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Improved candidate biomarker detection based on mass spectrometry data using the hilbert-huang transform
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نویسنده
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wu l.-c. ,hsieh p.-h. ,horng j.-t. ,jou y.-j. ,lin c.-d. ,cheng k.-f. ,lin c.-w. ,chen s.-y.
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منبع
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protein and peptide letters - 2012 - دوره : 19 - شماره : 1 - صفحه:120 -129
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چکیده
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Mass spectrometry biomarker discovery may assist patient's diagnosis in time and realize the characteristics of new diseases. our previous work built a preprocess method called hhtmass which is capable of removing noise,but hhtmass only a proof of principle to be peak detectable and did not tested for peak reappearance rate and used on medical data. we developed a modified version of biomarker discovery method called enhance hhtmass (e-hhtmass) for maldi-tof and seldi-tof mass spectrometry data which improved old hhtmass method by removing the interpolation and the biomarker discovery process. e-hhtmass integrates the preprocessing and classification functions to identify significant peaks. the results show that most known biomarker can be found and high peak appearance rate achieved comparing to mscap and old hhtmass2. e-hhtmass is able to adapt to spectra with a small increasing interval. in addition,new peaks are detected which can be potential biomarker after further validation. © 2012 bentham science publishers.
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کلیدواژه
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Biomarker discovery; Hilbert-huang transform; MALDI-TOF; Mass spectrometry; SELDI-TOF
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آدرس
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graduate institute of system biology and bioinformatics,national central university,no.300,jhongda rd.,jhongli city,taoyuan county 32001,taiwan,research center for biotechnology and biomedical engineering,national central university, Taiwan, department of computer science and information engineering,national central university, Taiwan, graduate institute of system biology and bioinformatics,national central university,no.300,jhongda rd.,jhongli city,taoyuan county 32001,taiwan,department of computer science and information engineering,national central university,jhongli 320,taiwan,department of bioinformatics,asia university, Taiwan, department of medical laboratory science and biotechnology,china medical university,taichung,taiwan,department of biochemistry,college of life sciences,national chung hsing university, Taiwan, department of otolaryngology,china medical university hospital, Taiwan, graduate institute of statistics,national central university,jhongli,taoyuan,taiwan,graduate institute of statistics,china medical university,taichung, Taiwan, department of medical laboratory science and biotechnology,china medical university,taichung,taiwan,department of biotechnology,college of health science,asia university,wufeng, Taiwan, graduate institute of chinese medical science,china medical university hospital, Taiwan
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Authors
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