메뉴 건너뛰기




Volumn 8, Issue , 2012, Pages

Extensive quantitative remodeling of the proteome between normal colon tissue and adenocarcinoma

Author keywords

colon cancer; FASP; FFPE tissue; microdissection; quantitative proteomics

Indexed keywords

PROTEOME; PARAFFIN; TRANSCRIPTOME; TUMOR PROTEIN;

EID: 84872685287     PISSN: None     EISSN: 17444292     Source Type: Journal    
DOI: 10.1038/msb.2012.44     Document Type: Article
Times cited : (207)

References (63)
  • 3
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: A practical and powerful aproach to multiple testing
    • Benjamini Y, Hochberg Y (1995) Controlling the false discovery rate: A practical and powerful aproach to multiple testing. J R Stat Soc 57: 289-300
    • (1995) J R Stat Soc , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 6
    • 79954625575 scopus 로고    scopus 로고
    • Analysis of proteomic changes induced upon cellular differentiation of the human intestinal cell line Caco-2
    • Buhrke T, Lengler I, Lampen A (2011) Analysis of proteomic changes induced upon cellular differentiation of the human intestinal cell line Caco-2. Dev Growth Differ 53: 411-426
    • (2011) Dev Growth Differ , vol.53 , pp. 411-426
    • Buhrke, T.1    Lengler, I.2    Lampen, A.3
  • 7
    • 0019590617 scopus 로고
    • Morphometric analysis of the membranes and organelles of small intestinal enterocytes. I. Fasted Hamster
    • Buschmann RJ, Manke DJ (1981) Morphometric analysis of the membranes and organelles of small intestinal enterocytes. I. Fasted Hamster. J Ultrastruct Res 76: 1-14
    • (1981) J Ultrastruct Res , vol.76 , pp. 1-14
    • Buschmann, R.J.1    Manke, D.J.2
  • 9
    • 57349106602 scopus 로고    scopus 로고
    • Identification of new accessible tumor antigens in human colon cancer by ex vivo protein biotinylation and comparative mass spectrometry analysis
    • Conrotto P, Roesli C, Rybak J, Kischel P, Waltregny D, Neri D, Castronovo V (2008) Identification of new accessible tumor antigens in human colon cancer by ex vivo protein biotinylation and comparative mass spectrometry analysis. Int J Cancer 123: 2856-2864
    • (2008) Int J Cancer , vol.123 , pp. 2856-2864
    • Conrotto, P.1    Roesli, C.2    Rybak, J.3    Kischel, P.4    Waltregny, D.5    Neri, D.6    Castronovo, V.7
  • 10
    • 57449099865 scopus 로고    scopus 로고
    • MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification
    • Cox J, Mann M (2008) MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat Biotechnol 26: 1367-1372
    • (2008) Nat Biotechnol , vol.26 , pp. 1367-1372
    • Cox, J.1    Mann, M.2
  • 14
    • 0035478585 scopus 로고    scopus 로고
    • Macromolecular crowding: Obvious but underappreciated
    • DOI 10.1016/S0968-0004(01)01938-7, PII S0968000401019387
    • Ellis RJ (2001) Macromolecular crowding: obvious but underappreciated. Trends Biochem Sci 26: 597-604 (Pubitemid 32925190)
    • (2001) Trends in Biochemical Sciences , vol.26 , Issue.10 , pp. 597-604
    • Ellis R.John1
  • 15
    • 79751489596 scopus 로고    scopus 로고
    • Molecular genetics of colorectal cancer
    • Fearon ER (2011) Molecular genetics of colorectal cancer. Annu Rev Pathol 6: 479-507
    • (2011) Annu Rev Pathol , vol.6 , pp. 479-507
    • Fearon, E.R.1
  • 17
    • 33645984859 scopus 로고    scopus 로고
    • Role of FXYD proteins in ion transport
    • Garty H, Karlish SJ (2006) Role of FXYD proteins in ion transport. Annu Rev Physiol 68: 431-459
    • (2006) Annu Rev Physiol , vol.68 , pp. 431-459
    • Garty, H.1    Karlish, S.J.2
  • 20
    • 41649100689 scopus 로고    scopus 로고
