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Proteomics Databases



Metabolomics Databases

• • SDS-PAGE vs. HPLC: Which Method Is More Suitable for Protein Purity Assessment?

  In proteomics research and biopharmaceutical development, protein purity assessment is a critical process for ensuring experimental reproducibility and product quality. SDS-PAGE (sodium dodecyl sulfate–polyacrylamide gel electrophoresis) and HPLC (high-performance liquid chromatography) are two widely used yet complementary analytical approaches, each characterized by specific strengths and limitations. This article examines their respective application scenarios, core technical features, and comparat......

• • Protein Structure Prediction for Unknown Proteins: From Sequence to Three-Dimensional Conformation

  In life sciences, the function of a protein is highly dependent on its three-dimensional structure. Predicting the structures of unknown proteins is not only a fundamental task in basic biology but also a critical step in drug discovery, disease mechanism elucidation, and target validation. In recent years, with the rapid advancement of computational methods and experimental technologies, inferring spatial conformations directly from linear amino acid sequences has become feasible. This article system......

• • Comprehensive Overview of HPLC-Based Techniques for Protein Purity Analysis

  Protein purity assessment is a critical step in ensuring the reliability of downstream applications and the overall quality of biopharmaceutical products. High-performance liquid chromatography (HPLC), due to its high resolution, accuracy, and reproducibility, has become a cornerstone in protein purity analysis. This article provides an in-depth overview of the fundamental principles, methodological advantages, and commonly employed HPLC modes for protein purity determination. Fundamental Principles ......

• • How to Select an Appropriate PPI Detection Technique?

  Protein–Protein Interactions (PPIs) form the foundation of most cellular processes. From signal transduction and transcriptional regulation to metabolic networks, PPI networks illuminate the dynamic regulatory mechanisms underlying protein functions and biological pathways. Accurate detection and characterization of PPIs are therefore of paramount importance in elucidating disease mechanisms, identifying novel therapeutic targets, and facilitating drug development. A wide range of PPI detection method......

• • Principles and Common Analytical Techniques for Protein Purity Assessment

  In the realms of life sciences and biopharmaceuticals, protein purity represents a critical determinant of experimental success and manufacturing reliability. Whether intended for fundamental research or downstream applications such as vaccine production, antibody generation, or therapeutic protein development, accurate assessment of target protein purity is essential. Protein purity analysis not only verifies the success of purification processes but also reveals the nature and extent of impurities, ......

• • Advantages and Disadvantages of Protein Structure Determination Methods

  Information on the spatial structure of proteins is of irreplaceable importance for elucidating their biological functions, clarifying mechanisms of action, and facilitating the development of targeted therapeutics. Currently, the most commonly used methods for protein structure determination include X-ray crystallography, nuclear magnetic resonance (NMR), cryo-electron microscopy (Cryo-EM), and artificial intelligence–based prediction tools such as AlphaFold. X-ray Crystallography X-ray crystallogra......

• • What Is the Difference Between HRMS and LC-MS?

  High-resolution mass spectrometry (HRMS) and liquid chromatography–mass spectrometry (LC-MS) are among the most widely used techniques in modern analytical chemistry and life sciences. HRMS and LC-MS are not mutually exclusive but represent technical frameworks defined from different perspectives, with potential overlap (e.g., HRMS combined with LC = LC-HRMS). Clarifying their distinctions helps researchers select the most suitable analytical strategy according to experimental objectives. HRMS vs. LC......

• • What Is High-Resolution Mass Spectrometry in the Determination of Molecular Formulas?

  In the screening of disease metabolites, the elucidation of drug metabolic pathways, and the separation of active constituents from natural products, determining the molecular formula represents the first step in structural characterization. This step establishes a solid foundation for subsequent structural inference, synthetic pathway design, and even functional validation. However, conventional mass spectrometry, limited by resolution and mass accuracy, often fails to differentiate compounds with ne......

• • How Can SPS-MS3 Be Utilized to Optimize TMT Workflows and Minimize Ratio Compression?

  Tandem Mass Tags (TMT) are an isotope-labeling technology widely employed in high-throughput quantitative proteomics, enabling parallel analysis of multiple samples (currently supporting up to 18-plex). This approach has demonstrated substantial advantages in elucidating disease mechanisms, understanding drug modes of action, and identifying clinical biomarkers. However, ratio compression remains one of the most critical technical bottlenecks in TMT quantification. Co-eluting peptides at the MS2 stage......

• • How to Choose the Appropriate TMT Quantification Platform?

  As proteomics research advances, researchers are increasingly confronted with larger sample sizes, particularly in application scenarios such as integrated multi-omics analysis, disease cohort studies, and drug screening. This has driven a growing demand for quantitative techniques that combine high throughput with high accuracy. Among the available strategies, tandem mass tag (TMT)–based quantification has emerged as one of the most widely adopted approaches in quantitative proteomics, owing to its e......