Nat Biotech , vol.31 , pp. 419-425
    • Thiele, I.1    Swainston, N.2    Fleming, R.M.T.3    Hoppe, A.4    Sahoo, S.5
  • 7
    • 79959621970 scopus 로고    scopus 로고
    • Predicting selective drug targets in cancer through metabolic networks
    • doi:10.1038/msb.2011.51
    • Folger O, Jerby L, Frezza C, Gottlieb E, Ruppin E, et al. (2011) Predicting selective drug targets in cancer through metabolic networks. Mol Syst Biol 7. doi:10.1038/msb.2011.51.
    • (2011) Mol Syst Biol , vol.7
    • Folger, O.1    Jerby, L.2    Frezza, C.3    Gottlieb, E.4    Ruppin, E.5
  • 8
    • 84863662483 scopus 로고    scopus 로고
    • Reconstruction of Genome-Scale Active Metabolic Networks for 69 Human Cell Types and 16 Cancer Types Using INIT
    • doi:10.1371/journal.pcbi.1002518
    • Agren R, Bordel S, Mardinoglu A, Pornputtapong N, Nookaew I, et al. (2012) Reconstruction of Genome-Scale Active Metabolic Networks for 69 Human Cell Types and 16 Cancer Types Using INIT. PLoS Comput Biol 8: e1002518. doi:10.1371/journal.pcbi.1002518.
    • (2012) PLoS Comput Biol , vol.8
    • Agren, R.1    Bordel, S.2    Mardinoglu, A.3    Pornputtapong, N.4    Nookaew, I.5
  • 9
    • 28444458560 scopus 로고    scopus 로고
    • The geometry of the flux cone of a metabolic network
    • DOI 10.1529/biophysj.104.055129
    • Wagner C, Urbanczik R (2005) The geometry of the flux cone of a metabolic network. Biophys J 89: 3837-3845. doi:10.1529/biophysj.104.055129. (Pubitemid 41725605)
    • (2005) Biophysical Journal , vol.89 , Issue.6 , pp. 3837-3845
    • Wagner, C.1    Urbanczik, R.2
  • 10
    • 0034064689 scopus 로고    scopus 로고
    • A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks
    • DOI 10.1038/73786
    • Schuster S, Fell DA, Dandekar T (2000) A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks. Nat Biotech 18: 326-332. doi:10.1038/73786. (Pubitemid 30159487)
    • (2000) Nature Biotechnology , vol.18 , Issue.3 , pp. 326-332
    • Schuster, S.1    Fell, D.A.2    Dandekar, T.3
  • 11
    • 84880997617 scopus 로고    scopus 로고
    • Selection of human tissue-specific elementary flux modes using gene expression data
    • doi:10.1093/bioinformatics/btt328
    • Rezola A, Pey J, de Figueiredo LF, Podhorski A, Schuster S, et al. (2013) Selection of human tissue-specific elementary flux modes using gene expression data. Bioinformatics 29: 2009-2016. doi:10.1093/bioinformatics/btt328.
    • (2013) Bioinformatics , vol.29 , pp. 2009-2016
    • Rezola, A.1    Pey, J.2    De Figueiredo, L.F.3    Podhorski, A.4    Schuster, S.5
  • 12
    • 78651339534 scopus 로고    scopus 로고
    • NCBI GEO: Archive for functional genomics data sets - 10 Years on
    • doi:10.1093/nar/gkq1184
    • Barrett T, Troup DB, Wilhite SE, Ledoux P, Evangelista C, et al. (2011) NCBI GEO: archive for functional genomics data sets - 10 years on. Nucleic Acids Res 39: D1005-D1010. doi:10.1093/nar/gkq1184.