    • Mining the plasma proteome for cancer biomarkers
    • DOI 10.1038/nature06916, PII NATURE06916
    • Hanash SM, Pitteri SJ, Faca VM (2008) Mining the plasma proteome for cancer biomarkers. Nature 452: 571-579 (Pubitemid 351483371)
    • (2008) Nature , vol.452 , Issue.7187 , pp. 571-579
    • Hanash, S.M.1    Pitteri, S.J.2    Faca, V.M.3
  • 22
    • 7244245762 scopus 로고    scopus 로고
    • Finishing the euchromatic sequence of the human genome
    • International Human Genome Sequencing Consortium
    • International Human Genome Sequencing Consortium (2004) Finishing the euchromatic sequence of the human genome. Nature 431: 931-945
    • (2004) Nature , vol.431 , pp. 931-945
  • 23
    • 77956403452 scopus 로고    scopus 로고
    • Proteomics of colorectal cancer: Overview of discovery studies and identification of commonly identified cancer-associated proteins and candidate CRC serum markers
    • Jimenez CR, Knol JC, Meijer GA, Fijneman RJ (2010) Proteomics of colorectal cancer: overview of discovery studies and identification of commonly identified cancer-associated proteins and candidate CRC serum markers. J Proteomics 73: 1873-1895
    • (2010) J Proteomics , vol.73 , pp. 1873-1895
    • Jimenez, C.R.1    Knol, J.C.2    Meijer, G.A.3    Fijneman, R.J.4
  • 25
    • 0032808150 scopus 로고    scopus 로고
    • Quantitation of RNA polymerase II and its transcription factors in an HeLa cell: Little soluble holoenzyme but significant amounts of polymerases attached to the nuclear substructure
    • Kimura H, Tao Y, Roeder RG, Cook PR (1999) Quantitation of RNA polymerase II and its transcription factors in an HeLa cell: little soluble holoenzyme but significant amounts of polymerases attached to the nuclear substructure. Mol Cell Biol 19: 5383-5392 (Pubitemid 29339897)
    • (1999) Molecular and Cellular Biology , vol.19 , Issue.8 , pp. 5383-5392
    • Kimura, H.1    Tao, Y.2    Roeder, R.G.3    Cook, P.R.4
  • 28
    • 77950342159 scopus 로고    scopus 로고
    • Comparing the scoring mechanisms of p16INK4a immunohistochemistry based on independent nucleic stains and independent cytoplasmic stains in distinguishing between endocervical and endometrial adenocarcinomas in a tissue microarray study
    • Kok LF, Lee MY, Tyan YS, Wu TS, Cheng YW, Kung MF, Wang PH, Han CP (2010) Comparing the scoring mechanisms of p16INK4a immunohistochemistry based on independent nucleic stains and independent cytoplasmic stains in distinguishing between endocervical and endometrial adenocarcinomas in a tissue microarray study. Arch Gynecol Obstet 281: 293-300
    • (2010) Arch Gynecol Obstet , vol.281 , pp. 293-300
    • Kok, L.F.1    Lee, M.Y.2    Tyan, Y.S.3    Wu, T.S.4    Cheng, Y.W.5    Kung, M.F.6    Wang, P.H.7    Han, C.P.8
  • 38
    • 78049428079 scopus 로고    scopus 로고
    • An 'Omics' based survey of human colon cancer
    • Nambiar PR, Gupta RR, Misra V (2010) An 'Omics' based survey of human colon cancer. Mutat Res 693: 3-18
    • (2010) Mutat Res , vol.693 , pp. 3-18
    • Nambiar, P.R.1    Gupta, R.R.2    Misra, V.3
  • 39
    • 64049091474 scopus 로고    scopus 로고
    • Gene expression profiling in colorectal cancer using microarray technologies: Results and perspectives
    • Nannini M, Pantaleo MA, Maleddu A, Astolfi A, Formica S, Biasco G (2009) Gene expression profiling in colorectal cancer using microarray technologies: results and perspectives. Cancer Treat Rev 35: 201-209
    • (2009) Cancer Treat Rev , vol.35 , pp. 201-209
    • Nannini, M.1    Ma, P.2    Maleddu, A.3    Astolfi, A.4    Formica, S.5    Biasco, G.6
  • 40
    • 0035300437 scopus 로고    scopus 로고
