Resources

Proteomics Databases



Metabolomics Databases

• • Parallel Reaction Monitoring (PRM): Principles, Workflow, and Applications

  Parallel reaction monitoring (PRM) is a targeted quantitative proteomics technique based on high-resolution mass spectrometry. In recent years, it has gained widespread application in functional protein studies, biomarker validation, and targeted quantification within complex biological matrices. Compared to multiple reaction monitoring (MRM), PRM offers significant advantages in specificity, resolution, and interference resistance, making it particularly suited for high-precision quantification of ta......

• • String Proteomics

  STRING proteomics is a computational approach leveraging the STRING database to analyze protein-protein interaction (PPI) networks. In cellular environments, proteins rarely function in isolation; instead, they engage in intricate interaction networks to regulate biological processes. By integrating large-scale experimental data, computational predictions, and bioinformatics methodologies, STRING proteomics systematically characterizes protein interactions, offering insights into functional networks, ......

• • A Comprehensive Overview of the Application of Protein Full-Length Sequencing in Synthetic Biology

  Synthetic biology has witnessed rapid advancements in recent years, and protein full-length sequencing has emerged as a critical tool supporting this progress. With its significant potential in fields such as medicine, agriculture, and energy, synthetic biology is redefining the boundaries of traditional bioengineering—from engineering microorganisms to produce high-value compounds to constructing artificial organelles.   A critical component in this progression is the accurate analysis and validation......

• • A Guide to Antibody Drug Development: How Can Protein Full-Length Sequencing Resolve Challenges in CDR Identification?

  Protein full-length sequencing can resolve the challenges in CDR identification in antibody drug development. In antibody drug development, the precise identification of complementarity-determining regions (CDRs) is critical. As the determinants of antigen specificity, CDRs serve as the structural foundation for affinity engineering, candidate screening, and intellectual property claims. However, due to the inherent sequence diversity and structural complexity of CDRs, accurate resolution has long bee......

• • Protein Full-Length Sequencing: Principles and Applications

  Protein full-length sequencing plays a fundamental role in life sciences research and biopharmaceutical development by enabling the decoding of a protein’s primary structure—that is, the linear sequence of amino acids—which is essential for understanding its function, validating its expression, and confirming structural consistency. Conventional protein identification methods primarily depend on known genes or database support, which presents limitations when analyzing unknown proteins, synthetic cons......

• • Protein Full-Length Sequencing Workflow: From Sample Preparation to Data Interpretation

  Protein full-length sequencing, including top-down and de novo protein sequencing approaches, has emerged as a precise and comprehensive strategy for acquiring complete protein sequence information. As proteins are central executors of biological function, their amino acid sequences are critical for elucidating structural features, functional roles, and post-translational modifications (PTMs). Traditional protein identification methods often rely on database matching, which limits their utility in cha......

• • Expression Proteomics

  Expression proteomics, a vital branch of proteomics, investigates protein expression dynamics in cells, tissues, and body fluids. By quantifying protein expression profiles under various physiological and pathological conditions, it provides essential insights into disease mechanisms, drug development, biomarker discovery, and precision medicine. Compared to genomics, expression proteomics offers a more direct representation of an organism’s functional state, as proteins are the primary executors of c......

• • Flow Cytometry-Mass Spectrometry

  Flow cytometry-mass spectrometry (FC-MS) is an innovative single-cell analytical technique that integrates flow cytometry with mass spectrometry, enabling high-throughput and multiparametric analysis of complex cell populations. Traditional flow cytometry relies on fluorescently labeled antibodies to detect cell surface or intracellular proteins, but the spectral overlap of fluorophores limits the number of simultaneously measurable proteins. FC-MS overcomes this limitation by employing metal isotope-......

• • Data Independent Analysis

  Data independent analysis is an advanced mass spectrometry (MS) data acquisition strategy that has gained significant importance in proteomics research. Traditional MS acquisition methods, such as data dependent analysis (DDA), selectively fragment and analyze peptides based on predefined criteria. However, these approaches are limited by their reliance on peak intensity and stochastic sampling, which can lead to the omission of low-abundance proteins or those present in complex mixtures. In contrast,......

• • Dimethyl Labeling

  Dimethyl labeling is a highly efficient chemical labeling technique widely used in quantitative proteomics. This method relies on the chemical modification of amine groups on peptide N-termini and lysine side chains through reductive amination using formaldehyde and sodium cyanoborohydride under alkaline conditions. This reaction generates peptides with three distinct mass labels—light, medium, and heavy—allowing simultaneous differentiation and quantification of samples within a single mass spectrome......