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Volumn 7, Issue , 2009, Pages

Classification-based comparison of pre-processing methods for interpretation of mass spectrometry generated clinical datasets

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY; ADULT; AGED; ARTICLE; CLASSIFICATION; CLINICAL ARTICLE; CONTROLLED STUDY; DATA ANALYSIS SOFTWARE; FEMALE; GAUCHER DISEASE; HUMAN; INFORMATION PROCESSING; INTERMETHOD COMPARISON; MALE; MASS SPECTROMETRY; OVARY CANCER; PATIENT CODING; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN MICROARRAY; QUALITY CONTROL; RELIABILITY; SAMPLING; SURFACE ENHANCED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; VALIDATION PROCESS;

EID: 67449160970     PISSN: None     EISSN: 14775956     Source Type: Journal    
DOI: 10.1186/1477-5956-7-19     Document Type: Article
Times cited : (9)

References (33)
  • 3
    • 3242736447 scopus 로고    scopus 로고
    • The use of plasma surface-enhanced laser desorption/ionization time-of-flight mass spectrometry proteomic patterns for detection of head and neck squamous cell cancers
    • 15269156
    • Soltys SG Le QT Shi G Tibshirani R Giaccia AJ Koong AC The use of plasma surface-enhanced laser desorption/ionization time-of-flight mass spectrometry proteomic patterns for detection of head and neck squamous cell cancers Clin Cancer Res 2004, 10:4806-4812. 15269156
    • (2004) Clin Cancer Res , vol.10 , pp. 4806-4812
    • Soltys, S.G.1    Le, Q.T.2    Shi, G.3    Tibshirani, R.4    Giaccia, A.J.5    Koong, A.C.6
  • 5
    • 18744411077 scopus 로고    scopus 로고
    • Improved peak detection and quantification of mass spectrometry data acquired from surface-enhanced laser desorption and ionization by denoising spectra with the undecimated discrete wavelet transform
    • 16254928
    • Coombes KR Tsavachidis S Morris JS Baggerly KA Hung MC Kuerer HM Improved peak detection and quantification of mass spectrometry data acquired from surface-enhanced laser desorption and ionization by denoising spectra with the undecimated discrete wavelet transform Proteomics 2005, 5:4107-4117. 16254928
    • (2005) Proteomics , vol.5 , pp. 4107-4117
    • Coombes, K.R.1    Tsavachidis, S.2    Morris, J.S.3    Baggerly, K.A.4    Hung, M.C.5    Kuerer, H.M.6
  • 6
    • 85127076441 scopus 로고    scopus 로고
    • Impact of Freeze-thaw Cycles and Storage Timne on Plasma Samples Used in Mass Spectrometry Based Biomarker Discovery Projects
    • Mitchell BL Yasui Y Li CI Fitzpatrick AL Lampe PD Impact of Freeze-thaw Cycles and Storage Timne on Plasma Samples Used in Mass Spectrometry Based Biomarker Discovery Projects Cancer Informatics 2005, 1:25-31.
    • (2005) Cancer Informatics , vol.1 , pp. 25-31
    • Mitchell, B.L.1    Yasui, Y.2    Li, C.I.3    Fitzpatrick, A.L.4    Lampe, P.D.5
  • 9
    • 33845217263 scopus 로고    scopus 로고
    • Mass spectrometry: Uncovering the cancer proteome for diagnostics
    • 17161675
    • Merwe van der DE Oikonomopoulou K Marshall J Diamandis EP Mass spectrometry: Uncovering the cancer proteome for diagnostics Adv Cancer Res 2007, 96:23-50. 17161675
    • (2007) Adv Cancer Res , vol.96 , pp. 23-50
    • Merwe, D.E.1    Oikonomopoulou, K.2    Marshall, J.3    Diamandis, E.P.4
  • 12
    • 0347181849 scopus 로고    scopus 로고
    • A data review and re-assessment of ovarian cancer serum proteomic profiling
    • 165662 12795817
    • Sorace JM Zhan M A data review and re-assessment of ovarian cancer serum proteomic profiling BMC Bioinformatics 2003, 4:24. 165662 12795817
    • (2003) BMC Bioinformatics , vol.4 , pp. 24
    • Sorace, J.M.1    Zhan, M.2
  • 13
    • 32344445655 scopus 로고    scopus 로고
    • Comparison of software tools to improve the detection of carcinogen induced changes in the rat liver proteome by analyzing SELDI-TOF-MS spectra
    • 16457590
    • Beyer S Walter Y Hellmann J Kramer PJ Kopp-Schneider A Kroeger M Ittrich C Comparison of software tools to improve the detection of carcinogen induced changes in the rat liver proteome by analyzing SELDI-TOF-MS spectra J Proteome Res 2006, 5:254-261. 16457590
    • (2006) J Proteome Res , vol.5 , pp. 254-261
    • Beyer, S.1    Walter, Y.2    Hellmann, J.3    Kramer, P.J.4    Kopp-Schneider, A.5    Kroeger, M.6    Ittrich, C.7
  • 14
    • 18744384734 scopus 로고    scopus 로고
    • Feature extraction and quantification for mass spectrometry in biomedical applications using the mean spectrum
    • 15673564
    • Morris JS Coombes KR Koomen J Baggerly KA Kobayashi R Feature extraction and quantification for mass spectrometry in biomedical applications using the mean spectrum Bioinformatics 2005, 21:1764-1775. 15673564
