Resources

Proteomics Databases



Metabolomics Databases

• • Activity-Based Protein Profiling in Drug Discovery: Target Identification, Selectivity, and Mechanism Studies

  A practical guide to activity-based protein profiling (ABPP) in drug discovery, including probe design, competitive ABPP, target identification, selectivity profiling, mechanism-of-action studies, and biomarker discovery.

• • Bottom-Up Proteomics in Single-Cell Proteomics: Challenges, Solutions, and Opportunities

  A practical guide to bottom-up single-cell proteomics, covering sample loss, microfluidics, TMT carrier channels, LC and CE separation, DIA acquisition, missing values, and data analysis.

• • Protein Expression Profiling: Quantitative Proteomics Workflow, Applications, and Method Selection

  A practical guide to protein expression profiling using LC-MS/MS quantitative proteomics, covering sample preparation, label-free and DIA workflows, data analysis, biomarkers, drug targets, and study design.

• • Glycoproteomics in Neuroscience: Mapping Neural Glycosylation, Biomarkers, and Drug Targets

  A practical guide to glycoproteomics in neuroscience, covering neural glycoproteins, glycopeptide enrichment, LC-MS/MS analysis, disease biomarkers, neurodevelopmental studies, and target discovery.

• • Protein Amino Acid Sequence Determination: Edman Degradation, MS Sequencing, and Method Selection

  A practical guide to protein amino acid sequence determination, including Edman degradation, LC-MS/MS protein sequencing, de novo sequencing, terminal sequencing, applications, limitations, and method selection.

• • Proteomics Data Quality Assessment Workflow: QC Metrics, Filtering, and Validation

  A practical guide to proteomics data quality assessment, covering preprocessing, filtering, normalization, statistical QC, missing values, batch effects, validation, and reporting.

• • How to Reduce Sample Degradation in FFPE Proteome Profiling?

  In clinical research and translational medicine, FFPE (Formalin-Fixed Paraffin-Embedded) samples are valuable resources for tumor research, elucidation of disease mechanisms, and biomarker discovery, owing to their long-term stability and comprehensive associated clinical data. Nevertheless, protein degradation and crosslinking modifications in FFPE samples remain critical challenges that limit the quality of proteomic analyses. Underlying Causes of Protein Degradation in FFPE Samples 1. Crosslinking......

• • How to Analyze Histone Butyrylation by LC-MS/MS?

  Histone modifications represent a fundamental aspect of epigenetic regulation. Among these, butyrylation, an emerging short-chain fatty acid-derived post-translational modification (PTM), has been increasingly recognized for its roles in gene regulation, metabolic homeostasis, and disease development. Liquid chromatography-tandem mass spectrometry (LC-MS/MS) enables not only precise identification of modification sites but also quantitative comparison of butyrylation levels across different biological......

• • Antibody Peptide Mapping by LC-MS/MS: Workflow, Applications, and Quality Attributes

  A practical guide to antibody peptide mapping by LC-MS/MS, including digestion, peptide separation, sequence coverage, PTM identification, degradation monitoring, biosimilar comparability, and QC considerations.

• • What Is Label-Free Analysis? LFQ Principles, Workflow, Advantages, and Limitations

  A practical guide to label-free analysis and label-free quantification (LFQ), including MS1 intensity, spectral counting, LC-MS/MS workflow, normalization, missing values, batch effects, and comparison with labeling approaches.