    • (2011) Nucleic Acids Res , vol.39
    • Barrett, T.1    Troup, D.B.2    Wilhite, S.E.3    Ledoux, P.4    Evangelista, C.5
  • 13
    • 57649093916 scopus 로고    scopus 로고
    • Global gene expression analysis reveals specific patterns of cell junctions in non-small cell lung cancer subtypes
    • doi:10.1016/j.lungcan.2008.03.033
    • Kuner R, Muley T, Meister M, Ruschhaupt M, Buness A, et al. (2009) Global gene expression analysis reveals specific patterns of cell junctions in non-small cell lung cancer subtypes. Lung Cancer-J IASLC 63: 32-38. doi:10.1016/j.lungcan.2008.03.033.
    • (2009) Lung Cancer-J IASLC , vol.63 , pp. 32-38
    • Kuner, R.1    Muley, T.2    Meister, M.3    Ruschhaupt, M.4    Buness, A.5
  • 14
    • 65649135525 scopus 로고    scopus 로고
    • Gene expression profiling identifies MMP-12 and ADAMDEC1 as potential pathogenic mediators of pulmonary sarcoidosis
    • doi:10.1164/rccm.200803-490OC
    • Crouser ED, Culver DA, Knox KS, Julian MW, Shao G, et al. (2009) Gene expression profiling identifies MMP-12 and ADAMDEC1 as potential pathogenic mediators of pulmonary sarcoidosis. Am J Resp Crit Care 179: 929-938. doi:10.1164/rccm.200803-490OC.
    • (2009) Am J Resp Crit Care , vol.179 , pp. 929-938
    • Crouser, E.D.1    Culver, D.A.2    Knox, K.S.3    Julian, M.W.4    Shao, G.5
  • 15
    • 33644872577 scopus 로고    scopus 로고
    • limma: Linear Models for Microarray Data
    • Gentleman R, Carey V, Huber W, Irizarry R, Dudoit S, editors. Springer New York doi:10.1007/0-387-29362-0-23
    • Smyth GK (2005) limma: Linear Models for Microarray Data. In: Gentleman R, Carey V, Huber W, Irizarry R, Dudoit S, editors. Bioinformatics and computational biology solutions using R and Bioconductor. Springer New York. pp. 397-420. doi:10.1007/0-387-29362-0-23.
    • (2005) Bioinformatics and Computational Biology Solutions Using R and Bioconductor , pp. 397-420
    • Smyth, G.K.1
  • 17
    • 78651271261 scopus 로고    scopus 로고
    • The Gene Expression Barcode: Leveraging public data repositories to begin cataloging the human and murine transcriptomes
    • doi:10.1093/nar/gkq1259
    • McCall MN, Uppal K, Jaffee HA, Zilliox MJ, Irizarry RA (2011) The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes. Nucleic Acids Res 39: D1011-5. doi:10.1093/nar/gkq1259.
    • (2011) Nucleic Acids Res , vol.39
    • McCall, M.N.1    Uppal, K.2    Jaffee, H.A.3    Zilliox, M.J.4    Irizarry, R.A.5
  • 18
    • 51349092391 scopus 로고    scopus 로고
    • Network-based prediction of human tissue-specific metabolism
    • doi:10.1038/nbt.1487
    • Shlomi T, Cabili MN, Herrgård MJ, Palsson BØ, Ruppin E (2008) Network-based prediction of human tissue-specific metabolism. Nat Biotech 26: 1003-1010. doi:10.1038/nbt.1487.
