Resources

Proteomics Databases



Metabolomics Databases

• • 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.

• • iTRAQ LC-MS/MS Quantitative Proteomics Workflow: Multiplexing, Accuracy, and Method Selection

  A practical guide to the iTRAQ LC-MS/MS workflow for quantitative proteomics, covering reporter ions, multiplexing, sample preparation, fractionation, quantitative accuracy, low-abundance detection, and method selection.

• • Co-IP for Low-Expression Proteins: Enrichment Strategies, IP-MS Sensitivity, and Experimental Troubleshooting

  A practical guide to performing co-immunoprecipitation for low-expression proteins, covering antibody choice, gentle lysis, cross-linking, washing, IP-MS sensitivity, contaminant control, and interaction validation.

• • Applications of 4D Proteomics in Tumor Biomarker Discovery

  Early cancer diagnosis and personalized treatment have become central challenges in precision medicine. The identification of tumor biomarkers with high specificity and sensitivity is critical for advancing early screening and therapeutic monitoring. Although proteomics has laid an important foundation for tumor biomarker discovery, it still faces limitations in sensitivity, proteome coverage, and data depth. Four-dimensional proteomics (4D proteomics) offers a promising solution to these challenges. ......

• • What Workflows Are Used in Endoplasmic Reticulum Proteomics?

  The endoplasmic reticulum (ER) is a major membrane-bound organelle that is involved in essential biological processes, including protein folding, lipid synthesis, calcium storage, and cellular stress responses. In proteomics research, characterizing the ER proteome and its dynamic changes is important for understanding cellular homeostasis and disease-related mechanisms, including ER stress and tumorigenesis. However, because of the structural complexity of the ER and its extensive interactions with o......