Resources

Proteomics Databases



Metabolomics Databases

• • How to Analyze Histone β-Hydroxybutyrylation by LC-MS/MS: Sample Prep, Enrichment, and Quantification

  A practical LC-MS/MS workflow for histone β-hydroxybutyrylation (Kbhb) analysis covering histone extraction, digestion, peptide enrichment, acquisition settings, site localization, and quantification.

• • Step-by-Step ABPP Experiment Protocol: Probe Design, Labeling, LC-MS/MS, and Activity Profiling

  A practical step-by-step ABPP protocol covering research objectives, activity-based probe selection, in vitro and in situ labeling, enrichment, LC-MS/MS acquisition, and activity profile analysis.

• • How ABPP Supports High-Throughput Compound Screening: Target Engagement, Off-Target Profiling, and Workflow Design

  A practical guide to how activity-based protein profiling (ABPP) supports high-throughput compound screening through competitive labeling, functional target validation, off-target profiling, and LC-MS/MS readouts.

• • SDS-PAGE Protein Detection Methods: Western Blot, Mass Spectrometry, and 2D-PAGE Beyond Gel Electrophoresis

  A practical guide to protein detection methods used with SDS-PAGE, including Western blot, mass spectrometry, 2D-PAGE, in-gel workflows, method selection, and common limitations.

• • Efficient and Accurate Protein Sequencing Methods: Mass Spectrometry, Edman Degradation, and Workflow Selection

  A practical guide to efficient and accurate protein sequencing methods, comparing mass spectrometry, Edman degradation, de novo interpretation, terminal analysis, and gene-based sequence inference for research and biopharma workflows.

• • Glycosylation Site Analysis in Protein Function Studies: LC-MS/MS Workflows, Site Occupancy, and Biological Interpretation

  A practical guide to glycosylation site analysis in protein function studies, covering N- and O-glycosylation, LC-MS/MS workflows, enrichment, site occupancy, glycoform interpretation, and disease or biopharma applications.

• • Cell Surface Proteomics Analysis: Enrichment Strategies, Membrane Protein Identification, and Biomarker Discovery

  A practical guide to cell surface proteomics analysis, covering biotinylation, shaving, membrane protein enrichment, DDA and DIA workflows, localization filtering, and biomarker discovery.

• • LC-MS/MS Protein Sequencing: Workflow, De Novo Interpretation, and Proteomics Applications

  A practical guide to LC-MS/MS protein sequencing, covering sample preparation, peptide fragmentation, database search, de novo interpretation, quantitative readouts, and applications in proteomics research.

• • Mass Spectrometry in Subcellular Proteomics: Organelle Fractionation, Localization, and Quantitative Analysis

  A practical guide to how mass spectrometry works in subcellular proteomics, covering organelle fractionation, LC-MS/MS workflows, protein localization, quantitative strategies, contamination control, and spatial proteomics applications.

• • TMT-Based Quantitative Proteomics: Multiplexing, MS3 Accuracy, and Workflow Design

  A practical guide to TMT-based quantitative proteomics, covering tandem mass tags, reporter ions, MS2 vs MS3 quantification, multiplex design, fractionation, and method selection for large comparative studies.