    • Transcriptional gene expression profiles of colorectal adenoma, adenocarcinoma, and normal tissue examined by oligonucleotide arrays
    • Notterman DA, Alon U, Sierk AJ, Levine AJ (2001) Transcriptional gene expression profiles of colorectal adenoma, adenocarcinoma, and normal tissue examined by oligonucleotide arrays. Cancer Res 61: 3124-3130 (Pubitemid 32691964)
    • (2001) Cancer Research , vol.61 , Issue.7 , pp. 3124-3130
    • Notterman, D.A.1    Alon, U.2    Sierk, A.J.3    Levine, A.J.4
  • 41
    • 34548336772 scopus 로고    scopus 로고
    • Higher-energy C-trap dissociation for peptide modification analysis
    • DOI 10.1038/nmeth1060, PII NMETH1060
    • Olsen JV, Macek B, Lange O, Makarov A, Horning S, Mann M (2007) Higher-energy C-trap dissociation for peptide modification analysis. Nat Methods 4: 709-712 (Pubitemid 47338163)
    • (2007) Nature Methods , vol.4 , Issue.9 , pp. 709-712
    • Olsen, J.V.1    Macek, B.2    Lange, O.3    Makarov, A.4    Horning, S.5    Mann, M.6
  • 43
    • 77954378942 scopus 로고    scopus 로고
    • Proteome, phosphoproteome, and N-glycoproteome are quantitatively preserved in formalin-fixed paraffin-embedded tissue and analyzable by high-resolution mass spectrometry
    • Ostasiewicz P, Zielinska DF, Mann M, Wisniewski JR (2010) Proteome, phosphoproteome, and N-glycoproteome are quantitatively preserved in formalin-fixed paraffin-embedded tissue and analyzable by high-resolution mass spectrometry. J Proteome Res 9: 3688-3700
    • (2010) J Proteome Res , vol.9 , pp. 3688-3700
    • Ostasiewicz, P.1    Zielinska, D.F.2    Mann, M.3    Wisniewski, J.R.4
  • 48
    • 82355185827 scopus 로고    scopus 로고
    • Proteomic analysis of advanced colorectal cancer by laser capture microdissection and two-dimensional difference gel electrophoresis
    • Shi H, Hood KA, Hayes MT, Stubbs RS (2011) Proteomic analysis of advanced colorectal cancer by laser capture microdissection and two-dimensional difference gel electrophoresis. J Proteomics 75: 339-351
    • (2011) J Proteomics , vol.75 , pp. 339-351
    • Shi, H.1    Hood, K.A.2    Hayes, M.T.3    Stubbs, R.S.4
  • 49
  • 51
    • 66249108601 scopus 로고    scopus 로고
    • Understanding the Warburg effect: The metabolic requirements of cell proliferation
    • Vander Heiden MG, Cantley LC, Thompson CB (2009) Understanding the Warburg effect: the metabolic requirements of cell proliferation. Science 324: 1029-1033
    • (2009) Science , vol.324 , pp. 1029-1033
    • Vander Heiden, M.G.1    Cantley, L.C.2    Thompson, C.B.3
  • 52
    • 0001221508 scopus 로고
    • On respiratory impairment in cancer cells
    • Warburg O (1956) On respiratory impairment in cancer cells. Science 124: 269-270
    • (1956) Science , vol.124 , pp. 269-270
    • Warburg, O.1
  • 55
    • 79960026710 scopus 로고    scopus 로고
    • Tools for phospho-and glycoproteomics of plasma membranes
    • Wisniewski JR (2011) Tools for phospho-and glycoproteomics of plasma membranes. Amino Acids 41: 223-233
    • (2011) Amino Acids , vol.41 , pp. 223-233
    • Wisniewski, J.R.1
  • 56
    • 84858725817 scopus 로고    scopus 로고
    • Consecutive proteolytic digestion in an enzyme reactor increases depth of proteomic and phosphoproteomic analysis
    • Wisniewski JR, Mann M (2012) Consecutive proteolytic digestion in an enzyme reactor increases depth of proteomic and phosphoproteomic analysis. Anal Chem 84: 2631-2637
    • (2012) Anal Chem , vol.84 , pp. 2631-2637
    • Wisniewski, J.R.1    Mann, M.2
  • 57
    • 79960011243 scopus 로고    scopus 로고
