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2-D Page Map Analysis: Methods and Protocols
Paperback
Series: Methods in Molecular Biology, Book 1384
BiologyChemistryGeneral Science
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ISBN13: 9781493949496
Publisher: Humana
Published: Aug 23 2016
Pages: 331
Weight: 1.33
Height: 0.72 Width: 7.01 Depth: 10.00
Language: English
Part I: 2D-Maps Reproducibility and Maps Modeling
1. Sources of Experimental Variation in 2D-Maps: The Importance of Experimental Design in Gel-Based Proteomics
Cristina-Maria Valcu and Mihai Valcu
Maria Chiara Pietrogrande, Nicola Marchetti, and Francesco Dondi 3. Two-Dimensional Gel Electrophoresis Image Analysis via Dedicated Software Packages
Daniela Cecconi 5. Image Pretreatment Tools I: Algorithms for Maps Denoising and Background Subtraction Methods
Carlo Vittorio Cannistraci and Massimo Alessio 6. Image Pretreatment Tools II: Normalization Techniques for 2DE and 2D-DIGE
Emilio Marengo and Elisa Robotti 7. Spot Matching of 2-DE Images Using Distance, Intensity, and Pattern Information
Hua-Mei Xin and Yuemin Zhu 8. Algorithms for Warping of 2D-PAGE Maps
Marcello Manfredi, Elisa Robotti, and Emilio Marnego 9. 2-DE Gel Analysis: The Spot Detection
Simona Martinotti and Elia Ranzato 10. GENOCOP Algorithm and Hierarchical Grid Transformation for Image Warping of Two Dimensional Gel Electrophoretic Maps
Elisa Robotti, Marco Demartini, and Emilio Marengo 11. Detection and Quantification of Protein Spots by Pinnacle
Jeffrey S. Morris and Howard B. Gutstein 12. A Novel Gaussian Extrapolation Approach for 2D Gel Electrophoresis Saturated Protein Spots
Massimo Natale, Alfonso Caiazzo, and Elisa Ficarra Part III: Statistical Methods Applied to Spot Volume Datasets to Identify Candidate Biomarkers 13. Multiple Testing and Pattern Recognition in 2DE Proteomics
Sebastien C. Carpentier 14. Chemometric Multivariate Tools for Candidate Biomarkers Identification: LDA, PLS-DA, SIMCA, Ranking-PCA
Elisa Robotti and Emilio Marengo Part IV: Differential Analysis from Direct Image Analysis Tools 15. The Use of Legendre and Zernike Moment Functions for the Comparison of 2D-PAGE Maps
Elisa Robotti, Marco Demartini, and Emilio Marengo 16. Nonlinear Dimensionality Reduction by Minimum Curvilinearity for Unsupervised Discovery of Patterns in Multidimensional Proteomic Data
Massimo Alessio and Carlo Vittorio Cannistraci 17. Differential Analysis of 2D-Maps by Pixel-Based Approaches
Emilio Marengo and Elisa Robotti
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