scholarly journals Linkage position and residue identification of disaccharides by tandem mass spectrometry and linear discriminant analysis

2008 ◽  
Vol 22 (10) ◽  
pp. 1579-1586 ◽  
Author(s):  
Hui Zhang ◽  
Steve M. Brokman ◽  
Ning Fang ◽  
Nicola L. Pohl ◽  
Edward S. Yeung
Keyword(s):  
Mass Spectrometry ◽  
Discriminant Analysis ◽  
Tandem Mass Spectrometry ◽  
Linear Discriminant Analysis ◽  
Tandem Mass ◽  
Linear Discriminant ◽  
Linkage Position

Comparison of Supervised Classification Methods for Protein Profiling in Cancer Diagnosis

2007 ◽  
Vol 3 ◽  
pp. 117693510700300 ◽  
Author(s):  
Nadège Dossat ◽  
Alain Mangé ◽  
Jérôme Solassol ◽  
William Jacot ◽  
Ludovic Lhermitte ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Discriminant Analysis ◽  
Linear Discriminant Analysis ◽  
Supervised Classification ◽  
Protein Profiling ◽  
Clinical Proteomics ◽  
High Dimensional ◽  
Classification Methods ◽  
Linear Discriminant ◽  
Supervised Classification Methods

A key challenge in clinical proteomics of cancer is the identification of biomarkers that could allow detection, diagnosis and prognosis of the diseases. Recent advances in mass spectrometry and proteomic instrumentations offer unique chance to rapidly identify these markers. These advances pose considerable challenges, similar to those created by microarray-based investigation, for the discovery of pattern of markers from high-dimensional data, specific to each pathologic state (e.g. normal vs cancer). We propose a three-step strategy to select important markers from high-dimensional mass spectrometry data using surface enhanced laser desorption/ionization (SELDI) technology. The first two steps are the selection of the most discriminating biomarkers with a construction of different classifiers. Finally, we compare and validate their performance and robustness using different supervised classification methods such as Support Vector Machine, Linear Discriminant Analysis, Quadratic Discriminant Analysis, Neural Networks, Classification Trees and Boosting Trees. We show that the proposed method is suitable for analysing high-throughput proteomics data and that the combination of logistic regression and Linear Discriminant Analysis outperform other methods tested.

Coupling Proton Transfer Reaction−Mass Spectrometry with Linear Discriminant Analysis:  a Case Study

2003 ◽  
Vol 51 (25) ◽  
pp. 7227-7233 ◽  
Author(s):  
Franco Biasioli ◽  
Flavia Gasperi ◽  
Eugenio Aprea ◽  
Daniela Mott ◽  
Elena Boscaini ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Discriminant Analysis ◽  
Proton Transfer ◽  
Linear Discriminant Analysis ◽  
Transfer Reaction ◽  
Proton Transfer Reaction ◽  
Reaction Mass ◽  
Linear Discriminant

Rapid classification of enzymes in cleaning products by hydrolysis, mass spectrometry and linear discriminant analysis

2008 ◽  
Vol 22 (22) ◽  
pp. 3667-3672 ◽  
Author(s):  
Miriam Beneito-Cambra ◽  
José Manuel Herrero-Martínez ◽  
Ernesto F. Simó-Alfonso ◽  
Guillermo Ramis-Ramos
Keyword(s):  
Mass Spectrometry ◽  
Discriminant Analysis ◽  
Linear Discriminant Analysis ◽  
Linear Discriminant ◽  
Cleaning Products

Automatically Full Glycan Structural Determination with Logically Derived Sequence Tandem Mass Spectrometry

2019 ◽  
Author(s):  
Shang-Ting Tsai ◽  
Chia Yen Liew ◽  
Hsu Chen Hsu ◽  
Shih-Pei Huang ◽  
Wei-Chien Weng ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Tandem Mass Spectrometry ◽  
High Performance ◽  
De Novo ◽  
Bovine Milk ◽  
High Sensitivity ◽  
Tandem Mass ◽  
Structural Determination ◽  
Spectrum Measurement ◽  
Linkage Position

Here we show the full structures of glycans, including diastereomers and anomericity of each monosaccharide and linkage position of each glycosidic bond, can be determined using tandem mass spectrometry guided by a logically derived sequence (LODES). This new method provides de novo oligosaccharide structural identifications with high sensitivity and was applied to automatically in situ structural determination of the oligosaccharides eluted by high performance liquid chromatography. We showed that the structure of a given trisaccharide from trisaccharide mixture and bovine milk were determined from near three thousand isomers by using six to seven logically selected CID spectra. The entire procedure of mass spectrum measurement guided by LODES can be programmed in computer for automatically full glycan structural identification, a goal that remains a great challenge in glycan analysis.

Automatically Full Glycan Structural Determination with Logically Derived Sequence Tandem Mass Spectrometry

2019 ◽  
Author(s):  
Shang-Ting Tsai ◽  
Chia Yen Liew ◽  
Hsu Chen Hsu ◽  
Shih-Pei Huang ◽  
Wei-Chien Weng ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Tandem Mass Spectrometry ◽  
High Performance ◽  
De Novo ◽  
Bovine Milk ◽  
High Sensitivity ◽  
Tandem Mass ◽  
Structural Determination ◽  
Spectrum Measurement ◽  
Linkage Position

Here we show the full structures of glycans, including diastereomers and anomericity of each monosaccharide and linkage position of each glycosidic bond, can be determined using tandem mass spectrometry guided by a logically derived sequence (LODES). This new method provides de novo oligosaccharide structural identifications with high sensitivity and was applied to automatically in situ structural determination of the oligosaccharides eluted by high performance liquid chromatography. We showed that the structure of a given trisaccharide from trisaccharide mixture and bovine milk were determined from near three thousand isomers by using six to seven logically selected CID spectra. The entire procedure of mass spectrum measurement guided by LODES can be programmed in computer for automatically full glycan structural identification, a goal that remains a great challenge in glycan analysis.

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