메뉴 건너뛰기




Volumn 51, Issue C, 2010, Pages 181-213

Urine Peptidomics for Clinical Biomarker Discovery

Author keywords

Biomarker; Biomarker panel; Diagnosis; False discovery rate; Peptidome; Prognosis; Proteomic profile; Urine peptide

Indexed keywords

BIOLOGICAL MARKER; PEPTIDE;

EID: 77955948010     PISSN: 00652423     EISSN: None     Source Type: Book Series    
DOI: 10.1016/S0065-2423(10)51007-2     Document Type: Book
Times cited : (36)

References (53)
  • 2
    • 19344376290 scopus 로고    scopus 로고
    • Urinary-peptide excretion by patients with and volunteers without diabetes
    • Strong K.J., Osicka T.M., Comper W.D. Urinary-peptide excretion by patients with and volunteers without diabetes. J. Lab. Clin. Med. 2005, 145:239-246.
    • (2005) J. Lab. Clin. Med. , vol.145 , pp. 239-246
    • Strong, K.J.1    Osicka, T.M.2    Comper, W.D.3
  • 5
    • 0038355369 scopus 로고    scopus 로고
    • Detection and analysis of urinary peptides by on-line liquid chromatography and mass spectrometry: application to patients with renal Fanconi syndrome
    • Cutillas P.R., Norden A.G., Cramer R., Burlingame A.L., Unwin R.J. Detection and analysis of urinary peptides by on-line liquid chromatography and mass spectrometry: application to patients with renal Fanconi syndrome. Clin. Sci. (Lond.) 2003, 104:483-490.
    • (2003) Clin. Sci. (Lond.) , vol.104 , pp. 483-490
    • Cutillas, P.R.1    Norden, A.G.2    Cramer, R.3    Burlingame, A.L.4    Unwin, R.J.5
  • 6
    • 34548014772 scopus 로고    scopus 로고
    • Protein sequence information by matrix-assisted laser desorption/ionization in-source decay mass spectrometry
    • Hardouin J. Protein sequence information by matrix-assisted laser desorption/ionization in-source decay mass spectrometry. Mass Spectrom. Rev. 2007, 26:672-682.
    • (2007) Mass Spectrom. Rev. , vol.26 , pp. 672-682
    • Hardouin, J.1
  • 7
    • 27744497057 scopus 로고    scopus 로고
    • Protein and peptide identification algorithms using MS for use in high-throughput, automated pipelines
    • Shadforth I., Crowther D., Bessant C. Protein and peptide identification algorithms using MS for use in high-throughput, automated pipelines. Proteomics 2005, 5:4082-4095.
    • (2005) Proteomics , vol.5 , pp. 4082-4095
    • Shadforth, I.1    Crowther, D.2    Bessant, C.3
  • 8
    • 0029739994 scopus 로고    scopus 로고
    • Sequence tag identification of intact proteins by matching tanden mass spectral data against sequence data bases
    • Mortz E., O'Connor P.B., Roepstorff P., Kelleher N.L., Wood T.D., McLafferty F.W., et al. Sequence tag identification of intact proteins by matching tanden mass spectral data against sequence data bases. Proc. Natl. Acad. Sci. USA 1996, 93:8264-8267.
    • (1996) Proc. Natl. Acad. Sci. USA , vol.93 , pp. 8264-8267
    • Mortz, E.1    O'Connor, P.B.2    Roepstorff, P.3    Kelleher, N.L.4    Wood, T.D.5    McLafferty, F.W.6
  • 9
    • 34848819400 scopus 로고    scopus 로고
    • Comparative evaluation of tandem MS search algorithms using a target-decoy search strategy
    • Balgley B.M., Laudeman T., Yang L., Song T., Lee C.S. Comparative evaluation of tandem MS search algorithms using a target-decoy search strategy. Mol. Cell. Proteomics 2007, 6:1599-1608.
    • (2007) Mol. Cell. Proteomics , vol.6 , pp. 1599-1608
    • Balgley, B.M.1    Laudeman, T.2    Yang, L.3    Song, T.4    Lee, C.S.5
  • 10
    • 18744398125 scopus 로고    scopus 로고
    • Large-scale database searching using tandem mass spectra: looking up the answer in the back of the book
    • 3rd.