    • (2008) Nat Biotech , vol.26 , pp. 1003-1010
    • Shlomi, T.1    Cabili, M.N.2    Herrgård, M.J.3    Palsson, B.Ø.4    Ruppin, E.5
  • 19
    • 33746741644 scopus 로고    scopus 로고
    • Argpyrimidine-modified Heat Shock Protein 27 in human non-small cell lung cancer: A possible mechanism for evasion of apoptosis
    • DOI 10.1016/j.canlet.2005.10.042, PII S0304383505009559
    • Van Heijst JWJ, Niessen HWM, Musters RJ, Hinsbergh VWM van, Hoekman K, et al. (2006) Argpyrimidine-modified Heat Shock Protein 27 in human non-small cell lung cancer: A possible mechanism for evasion of apoptosis. Cancer Lett 241: 309-319. doi:10.1016/j.canlet.2005.10.042. (Pubitemid 44163041)
    • (2006) Cancer Letters , vol.241 , Issue.2 , pp. 309-319
    • Van Heijst, J.W.J.1    Niessen, H.W.M.2    Musters, R.J.3    Hinsbergh, V.W.M.V.4    Hoekman, K.5    Schalkwijk, C.G.6
  • 20
    • 0029786240 scopus 로고    scopus 로고
    • Poly (alpha 2,8-deaminoneuraminic acid) is expressed in lung on a single 150-kDa glycoprotein and is an oncodevelopmental antigen
    • doi:10.1073/pnas.93.17.8995
    • Qu B, Ziak M, Zuber C, Roth J (1996) Poly (alpha 2,8-deaminoneuraminic acid) is expressed in lung on a single 150-kDa glycoprotein and is an oncodevelopmental antigen. P Natl Acad Sci USA 93: 8995-8998. doi:10.1073/pnas.93.17.8995.
    • (1996) P Natl Acad Sci USA , vol.93 , pp. 8995-8998
    • Qu, B.1    Ziak, M.2    Zuber, C.3    Roth, J.4
  • 21
    • 70649113661 scopus 로고    scopus 로고
    • Different histological types of non small cell lung cancer have distinct folate and DNA methylation levels
    • doi:10.1111/j.1349-7006.2009.01321.x
    • Jin M, Kawakami K, Fukui Y, Tsukioka S, Oda M, et al. (2009) Different histological types of non small cell lung cancer have distinct folate and DNA methylation levels. Cancer Sci 100: 2325-2330. doi:10.1111/j.1349-7006.2009. 01321.x.
    • (2009) Cancer Sci , vol.100 , pp. 2325-2330
    • Jin, M.1    Kawakami, K.2    Fukui, Y.3    Tsukioka, S.4    Oda, M.5
  • 23
    • 84860448274 scopus 로고    scopus 로고
    • Investigation of lung cancer biomarkers by hyphenated separation techniques and chemometrics
    • doi:10.1515/cclm.2011.769
    • Buszewski B, Ulanowska A, Kowalkowski T, Cieśliński K (2011) Investigation of lung cancer biomarkers by hyphenated separation techniques and chemometrics. Clin Chem Lab Med 50: 573-581. doi:10.1515/cclm. 2011.769.
    • (2011) Clin Chem Lab Med , vol.50 , pp. 573-581
    • Buszewski, B.1    Ulanowska, A.2    Kowalkowski, T.3    Cieśliński, K.4
  • 24
    • 84870935520 scopus 로고    scopus 로고
    • Metabonomic classification and detection of small molecule biomarkers of malignant pleural effusions
    • doi:10.1007/s00216-012-6432-6
    • Zhou X-M, He C-C, Liu Y-M, Zhao Y, Zhao D, et al. (2012) Metabonomic classification and detection of small molecule biomarkers of malignant pleural effusions. Anal Bioanal Chem 404: 3123-3133. doi:10.1007/s00216-012-6432-6.
    • (2012) Anal Bioanal Chem , vol.404 , pp. 3123-3133
    • Zhou, X.-M.1    He, C.-C.2    Liu, Y.-M.3    Zhao, Y.4    Zhao, D.5
  • 25
    • 84864828304 scopus 로고    scopus 로고
    • Urine Metabolomics Analysis for Biomarker Discovery and Detection of Jaundice Syndrome in Patients With Liver Disease
    • doi:10.1074/mcp.M111.016006
    • Wang X, Zhang A, Han Y, Wang P, Sun H, et al. (2012) Urine Metabolomics Analysis for Biomarker Discovery and Detection of Jaundice Syndrome in Patients With Liver Disease. Mol Cell Proteomics 11: 370-380. doi:10.1074/mcp.M111. 016006.
