TY - JOUR
T1 - A novel comprehensive wave-form MS data processing method
AU - Chen, Shuo
AU - Li, Ming
AU - Hong, Don
AU - Billheimer, Dean
AU - Li, Huiming
AU - Xu, Baogang J.
AU - Shyr, Yu
N1 - Funding Information:
Funding: Lung Cancer Special Program of Research Excellence (SPORE, 2P50 CA090949-06A1); Breast Cancer SPORE (5P50 CA098131-05); GI SPORE (2P50 CA095103-06); Cancer Center Support Grant (CCSG, 5P30 CA068485-12).
PY - 2009/3
Y1 - 2009/3
N2 - Motivation: Mass spectrometry (MS) can generate high-throughput protein profiles for biomedical research to discover biologically related protein patterns-biomarkers. The noisy functional MS data collected by current technologies, however, require consistent, sensitive and robust data-processing techniques for successful biomedical application. Therefore, it is important to detect features precisely for each spectrum, quantify them well and assign a unique label to features from the same protein-peptide across spectra. Results: In this article, we propose a new comprehensive MS data preprocessing package, Wave-spec, which includes several novel algorithms. It can overcome several conventional difficulties. Wave-spec can be applied to multiple types of MS data generated with different MS technologies. Results from this new package were evaluated and compared to several existing approaches based on a MALDI-TOF MS dataset.
AB - Motivation: Mass spectrometry (MS) can generate high-throughput protein profiles for biomedical research to discover biologically related protein patterns-biomarkers. The noisy functional MS data collected by current technologies, however, require consistent, sensitive and robust data-processing techniques for successful biomedical application. Therefore, it is important to detect features precisely for each spectrum, quantify them well and assign a unique label to features from the same protein-peptide across spectra. Results: In this article, we propose a new comprehensive MS data preprocessing package, Wave-spec, which includes several novel algorithms. It can overcome several conventional difficulties. Wave-spec can be applied to multiple types of MS data generated with different MS technologies. Results from this new package were evaluated and compared to several existing approaches based on a MALDI-TOF MS dataset.
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U2 - 10.1093/bioinformatics/btp060
DO - 10.1093/bioinformatics/btp060
M3 - Article
C2 - 19176559
AN - SCOPUS:62549132507
VL - 25
SP - 808
EP - 814
JO - Bioinformatics
JF - Bioinformatics
SN - 1367-4803
IS - 6
ER -