Resources

Proteomics Databases



Metabolomics Databases

• • Quantitative and Qualitative Analysis of Proteins

  Quantitative and qualitative analysis of proteins is fundamental to understanding biological functions and mechanisms. As key regulators of cellular processes, proteins undergo changes in abundance and structural modifications that directly influence physiological and pathological states. Quantitative analysis primarily focuses on determining protein concentration, enabling researchers to investigate expression variations under different conditions. For instance, comparing protein concentrations betwe......

• • Qualitative Mass Spectrometry

  Qualitative mass spectrometry is an advanced analytical method used for the qualitative characterization of proteins within samples by employing mass spectrometry. As a robust tool, mass spectrometry allows for the identification and characterization of proteins present in complex mixtures. By measuring the mass-to-charge ratio (m/z) of protein molecules and integrating bioinformatics analysis, this approach can elucidate both the protein composition and structural details within a sample. The scope o......

• • PTM Mass Spec

  PTM mass spec is an advanced technique used to examine the modifications proteins undergo after translation. PTMs are chemical changes occurring on specific amino acids during or after protein synthesis, through enzymatic or non-enzymatic processes. These modifications are vital for regulating protein function, stability, and cell signaling. PTMs include phosphorylation, acetylation, methylation, glycosylation, ubiquitination, and carboxylation, among others. By enhancing chemical diversity, PTMs modu......

• • Qualitative Determination of Proteins

  Qualitative determination of proteins refers to the process of identifying and characterizing proteins within a sample, playing a fundamental role in proteomics research. This analytical approach is essential for understanding biological functions and molecular mechanisms. In basic research, it aids in elucidating cellular structures and regulatory pathways, providing critical insights into disease mechanisms. Beyond fundamental studies, qualitative determination of proteins has extensive applications......

• • Proteomics: Top-Down & Bottom-Up

  Proteomics top-down & bottom-up are two fundamental strategies in modern proteomics research and are widely applied in mass spectrometry-based analyses. Top-down proteomics directly analyzes intact protein molecules to determine their sequences and post-translational modifications (PTMs). In contrast, bottom-up proteomics involves enzymatic digestion of proteins into peptides, which are then analyzed via mass spectrometry to reconstruct protein sequences. This approach is particularly suitable for hig......

• • 6 Essential Native MS Strategies to Enhance Your Data Quality

  Native MS serves as a powerful tool for in situ characterization of complex biological assemblies, such as protein complexes and nucleic acid-protein interactions, by preserving their native conformation and non-covalent interactions. However, the sensitivity and reliability of native MS data heavily depend on the optimization of experimental conditions and analytical strategies. This article outlines 6 critical strategies covering the entire workflow—from sample preparation and instrumental settings ......

• • O-Link Proteomics

  O-Link Proteomics is a cutting-edge research methodology leveraging proximity extension assay (PEA) technology to conduct high-throughput and precise measurements of protein dynamics in biological processes. Developed by Olink, this PEA platform allows for the simultaneous quantification of multiple protein expressions. A hallmark of O-Link Proteomics is its high sensitivity and specificity. Traditional proteomics approaches often require large sample volumes and struggle with low detection limits and......

• • Experimental Design and Data Interpretation in Native Mass Spectrometry

  Native mass spectrometry is an analytical technique that investigates the structure and interactions of biomacromolecules (e.g., proteins, protein complexes, and nucleic acid-protein complexes) under conditions that closely mimic physiological environments. Unlike conventional denaturing mass spectrometry, this approach relies on gentle sample preparation and ionization conditions to preserve the native conformations and non-covalent interactions of biomolecules. Over the past decades, native mass spe......

• • Comparison and Advantages of Native Mass Spectrometry over Other MS Techniques

  Mass spectrometry has long been a fundamental analytical tool in modern life sciences and biomedical research, enabling the structural and functional characterization of biomolecules such as proteins and nucleic acids. Based on the preservation or disruption of biomolecular native states, mass spectrometry can be broadly classified into native mass spectrometry and denatured mass spectrometry. What distinguishes these two approaches? In what research contexts are they most suitable? This review provid......

• • De Novo Protein Sequencing: From Experimental Design to Data Interpretation

  De novo protein sequencing does not require a reference genome or database and directly determines the primary structure of proteins (amino acid sequence). Although significant progress has been made in recent years, several challenges persist, including the accuracy of sequence analysis, the difficulties associated with sequencing complex samples, the impact of post-translational modifications (PTMs), and computational complexity. This paper explores the primary challenges of de novo protein sequenci......