    • High recovery FASP applied to the proteomic analysis of microdissected formalin fixed paraffin embedded cancer tissues retrieves known colon cancer markers
    • Wisniewski JR, Ostasiewicz P, Mann M (2011a) High recovery FASP applied to the proteomic analysis of microdissected formalin fixed paraffin embedded cancer tissues retrieves known colon cancer markers. J Proteome Res 10: 3040-3049
    • (2011) J Proteome Res , vol.10 , pp. 3040-3049
    • Wisniewski, J.R.1    Ostasiewicz, P.2    Mann, M.3
  • 58
    • 79551510422 scopus 로고    scopus 로고
    • Comparison of ultrafiltration units for proteomic and N-glycoproteomic analysis by the filter-aided sample preparation method
    • Wisniewski JR, Zielinska DF, Mann M (2011b) Comparison of ultrafiltration units for proteomic and N-glycoproteomic analysis by the filter-aided sample preparation method. Anal Biochem 410: 307-309
    • (2011) Anal Biochem , vol.410 , pp. 307-309
    • Wisniewski, J.R.1    Zielinska, D.F.2    Mann, M.3
  • 59
    • 71549117585 scopus 로고    scopus 로고
    • Combination of FASP and StageTip-based fractionation allows in-depth analysis of the hippocampal membrane proteome
    • Wisniewski JR, Zougman A, Mann M (2009a) Combination of FASP and StageTip-based fractionation allows in-depth analysis of the hippocampal membrane proteome. J Proteome Res 8: 5674-5678
    • (2009) J Proteome Res , vol.8 , pp. 5674-5678
    • Wisniewski, J.R.1    Zougman, A.2    Mann, M.3
  • 60
    • 67349266694 scopus 로고    scopus 로고
    • Universal sample preparation method for proteome analysis
    • Wisniewski JR, Zougman A, Nagaraj N, Mann M (2009b) Universal sample preparation method for proteome analysis. Nat Methods 6: 359-362
    • (2009) Nat Methods , vol.6 , pp. 359-362
    • Wisniewski, J.R.1    Zougman, A.2    Nagaraj, N.3    Mann, M.4
  • 61
    • 0034769874 scopus 로고    scopus 로고
    • Genome-wide screening of genes showing altered expression in liver metastases of human colorectal cancers by cDNA microarray
    • DOI 10.1038/sj.neo.7900185
    • Yanagawa R, Furukawa Y, Tsunoda T, Kitahara O, Kameyama M, Murata K, Ishikawa O, Nakamura Y (2001) Genome-wide screening of genes showing altered expression in liver metastases of human colorectal cancers by cDNA microarray. Neoplasia 3: 395-401 (Pubitemid 32988809)
    • (2001) Neoplasia , vol.3 , Issue.5 , pp. 395-401
    • Yanagawa, R.1    Furukawa, Y.2    Tsunoda, T.3    Kitahara, O.4    Kameyama, M.5    Murata, K.6    Ishikawa, O.7    Nakamura, Y.8
  • 62
    • 80855154135 scopus 로고    scopus 로고
    • A Protein Epitope Signature Tag (PrEST) library allows SILAC-based absolute quantification and multiplexed determination of protein copy numbers in cell lines
    • Zeiler M, Straube WL, Lundberg E, Uhlen M, Mann M (2012) A Protein Epitope Signature Tag (PrEST) library allows SILAC-based absolute quantification and multiplexed determination of protein copy numbers in cell lines. Mol Cell Proteomics 11: O111.009613
    • (2012) Mol Cell Proteomics , vol.11
    • Zeiler, M.1    Straube, W.L.2    Lundberg, E.3    Uhlen, M.4    Mann, M.5
  • 63
    • 0020513908 scopus 로고
    • Sucrase-isomaltase: A marker of foetal and malignant epithelial cells of the human colon
    • Zweibaum A, Triadou N, Kedinger M, Augeron C, Robine-Leon S, Pinto M, Rousset M, Haffen K (1983) Sucrase-isomaltase: A marker of foetal and malignant epithelial cells of the human colon. Int J Cancer 32: 407-412 (Pubitemid 13017953)
    • (1983) International Journal of Cancer , vol.32 , Issue.4 , pp. 407-412
    • Zweibaum, A.1    Triadou, N.2    Kedinger, M.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.