    • Sadygov R.G., Cociorva D., Yates J.R. Large-scale database searching using tandem mass spectra: looking up the answer in the back of the book. Nat. Methods 2004, 1:195-202. 3rd.
    • (2004) Nat. Methods , vol.1 , pp. 195-202
    • Sadygov, R.G.1    Cociorva, D.2    Yates, J.R.3
  • 11
  • 12
    • 33750364830 scopus 로고    scopus 로고
    • The human urinary proteome contains more than 1500 proteins, including a large proportion of membrane proteins
    • Adachi J., Kumar C., Zhang Y., Olsen J.V., Mann M. The human urinary proteome contains more than 1500 proteins, including a large proportion of membrane proteins. Genome Biol. 2006, 7:R80.
    • (2006) Genome Biol. , vol.7
    • Adachi, J.1    Kumar, C.2    Zhang, Y.3    Olsen, J.V.4    Mann, M.5
  • 14
    • 77950615625 scopus 로고    scopus 로고
    • Integrative urinary peptidomics in renal transplantation identifies biomarkers for acute rejection
    • Ling X.B., Sigdel T.K., Lau K., Ying L., Lau I., Schilling J., et al. Integrative urinary peptidomics in renal transplantation identifies biomarkers for acute rejection. J. Am. Soc. Nephrol. 2010, 21:646-653.
    • (2010) J. Am. Soc. Nephrol. , vol.21 , pp. 646-653
    • Ling, X.B.1    Sigdel, T.K.2    Lau, K.3    Ying, L.4    Lau, I.5    Schilling, J.6
  • 15
    • 0016636179 scopus 로고
    • An improved 2,4,6-trinitrobenzenesulfonic acid method for the determination of amines
    • Snyder S.L., Sobocinski P.Z. An improved 2,4,6-trinitrobenzenesulfonic acid method for the determination of amines. Anal. Biochem. 1975, 64:284-288.
    • (1975) Anal. Biochem. , vol.64 , pp. 284-288
    • Snyder, S.L.1    Sobocinski, P.Z.2
  • 18
    • 28044460957 scopus 로고    scopus 로고
    • Detection of acute tubulointerstitial rejection by proteomic analysis of urinary samples in renal transplant recipients
    • Wittke S., Haubitz M., Walden M., Rohde F., Schwarz A., Mengel M., et al. Detection of acute tubulointerstitial rejection by proteomic analysis of urinary samples in renal transplant recipients. Am. J. Transplant. 2005, 5:2479-2488.
    • (2005) Am. J. Transplant. , vol.5 , pp. 2479-2488
    • Wittke, S.1    Haubitz, M.2    Walden, M.3    Rohde, F.4    Schwarz, A.5    Mengel, M.6
  • 19
    • 68049101085 scopus 로고    scopus 로고
    • Application of label-free quantitative peptidomics for the identification of urinary biomarkers of kidney chronic allograft dysfunction
    • Quintana L.F., Campistol J.M., Alcolea M.P., Banon-Maneus E., Sole-Gonzalez A., Cutillas P.R. Application of label-free quantitative peptidomics for the identification of urinary biomarkers of kidney chronic allograft dysfunction. Mol. Cell. Proteomics 2009, 8:1658-1673.
    • (2009) Mol. Cell. Proteomics , vol.8 , pp. 1658-1673
    • Quintana, L.F.1    Campistol, J.M.2    Alcolea, M.P.3    Banon-Maneus, E.4    Sole-Gonzalez, A.5    Cutillas, P.R.6
  • 20
    • 60849087391 scopus 로고    scopus 로고
    • Quantitative Urinary Proteome Analysis for Biomarker Evaluation in Chronic Kidney Disease
    • Jantos-Siwy J., Schiffer E., Brand K., Schumann G., Rossing K., Delles C., et al. Quantitative Urinary Proteome Analysis for Biomarker Evaluation in Chronic Kidney Disease. J. Proteome Res. 2009, 8:268-281.