    • (2005) Bioinformatics , vol.21 , pp. 1764-1775
    • Morris, J.S.1    Coombes, K.R.2    Koomen, J.3    Baggerly, K.A.4    Kobayashi, R.5
  • 15
    • 33748659203 scopus 로고    scopus 로고
    • Improved peak detection in mass spectrum by incorporating continuous wavelet transform-based pattern matching
    • 16820428
    • Du P Kibbe WA Lin SM Improved peak detection in mass spectrum by incorporating continuous wavelet transform-based pattern matching Bioinformatics 2006, 22:2059-2065. 16820428
    • (2006) Bioinformatics , vol.22 , pp. 2059-2065
    • Du, P.1    Kibbe, W.A.2    Lin, S.M.3
  • 17
    • 0036130648 scopus 로고    scopus 로고
    • ProteinChip clinical proteomics: Computational challenges and solutions
    • 11906005
    • Fung ET Enderwick C ProteinChip clinical proteomics: Computational challenges and solutions Biotechniques 2002, (Suppl):34-1. 11906005
    • (2002) Biotechniques , Issue.SUPPL. , pp. 34-41
    • Fung, E.T.1    Enderwick, C.2
  • 18
    • 52949099571 scopus 로고    scopus 로고
    • Comparison of algorithms for pre-processing of SELDI-TOF mass spectrometry data
    • 18694894
    • Cruz-Marcelo A Guerra R Vannucci M Li Y Lau CC Man TK Comparison of algorithms for pre-processing of SELDI-TOF mass spectrometry data Bioinformatics 2008, 24:2129-2136. 18694894
    • (2008) Bioinformatics , vol.24 , pp. 2129-2136
    • Cruz-Marcelo, A.1    Guerra, R.2    Vannucci, M.3    Li, Y.4    Lau, C.C.5    Man, T.K.6
  • 19
    • 65349138192 scopus 로고    scopus 로고
    • Benchmarking currently available SELDI-TOF MS preprocessing techniques
    • 19294696
    • Emanuele VA Gurbaxani BM Benchmarking currently available SELDI-TOF MS preprocessing techniques Proteomics 2009, 9:1754-1762. 19294696
    • (2009) Proteomics , vol.9 , pp. 1754-1762
    • Emanuele, V.A.1    Gurbaxani, B.M.2
  • 23
    • 39849093716 scopus 로고    scopus 로고
    • Comparison of normalisation methods for surface-enhanced laser desorption and ionisation (SELDI) time-of-flight (TOF) mass spectrometry data
    • 2258289 18257918
    • Meuleman W Engwegen JY Gast MC Beijnen JH Reinders MJ Wessels LF Comparison of normalisation methods for surface-enhanced laser desorption and ionisation (SELDI) time-of-flight (TOF) mass spectrometry data BMC Bioinformatics 2008, 9:88. 2258289 18257918
    • (2008) BMC Bioinformatics , vol.9 , pp. 88
    • Meuleman, W.1    Engwegen, J.Y.2    Gast, M.C.3    Beijnen, J.H.4    Reinders, M.J.5    Wessels, L.F.6
  • 24
    • 18944393902 scopus 로고    scopus 로고
    • A compendium to ensure computational reproducibility in high-dimensional classification tasks
    • Article37 16646817
    • Ruschhaupt M Huber W Poustka A Mansmann U A compendium to ensure computational reproducibility in high-dimensional classification tasks Stat Appl Genet Mol Biol 2004, 3. Article37 16646817
    • (2004) Stat Appl Genet Mol Biol , vol.3
    • Ruschhaupt, M.1    Huber, W.2    Poustka, A.3    Mansmann, U.4
  • 27
    • 0001677717 scopus 로고
    • Controlling the false discovery rate: A practical and powerful approach to multiple testing
    • Series B
    • Benjamini Y Hochberg Y Controlling the false discovery rate: A practical and powerful approach to multiple testing Journal of the Royal Statistical Society 1995, Series B:289-300.
    • (1995) Journal of the Royal Statistical Society , pp. 289-300
    • Benjamini, Y.1    Hochberg, Y.2
  • 28
    • 3543120389 scopus 로고    scopus 로고
    • Introduction to Classification in Microarray Experiments
    • Springer Berrar DP, Dubitzky W, Granzow M
    • Dudoit S Fridlyand J Introduction to Classification in Microarray Experiments A Practical Approach to Microarray Data Analysis Springer Berrar DP, Dubitzky W, Granzow M 2003, 132-149.
    • (2003) A Practical Approach to Microarray Data Analysis , pp. 132-149
    • Dudoit, S.1    Fridlyand, J.2
  • 29
  • 30
    • 13444249852 scopus 로고    scopus 로고
    • Prediction of cancer outcome with microarrays: A multiple random validation strategy
    • 15705458
    • Michiels S Koscielny S Hill C Prediction of cancer outcome with microarrays: A multiple random validation strategy Lancet 2005, 365:488-492. 15705458
    • (2005) Lancet , vol.365 , pp. 488-492
    • Michiels, S.1    Koscielny, S.2    Hill, C.3
  • 31
    • 33644860703 scopus 로고    scopus 로고
    • Bias in error estimation when using cross-validation for model selection
    • 1397873 16504092
    • Varma S Simon R Bias in error estimation when using cross-validation for model selection BMC Bioinformatics 2006, 7:91. 1397873 16504092
    • (2006) BMC Bioinformatics , vol.7 , pp. 91
    • Varma, S.1    Simon, R.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.