    • (2012) Mol Cell Proteomics , vol.11 , pp. 370-380
    • Wang, X.1    Zhang, A.2    Han, Y.3    Wang, P.4    Sun, H.5
  • 26
    • 75849164426 scopus 로고    scopus 로고
    • Computing the shortest elementary flux modes in genome-scale metabolic networks
    • doi:10.1093/bioinformatics/btp564
    • De Figueiredo LF, Podhorski A, Rubio A, Kaleta C, Beasley JE, et al. (2009) Computing the shortest elementary flux modes in genome-scale metabolic networks. Bioinformatics 25: 3158-3165. doi:10.1093/bioinformatics/btp564.
    • (2009) Bioinformatics , vol.25 , pp. 3158-3165
    • De Figueiredo, L.F.1    Podhorski, A.2    Rubio, A.3    Kaleta, C.4    Beasley, J.E.5
  • 27
    • 79951528622 scopus 로고    scopus 로고
    • Exploring metabolic pathways in genome-scale networks via generating flux modes
    • doi:10.1093/bioinformatics/btq681
    • Rezola A, de Figueiredo LF, Brock M, Pey J, Podhorski A, et al. (2011) Exploring metabolic pathways in genome-scale networks via generating flux modes. Bioinformatics 27: 534-540. doi:10.1093/bioinformatics/btq681.
    • (2011) Bioinformatics , vol.27 , pp. 534-540
    • Rezola, A.1    De Figueiredo, L.F.2    Brock, M.3    Pey, J.4    Podhorski, A.5
  • 28
    • 70349636598 scopus 로고    scopus 로고
    • Can the whole be less than the sum of its parts? Pathway analysis in genome-scale metabolic networks using elementary flux patterns
    • doi:10.1101/gr.090639.108
    • Kaleta C, de Figueiredo LF, Schuster S (2009) Can the whole be less than the sum of its parts? Pathway analysis in genome-scale metabolic networks using elementary flux patterns. Genome Res 19: 1872-1883. doi:10.1101/gr.090639.108.
    • (2009) Genome Res , vol.19 , pp. 1872-1883
    • Kaleta, C.1    De Figueiredo, L.F.2    Schuster, S.3
  • 29
    • 84979838081 scopus 로고    scopus 로고
    • Advances in network-based metabolic pathway analysis and gene expression data integration
    • doi:10.1093/bib/bbu009
    • Rezola A, Pey J, Tobalina L, Rubio Á, Beasley JE, et al. (2014) Advances in network-based metabolic pathway analysis and gene expression data integration. Brief Bioinform. doi:10.1093/bib/bbu009.
    • (2014) Brief Bioinform
    • Rezola, A.1    Pey, J.2    Tobalina, L.3    Rubio, Á.4    Beasley, J.E.5
  • 30
    • 84858439862 scopus 로고    scopus 로고
    • Insights into the regulation of protein abundance from proteomic and transcriptomic analyses
    • doi:10.1038/nrg3185
    • Vogel C, Marcotte EM (2012) Insights into the regulation of protein abundance from proteomic and transcriptomic analyses. Nat. Rev. Genet, 13: 227-232. doi:10.1038/nrg3185.
    • (2012) Nat. Rev. Genet , vol.13 , pp. 227-232
    • Vogel, C.1    Marcotte, E.M.2
  • 31
    • 77956417789 scopus 로고    scopus 로고
    • Computational reconstruction of tissue-specific metabolic models: Application to human liver metabolism
    • doi: 10.1038/msb.2010.56
    • Jerby L, Shlomi T, Ruppin E (2010) Computational reconstruction of tissue-specific metabolic models: application to human liver metabolism. Mol Syst Biol, 6. doi: 10.1038/msb.2010.56.
    • (2010) Mol Syst Biol , vol.6
    • Jerby, L.1    Shlomi, T.2    Ruppin, E.3


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