    • (2009) J. Proteome Res. , vol.8 , pp. 268-281
    • Jantos-Siwy, J.1    Schiffer, E.2    Brand, K.3    Schumann, G.4    Rossing, K.5    Delles, C.6
  • 22
    • 24944524156 scopus 로고    scopus 로고
    • Impact of diabetic nephropathy and angiotensin II receptor blockade on urinary polypeptide patterns
    • Rossing K., Mischak H., Parving H.H., Christensen P.K., Walden M., Hillmann M., et al. Impact of diabetic nephropathy and angiotensin II receptor blockade on urinary polypeptide patterns. Kidney Int. 2005, 68:193-205.
    • (2005) Kidney Int. , vol.68 , pp. 193-205
    • Rossing, K.1    Mischak, H.2    Parving, H.H.3    Christensen, P.K.4    Walden, M.5    Hillmann, M.6
  • 23
    • 33645747471 scopus 로고    scopus 로고
    • Predicting the clinical outcome of congenital unilateral ureteropelvic junction obstruction in newborn by urinary proteome analysis
    • Decramer S., Wittke S., Mischak H., Zurbig P., Walden M., Bouissou F., et al. Predicting the clinical outcome of congenital unilateral ureteropelvic junction obstruction in newborn by urinary proteome analysis. Nat. Med. 2006, 12:398-400.
    • (2006) Nat. Med. , vol.12 , pp. 398-400
    • Decramer, S.1    Wittke, S.2    Mischak, H.3    Zurbig, P.4    Walden, M.5    Bouissou, F.6
  • 24
    • 33344479181 scopus 로고    scopus 로고
    • Discovery and validation of new protein biomarkers for urothelial cancer: a prospective analysis
    • Theodorescu D., Wittke S., Ross M.M., Walden M., Conaway M., Just I., et al. Discovery and validation of new protein biomarkers for urothelial cancer: a prospective analysis. Lancet Oncol. 2006, 7:230-240.
    • (2006) Lancet Oncol. , vol.7 , pp. 230-240
    • Theodorescu, D.1    Wittke, S.2    Ross, M.M.3    Walden, M.4    Conaway, M.5    Just, I.6
  • 26
    • 23144461504 scopus 로고    scopus 로고
    • Pilot study of capillary electrophoresis coupled to mass spectrometry as a tool to define potential prostate cancer biomarkers in urine
    • Theodorescu D., Fliser D., Wittke S., Mischak H., Krebs R., Walden M., et al. Pilot study of capillary electrophoresis coupled to mass spectrometry as a tool to define potential prostate cancer biomarkers in urine. Electrophoresis 2005, 26:2797-2808.
    • (2005) Electrophoresis , vol.26 , pp. 2797-2808
    • Theodorescu, D.1    Fliser, D.2    Wittke, S.3    Mischak, H.4    Krebs, R.5    Walden, M.6
  • 27
    • 70349601703 scopus 로고    scopus 로고
    • Urinary peptidomic analysis identifies potential biomarkers for acute rejection of renal transplantation
    • Sigdel T., Ling X.B., Lau K., Li L., Schilling J., Sarwal M. Urinary peptidomic analysis identifies potential biomarkers for acute rejection of renal transplantation. Clin. Proteomics 2009, 5:103-113.
    • (2009) Clin. Proteomics , vol.5 , pp. 103-113
    • Sigdel, T.1    Ling, X.B.2    Lau, K.3    Li, L.4    Schilling, J.5    Sarwal, M.6
  • 28
    • 33644524918 scopus 로고    scopus 로고
    • Mass spectrometry-based proteomics turns quantitative
    • Ong S.E., Mann M. Mass spectrometry-based proteomics turns quantitative. Nat. Chem. Biol. 2005, 1:252-262.
    • (2005) Nat. Chem. Biol. , vol.1 , pp. 252-262
    • Ong, S.E.1    Mann, M.2
  • 29
    • 34548428842 scopus 로고    scopus 로고
    • The Association of Biomolecular Resource Facilities Proteomics Research Group 2006 study: relative protein quantitation
    • Turck C.W., Falick A.M., Kowalak J.A., Lane W.S., Lilley K.S., Phinney B.S., et al. The Association of Biomolecular Resource Facilities Proteomics Research Group 2006 study: relative protein quantitation. Mol. Cell. Proteomics 2007, 6:1291-1298.
