Resources

Proteomics Databases



Metabolomics Databases

• • Protein Analysis Mechanisms: How Extraction, Separation, Identification, and Quantification Work

  A practical guide to protein analysis mechanisms, including sample preparation, separation, LC-MS/MS identification, quantification, PTM analysis, structural methods, limitations, and method selection.

• • 4D Label-Free Quantitative Proteomics Workflow: From Sample Prep to Data Interpretation

  A practical guide to the 4D label-free quantitative proteomics workflow, including sample preparation, ion mobility, PASEF acquisition, data analysis, QC, and method limitations.

• • Protein Interaction Network Analysis for Disease Research and Target Discovery

  A practical guide to protein interaction network analysis, including disease mechanism research, drug target discovery, omics integration, method selection, and evidence-quality limits.

• • Experimental vs Computational Methods for Protein Interaction Detection

  Protein-protein interactions (PPIs) constitute the foundation of cellular functional networks, governing signal transduction, metabolic regulation, and disease pathogenesis. Elucidation of PPI networks not only advances our understanding of biological processes but also provides critical guidance for drug target discovery. Moreover, systematic investigation of PPIs offers essential insights into molecular mechanisms and supports the development of diagnostic and therapeutic strategies. With advances i......

• • SPR vs. BLI vs. ELISA: Comparing the Advantages and Limitations of Three Antibody Assay Techniques

  The investigation of antibody-antigen interactions represents a central component of life sciences, drug development, and immunodiagnostics. The selection of an appropriate analytical technique is critical for ensuring the accuracy of experimental results and the reliability of data interpretation. Surface Plasmon Resonance (SPR), Bio-Layer Interferometry (BLI), and Enzyme-Linked Immunosorbent Assay (ELISA) are currently among the most widely employed antibody detection methods. Each technique has dis......

• • How to Conduct Research on Mitochondrial Protein-Protein Interaction Networks?

  Mitochondria are traditionally regarded as the "powerhouse" of the cell; however, their roles extend far beyond ATP production. Recent studies indicate that mitochondria are also involved in critical cellular processes, including apoptosis, metabolic regulation, immune signaling, and oxidative stress responses. Mitochondrial functions rely on the coordinated interactions among thousands of proteins, and the protein-protein interaction (PPI) networks formed by these proteins provide a critical framewor......

• • How to Optimize LC-MS/MS Workflow for FFPE Proteomics?

  FFPE (Formalin-Fixed Paraffin-Embedded) samples represent the most stable and information-rich tissue resources in clinical research. Pathology archives contain extensive case histories and follow-up information, making them especially suitable for tumor subtyping, prognostic biomarker identification, and retrospective cohort validation. Nevertheless, many laboratories observe that, even when using the same instrument, identical gradients, and the same search parameters, the depth of protein identific......

• • How to Measure the Extinction Coefficient for Proteins and Formulations?

  UV-Vis guidance for extinction coefficients (molar absorptivity), A280 protein workflows, Beer–Lambert pitfalls, and orthogonal quantification options in biopharma.

• • PRM-Based Targeted Quantification of Plasma Samples

  Plasma is one of the most clinically valuable sample types in proteomics research because of its broad availability, ease of collection, and rich representation of systemic biological information. However, the plasma proteome spans a dynamic concentration range of up to 10 orders of magnitude, and high-abundance proteins, such as albumin and immunoglobulins, account for more than 90% of the total protein mass. As a result, low-abundance proteins, particularly potential disease biomarkers, are difficul......

• • From Principles to Applications: A Comprehensive Overview of PRM Technology

  In proteomics research, achieving precise, robust, and reproducible quantification of specific proteins or peptides has long been a central objective. Parallel Reaction Monitoring (PRM), a targeted mass spectrometry approach characterized by high specificity, high sensitivity, and high throughput, has increasingly emerged as an attractive alternative to conventional SRM/MRM methods and has been widely applied in cutting-edge areas such as biomarker validation, clinical research, and drug development. ......