Quantitative Methods in Proteomics

Important Issues in Planning a Proteomics Experiment: Statistical Considerations of Quantitative Proteomic Data.- Good Old-Fashioned Protein Concentration Determination by Amino Acid Analysis.- Protein Quantification using the “Rapid Western Blot” Approach.- The Whereabouts of 2D Gels in Quantitative Proteomics.- Proteome Analysis with Classical 2D‑PAGE.- Silver Staining of 2D Electrophoresis Gels.- Differential Proteome Analysis using 2D-DIGE.- Quantitative Mass Spectrometry-Based Proteomics: An Overview.- Tandem Mass Tags for Comparative and Discovery Proteomics.- An Approach for Triplex-IPTL.- Targeted Protein Quantification Using Parallel Reaction Monitoring (PRM).- Quantitative Approach using Matrix Assisted Laser Desorption/Ionization Time of Flight (MALDI-ToF) Mass Spectrometry.- Application of SILAC Labeling in Phosphoproteomics Analysis.- Relative Quantification Of Phosphorylated and Glycosylated Peptides from the Same Sample using Isobaric Chemical Labelling with a Two-step Enrichment Strategy.- High Throughput Profiling of Proteome and Posttranslational Modifications by 16-plex TMT Labeling and Mass Spectrometry.- Quantification and Identification of Post-Translational Modifications using Modern Proteomics Approaches.- Affinity-enrichment Chemoproteomics for Target Deconvolution and Selectivity Profiling.- 2nSILAC for Quantitative Proteomics of Prototrophic Baker's Yeast.- Metabolic Labeling of Clostridioides difficile Proteins.- Application of Label-Free Proteomics for Quantitative Analysis of Urothelial Carcinoma and Cystitis Tissue.- Quantitative MS Workflow for a High-Quality Secretome Analysis by a Quantitative Secretome-proteome Comparison.- Establishing a Custom-Fit Data Independent Acquisition Method for Label Free Proteomics.- Label-free Proteomics Of Quantity-Limited Samples Using Ion Mobility-Assisted Data-Independent Acquisition Mass Spectrometry.- DIA-MSEto Study Microglial Function in Schizophrenia.- Detailed Method for Performing the ExSTA Approach in Quantitative Bottom-up Plasma Proteomics.- Quantitative Cross-Linking of Proteins and Protein Complexes.- Missing Value Monitoring to Address Missing Values in Quantitative Proteomics.- Quantitative Proteome Data Analysis of Tandem Mass Tags Labeled Samples.- Mining Protein Expression Databases Using Network Meta-Analysis.- A Tutorial for Variance-sensitive Clustering And The Quantitative Analysis Of Protein Complexes.- Automated Workflow for Peptide-level Quantitation from DIA/ SWATH-MS Data.