Nowa wersja platformy, zawierająca wyłącznie zasoby pełnotekstowe, jest już dostępna.
Przejdź na https://bibliotekanauki.pl

PL EN


Preferencje help
Widoczny [Schowaj] Abstrakt
Liczba wyników
2013 | Vol. 25, no. 2 | 257--273
Tytuł artykułu

Unsupervised adaptive filter for baseline thresholding and elimination in liquid chromatography-mass spectrometry via approximation of the standard deviation of baseline distribution in retention time domain

Warianty tytułu
Języki publikacji
EN
Abstrakty
EN
The omitting presence of a baseline (background, systemic noise, mobile phase) in liquid chromatography-mass spectrometry (LC-MS) measurements impedes objective analysis. Therefore, there is a demand to remove its contribution from the signal response. Elimination of baseline contribution is justified by increasing the data mining output, both qualitatively and quantitatively. Behavior of the baseline content is not perfectly constant on the time axis, and it is often necessary to experiment with gradient changes. However, the behavior could be parametrized using a technique derived from statistical moments. In this article, we propose adaptive thresholding as an unsupervised method for baseline removal from the measurement data. Results of a real analyte measurement are discussed to illustrate its efficiency.
Wydawca

Rocznik
Strony
257--273
Opis fizyczny
Bibliogr. 53 poz., rys., tab.
Twórcy
autor
  • University of South Bohemia in Ceske Budejovice Faculty of Fisheries and Protection of Waters, South Bohemian Research Center of Aquaculture and Biodiversity of Hydrocenoses, School of Complex Systems (former Institute of Physical Biology), Laboratory of Applied System Biology Zamek 136 Nove Hrady 373 33 Czech Republic, urbanj@frov.jcu.cz
autor
  • University of South Bohemia in Ceske Budejovice Faculty of Fisheries and Protection of Waters, South Bohemian Research Center of Aquaculture and Biodiversity of Hydrocenoses, School of Complex Systems (former Institute of Physical Biology), Laboratory of Applied System Biology Zamek 136 Nove Hrady 373 33 Czech Republic
autor
  • University of South Bohemia in Ceske Budejovice Faculty of Fisheries and Protection of Waters, South Bohemian Research Center of Aquaculture and Biodiversity of Hydrocenoses, School of Complex Systems (former Institute of Physical Biology), Laboratory of Applied System Biology Zamek 136 Nove Hrady 373 33 Czech Republic
Bibliografia
  • [1] V.P. Andreev, T. Rejtar, H.-S. Chen, E.V. Moskovets, A.R. Ivanov, and B.L. Karger, Anal. Chem., 75, 6314–6326 (2003)
  • [2] J.R. Kettman, C. Coleclough, J.R. Frey, and I. Lefkovits, Proteomics, 2(6), 624–631 (2002)
  • [3] G.L. Corthals, V.C. Wasinger, D.F. Hochstrasser, and J.C. Sanchez, Electrophoresis, 21(6), 1104–1115 (2000)
  • [4] P. Du, W.A. Kibbe, and S.M. Lin, Bioinformatics, 22(17), 2059–2065 (2006)
  • [5] A. Mihailova, E. Lundanes, and T. Greibrokk, J. Sep. Sci., 29, 576–581 (2006)
  • [6] T. Pluskal, S. Castillo, A. Villar-Briones, and M. Orešič, BMC Bioinformatics, 11, 395 (2010)
  • [7] R.A. Viscarra Rossel, Chemom. Intell. Lab. Syst., 90, 72–83 (2008)
  • [8] N. Hoffman and J. Stoye, Bioinformatics, 25(16), 2080–2081 (2009)
  • [9] J. Urban, J. Vanek, J. Soukup, and D. Stys, Bioinformatics, 25, 2764–2767 (2009)
  • [10] A. Sauve and T. Speed, Normalization, baseline correction and alignment of high-throughput mass spectrometry data, Proceedings of the Genomic Signal Processing and Statistics, 2004
  • [11] M. Sonka, V. Hlavac, and R. Boyle, Image processing, analysis and machine vision, Brooks/Cole Publishing Company, USA, 1999
  • [12] R.C. Gonzales and R.E. Woods, Digital image processing, Addison-Wesley Publishing Company, MA, 1992
  • [13] S. Beucher, Applications of mathematical morphology in material sciences: a review of recent developments, International Metallography Conference, 1995, pp. 41–46
  • [14] L. Vincent, Morphological grayscale reconstruction in image analysis: applications and efficient algorithms, IEEE Transactions on Image Processing, 1993, pp. 176–201
  • [15] Zatkova, M. Sergejevova, J. Urban, R. Vachta, D. Stys, and J. Masojidek, Aquacult. Nutr., 17(3), 278–286 (2011)
  • [16] D. Stys, J. Urban, J. Vanek, and P. Cisar, Analysis of biological time-lapse microscopic experiment from the point of view of the information theory, Micron, S0968-4328(10)00026-0 (2010)