    • (2007) Mol. Cell. Proteomics , vol.6 , pp. 1291-1298
    • Turck, C.W.1    Falick, A.M.2    Kowalak, J.A.3    Lane, W.S.4    Lilley, K.S.5    Phinney, B.S.6
  • 30
    • 0142008803 scopus 로고    scopus 로고
    • A data-analytic strategy for protein biomarker discovery: profiling of high-dimensional proteomic data for cancer detection
    • Yasui Y., Pepe M., Thompson M.L., Adam B.L., Wright, G.L., Qu Y., et al. A data-analytic strategy for protein biomarker discovery: profiling of high-dimensional proteomic data for cancer detection. Biostatistics 2003, 4:449-463.
    • (2003) Biostatistics , vol.4 , pp. 449-463
    • Yasui, Y.1    Pepe, M.2    Thompson, M.L.3    Adam, B.L.4    Wright, G.L.5    Qu, Y.6
  • 31
    • 10244279272 scopus 로고    scopus 로고
    • Sample classification from protein mass spectrometry, by 'peak probability contrasts'
    • Tibshirani R., Hastie T., Narasimhan B., Soltys S., Shi G., Koong A., et al. Sample classification from protein mass spectrometry, by 'peak probability contrasts'. Bioinformatics 2004, 20:3034-3044.
    • (2004) Bioinformatics , vol.20 , pp. 3034-3044
    • Tibshirani, R.1    Hastie, T.2    Narasimhan, B.3    Soltys, S.4    Shi, G.5    Koong, A.6
  • 32
    • 67650564834 scopus 로고    scopus 로고
    • Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma
    • Addona T.A., Abbatiello S.E., Schilling B., Skates S.J., Mani D.R., Bunk D.M., et al. Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma. Nat. Biotechnol. 2009, 27:633-641.
    • (2009) Nat. Biotechnol. , vol.27 , pp. 633-641
    • Addona, T.A.1    Abbatiello, S.E.2    Schilling, B.3    Skates, S.J.4    Mani, D.R.5    Bunk, D.M.6
  • 33
    • 33645721632 scopus 로고    scopus 로고
    • Quantitative mass spectrometric multiple reaction monitoring assays for major plasma proteins
    • Anderson L., Hunter C.L. Quantitative mass spectrometric multiple reaction monitoring assays for major plasma proteins. Mol. Cell. Proteomics 2006, 5:573-588.
    • (2006) Mol. Cell. Proteomics , vol.5 , pp. 573-588
    • Anderson, L.1    Hunter, C.L.2
  • 37
    • 0141939435 scopus 로고    scopus 로고
    • The efficiency of pooling mRNA in microarray experiments
    • Kendziorski C.M., Zhang Y., Lan H., Attie A.D. The efficiency of pooling mRNA in microarray experiments. Biostatistics 2003, 4:465-477.
    • (2003) Biostatistics , vol.4 , pp. 465-477
    • Kendziorski, C.M.1    Zhang, Y.2    Lan, H.3    Attie, A.D.4
  • 38
    • 25144478254 scopus 로고    scopus 로고
    • Pooling samples within microarray studies: a comparative analysis of rat liver transcription response to prototypical toxicants
    • Jolly R.A., Goldstein K.M., Wei T., Gao H., Chen P., Huang S., et al. Pooling samples within microarray studies: a comparative analysis of rat liver transcription response to prototypical toxicants. Physiol. Genomics 2005, 22:346-355.
    • (2005) Physiol. Genomics , vol.22 , pp. 346-355
    • Jolly, R.A.1    Goldstein, K.M.2    Wei, T.3    Gao, H.4    Chen, P.5    Huang, S.6
  • 39
    • 44949145171 scopus 로고    scopus 로고
    • Pooling serum samples may lead to loss of potential biomarkers in SELDI-ToF MS proteomic profiling
    • Sadiq S.T., Agranoff D. Pooling serum samples may lead to loss of potential biomarkers in SELDI-ToF MS proteomic profiling. Proteome Sci. 2008, 6:16.
    • (2008) Proteome Sci. , vol.6 , pp. 16
    • Sadiq, S.T.1    Agranoff, D.2
  • 40
    • 0038574979 scopus 로고    scopus 로고
    • Ion suppression in mass spectrometry
    • Annesley T.M. Ion suppression in mass spectrometry. Clin. Chem. 2003, 49:1041-1044.
