●Qualitative Proteomics: Uses LC-MS/MS to identify protein composition in complex samples (SDS-PAGE gel strips, IP, Co-IP, Pull-down). Advantages: No sample number limit, fast detection, simple sample processing, high throughput, and capability to detect low-abundance proteins.
● Label Free Quantitative Proteomics: Non-labeled technology with individual sample detection. Quantifies proteins by comparing peptide signal intensities in mass spectrometry data. Advantages: Simple operation, high throughput (no sample number limit), and wide applicability (suitable for "presence/absence" differential protein comparison across species).
● DIA Quantitative Proteomics: Adopts data-independent acquisition (DIA) mode, scanning all ions in segmented windows to capture complete ion information. Advantages: Better repeatability, higher protein coverage, and more accurate quantification than DDA mode (TMT/Label Free), ideal for large-sample studies.
● 4D-Label Free Quantitative Proteomics/4D-DIA Quantitative Proteomics: Based on Bruker timsTOF mass spectrometer, adding ion mobility (collision cross-section) to traditional 3D separation. Advantages: Improved ion utilization and accuracy, comprehensive enhancement in coverage depth, sensitivity and throughput; higher identification depth than traditional 3D method.
● Astral Label Free Quantitative Proteomics/Astral DIA Quantitative Proteomics: Based on OrbitrapTM AstralTM high-resolution mass spectrometer. Advantages: Higher throughput (100+ samples/day with 8-min gradient), deeper coverage (8,000+ proteins detected in Hela cells in 8 min), and higher sensitivity (less sample required).
● TMT Quantitative Proteomics: Uses 18 isotope tags to label peptides for simultaneous detection of 18 samples. Advantages: High stability (minimal instrument stability interference, small system error) and high sensitivity (fractionation reduces sample complexity, improving low-abundance protein detection).
● PRM Targeted Proteomics: High-resolution targeted technology for selective detection of target proteins/peptides. Advantages: Enables relative/absolute quantification and verification of quantitative proteomics results; no antibody restriction, wider applicability than Western Blot and ELISA.
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