  • [17] D. Stys, J. Vanek, T. Nahlik, J. Urban, and P. Cisar, Mol. Biosyst., 7(10), 2824–2833 (2011)
  • [18] DI, Malyarenko, W.E. Cooke, B.L. Adam, G. Malik, H.J. Chen, E.R. Tracy, M.W. Trosset, M. Sasinowski, O.J. Semmes, and D.M. Manos, Clin. Chem., 51(1), 65–74 (2005)
  • [19] J.S. Morris, K.R. Coombes, J. Koomen, K.A. Baggerly, and R. Kobayashi, Bioinformatics 21(9), 1764–1775 (2005)
  • [20] S.M. Norton, Methods for time-alignment of liquid chromatography-mass spectrometry data, Patent 6989100, 2006
  • [21] K.J. Johnson, B.W. Wright, K.H. Jarman, and R.E. Synovec, High-speed peak matching algorithm for retention time alignment of gas chromatographic data for chemometric analysis, Elsevier Science B.V., Amsterdam, 2003
  • [22] M. Chae, R.J. Shmookler Reis, and J.J. Thaden, BMC Bioinformatics, 9(Suppl 9), S15 (2008)
  • [23] P. Hrouzek, P. Tomek, A. Lukesova, J. Urban, L. Voloshko, B. Pushparaj, S. Ventura, J. Lukavsky, D. Stys, and J. Kopecky, Environ. Toxicol., 26(4), 345–358 (2011)
  • [24] V. Makarenkov, P. Zentilli, D. Kevorkov, A. Gagarin, N. Malo, and R. Nadon, Bioinformatics, 23(13), 1648–1657 (2007)
  • [25] T. Fouquet and L. Charles, J. Am. Soc. Mass Spectrom., 21, 60–67 (2010)
  • [26] M. Holčapek, K. Volná, P. Jandera, L. Kolářová, K. Lemr, M. Exner, and A. Církva, J. Mass Spectrom., 39, 43–50 (2004)
  • [27] L.C. Herrera, J.S. Grossert, and L. Ramaley, J. Am. Soc. Mass Spectrom., 12, 1926–1941 (2008)
  • [28] V. Shulaev, Brief. Bioinform., 7, 128–139 (2006)
  • [29] S.A. Gustavsson, J. Samskog, K.E. Markides, and B. Langstrom, J. Chromatogr. A, 937(41) (2001)
  • [30] M. Bantscheff, M. Schirle, G. Sweetman, J. Rick, and B. Kuster, Anal. Bioanal. Chem., 389, 1017–1031 (2007) DOI 10.1007/s00216-007-1486-6
  • [31] W. Li, J. Zhang, and F.L. Tse, Biomed. Chromatogr., DOI 10.1002/bmc.1572
  • [32] K. Sadilkova, S.M. Jr. Gospe, and S.H. Hahn, J. Neurosci. Methods, 184, 136–141 (2009)
  • [33] A. Andersson and H. Ehrsson, J. Pharm. Biomed. Anal., 13(4–5), 639–644 (1995)
  • [34] S. Pihl, A. Karina, T. Huusom, M. Rohde, M. Poulsen, M. Jørgensen, and M.A. Kal, Bioanalysis, 2(6), 1041–1049 (2010)
  • [35] P.A. Aronov, L.M. Hall, K. Dettmer, C.B. Stephensen, and B.D. Hammock, Anal. Bioanal. Chem., 391(5), 1917–1930 (2008)
  • [36] W. Li, S. Luo, H.T. Smith, and F.L. Tse, J. Chromatogr. B: Analyt. Technol. Biomed. Life Sci., 878(5–6), 583–589 (2010)
  • [37] A.S. Christophersen, J. Analyt. Toxicol., 10(4), 129–131 (1986)
  • [38] P. Kohl and S. Medlar, Occurrence of Manganese in Drinking Water and Manganese Control, American Water Works Association, 2007
  • [39] C.F. Bunting, IEEE T. Electromagn. C, 44(1), 214–221 (2002)
  • [40] L. Chang, Z. Yonghong, and S. Attallah, Max-To-Mean Ratio Detection for Cognitive Radio, Vehicular Technology Conference, 1959–1963 (2008)
  • [41] R.J. Hyndman, The problem with Sturges’ rule for constructing histograms, working papers, Monash University, Australia (1995)
  • [42] G. Polya, How To Solve It: A New Aspect of Mathematical Method, Princeton University Press, Princeton, NJ, 1945
  • [43] T. Golakoti, W.Y. Yoshida, S. Chaganty, and R. Moore, Tetrahedron, 56, 9093–9102 (2000)
  • [44] G. Giatting, P. Gletting, S.N. Reske, K. Hohl, and C. Ring, Med. Phys., 34(11), 4285–4292 (2007)
  • [45] W. Li and D.R. Nyholt, Genet. Epidemiol., 21(Supp 1), S272–S277 (2001)
  • [46] S. Forni, M. Piles, A. Blasco, L. Varona, H.N. Oliveira, R.B. Lobo, and L.G. J. Anim. Sci., 0845 (2008)
  • [47] K. Zcychaluk and D.H. Foster, Perception, 36, ECVP Supplement (2007)
  • [48] A. Polettini (ed.), Applications of LC-MS in Toxicology, Pharmaceutical Press, 2006
  • [49] J.T. Prince and E.M. Marcotte, Analyt. Chem., 78(17), 6140–6152 (2006)
  • [50] M. Cannataro, G. Cuda, M. Gaspari, S. Greco, G. Tradigo, and P. Veltri, BMC Bioinformatics, 8, 255 (2007)
  • [51] O.A. Sykes, An Introduction to Regression Analysis, The Inaugural Coase Lecture, 1999
  • [52] M. Ledvij, Curve Fitting Made Easy, The Industrial Physicist, 2003, pp. 24–27
  • [53] J. Reed, Curve Fitting, Lessons on Introduction to Statistics and Probability, http://argyll.epsb.ca/jreed/ , 2000
Typ dokumentu
Bibliografia
Identyfikatory
Identyfikator YADDA
bwmeta1.element.baztech-d9766514-bcb8-4f2b-8ab5-fa496dde193c
JavaScript jest wyłączony w Twojej przeglądarce internetowej. Włącz go, a następnie odśwież stronę, aby móc w pełni z niej korzystać.