    • (2003) Clin. Chem. , vol.49 , pp. 1041-1044
    • Annesley, T.M.1
  • 41
    • 0037076272 scopus 로고    scopus 로고
    • Diagnosis of multiple cancer types by shrunken centroids of gene expression
    • Tibshirani R., Hastie T., Narasimhan B., Chu G. Diagnosis of multiple cancer types by shrunken centroids of gene expression. Proc. Natl. Acad. Sci. USA 2002, 99:6567-6572.
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 6567-6572
    • Tibshirani, R.1    Hastie, T.2    Narasimhan, B.3    Chu, G.4
  • 42
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: a practical and powerful approach to multiple testing
    • Benjamini Y., Hochberg Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. JRSSB 1995, 57:289-300.
    • (1995) JRSSB , vol.57 , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 44
    • 65649132280 scopus 로고    scopus 로고
    • FDR made easy in differential feature discovery and correlation analyses
    • Ling X.B., Cohen H., Jin J., Lau I., Schilling J. FDR made easy in differential feature discovery and correlation analyses. Bioinformatics 2009, 25:1461-1462.
    • (2009) Bioinformatics , vol.25 , pp. 1461-1462
    • Ling, X.B.1    Cohen, H.2    Jin, J.3    Lau, I.4    Schilling, J.5
  • 46
    • 0027457620 scopus 로고
    • Receiver-operating characteristic (ROC) plots: a fundamental evaluation tool in clinical medicine
    • Zweig M.H., Campbell G. Receiver-operating characteristic (ROC) plots: a fundamental evaluation tool in clinical medicine. Clin. Chem. 1993, 39:561-577.
    • (1993) Clin. Chem. , vol.39 , pp. 561-577
    • Zweig, M.H.1    Campbell, G.2
  • 48
    • 0025757333 scopus 로고
    • Juvenile rheumatoid arthritis: outcome and treatment for the 1990s
    • Wallace C.A., Levinson J.E. Juvenile rheumatoid arthritis: outcome and treatment for the 1990s. Rheum. Dis. Clin. N. Am. 1991, 17:891-905.
    • (1991) Rheum. Dis. Clin. N. Am. , vol.17 , pp. 891-905
    • Wallace, C.A.1    Levinson, J.E.2
  • 50
    • 18744366356 scopus 로고    scopus 로고
    • Etanercept treatment in patients with refractory systemic onset juvenile rheumatoid arthritis
    • Kimura Y., Pinho P., Walco G., Higgins G., Hummell D., Szer I., et al. Etanercept treatment in patients with refractory systemic onset juvenile rheumatoid arthritis. J. Rheumatol. 2005, 32:935-942.
    • (2005) J. Rheumatol. , vol.32 , pp. 935-942
    • Kimura, Y.1    Pinho, P.2    Walco, G.3    Higgins, G.4    Hummell, D.5    Szer, I.6
  • 52
    • 39549109506 scopus 로고    scopus 로고
    • Interleukin-1 receptor antagonist (anakinra) treatment in patients with systemic-onset juvenile idiopathic arthritis or adult onset Still disease: preliminary experience in France
    • Lequerre T., Quartier P., Rosellini D., Alaoui F., De Bandt M., Mejjad O., et al. Interleukin-1 receptor antagonist (anakinra) treatment in patients with systemic-onset juvenile idiopathic arthritis or adult onset Still disease: preliminary experience in France. Ann. Rheum. Dis. 2008, 67:302-308.
    • (2008) Ann. Rheum. Dis. , vol.67 , pp. 302-308
    • Lequerre, T.1    Quartier, P.2    Rosellini, D.3    Alaoui, F.4    De Bandt, M.5    Mejjad, O.6
  • 53
    • 34047169354 scopus 로고    scopus 로고
    • Distinct expression pattern of IFN-alpha and TNF-alpha in juvenile idiopathic arthritis synovial tissue
    • Gattorno M., Chicha L., Gregorio A., Ferlito F., Rossi F., Jarrossay D., et al. Distinct expression pattern of IFN-alpha and TNF-alpha in juvenile idiopathic arthritis synovial tissue. Rheumatology (Oxford) 2007, 46:657-665.
    • (2007) Rheumatology (Oxford) , vol.46 , pp. 657-665
    • Gattorno, M.1    Chicha, L.2    Gregorio, A.3    Ferlito, F.4    Rossi, F.5    Jarrossay, D.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.