Resources

Proteomics Databases



Metabolomics Databases

• • Applications of LC-MS in Quantitative Proteomics

  Proteomics, a critical branch of life sciences, aims to comprehensively elucidate the expression, modification, and interactions of proteins within cells, tissues, or organisms. Quantitative proteomics further advances biomedical research, drug discovery, and the investigation of disease mechanisms. Among the analytical techniques employed, Liquid Chromatography–Mass Spectrometry (LC-MS/MS) has emerged as a central tool in quantitative proteomics due to its high sensitivity, high throughput, and extensive..

• • Mass Spectrometry-Based Quantitative Proteomics Analysis: Principles and Applications

  In the post-genomic era, quantitative proteomics has become an essential tool for deciphering the complexity of biological systems, elucidating disease mechanisms, and identifying biomarkers. Among various approaches, mass spectrometry-based quantitative proteomics stands out due to its high sensitivity, large throughput, and accurate quantification, making it widely applicable in both basic research and biopharmaceutical development. This review systematically summarizes the fundamental principles.......

• • Comparison of Protein Quantification Methods: iTRAQ, SILAC, AQUA, and Label-Free Quantification Techniques

  In contemporary life science research, protein quantification serves as a crucial tool for elucidating biological mechanisms, identifying disease biomarkers, and investigating drug mechanisms of action. Compared to conventional protein expression analysis techniques such as Western blotting and ELISA, mass spectrometry (MS)-based quantitative proteomics offers distinct advantages, including high throughput, superior sensitivity, and strong multiplexing capabilities. As a result, it has become a core .......

• • How to Master De Novo Sequencing and Achieve Accurate Protein Identification

  De novo sequencing is a crucial technique in proteomics research, particularly applicable to biological systems that lack reference databases or contain unknown protein variants. In contrast to database-dependent mass spectrometry identification, de novo sequencing deciphers peptide ion information directly from mass spectrometry data to deduce amino acid sequences, thereby enabling more comprehensive and precise protein identification. Principles and Advantages of De Novo Sequencing De novo sequencing.....

• • Advantages and Applications of De Novo Sequencing

  In proteomics research, the majority of mass spectrometry data analysis relies on database search approaches, which match experimental spectra with known protein sequences. De novo sequencing, a methodology that does not depend on any reference databases, has emerged as a powerful tool for elucidating previously unknown protein structures and functions. Core Advantages of De Novo Sequencing 1. Fully Independent of Reference Databases De novo sequencing derives peptide amino acid sequences directly from.....

• • Key Technologies and Challenges in De Novo Sequencing

  In proteomics research, spectral data are typically interpreted by matching them against existing protein databases. However, in advanced applications such as studies of non-model organisms, the discovery of novel protein modifications, single-cell proteomics, and antibody characterization, these databases often fail to provide adequate coverage. As a result, de novo peptide sequencing has emerged as a critical technique for deciphering unknown protein sequences. De novo sequencing is a methodology that....

• • De Novo Peptide Sequencing via Tandem Mass Spectrometry

  In proteomics research, database-dependent mass spectrometry data analysis (database search) has become the predominant approach. However, in emerging fields such as non-model organisms, natural products, antibody engineering, and novel peptide therapeutics, the absence or incompleteness of reference databases limits the applicability of traditional methods. In such cases, de novo peptide sequencing—a technique that reconstructs peptide amino acid sequences directly from mass spectrometry data without......

• • What Is Protein Quantification Assay?

  Protein quantification refers to the process of measuring the amount or relative abundance of proteins in a given sample. This assay plays a crucial role in proteomics, biomarker discovery, and elucidation of drug mechanisms. By quantifying protein expression under different conditions, researchers can gain deeper insights into cellular function, disease progression, and therapeutic responses. Main Types of Protein Quantification Assays 1. Total Protein Quantification This is the most fundamental form of...

• • Protein Quantification Technologies: Methods, Advantages, and Applications

  In contemporary biomedical research, proteins are considered direct effectors of cellular function. Whether investigating the molecular mechanisms underlying diseases or developing strategies in precision medicine, researchers must gain a deep understanding of how protein expression changes under varying conditions. As such, protein quantification technologies have become an indispensable component of modern life science research. Scientific Significance of Protein Quantification Protein quantification.....

• • Label-Free Protein Quantification Methods: Advantages and Limitations

  In contemporary life sciences research, proteomics is transitioning from a focus on “qualitative identification” to a new phase emphasizing “quantitative analysis.” Quantitative proteomics enables the investigation of dynamic changes in protein expression levels under varying treatment conditions, thereby allowing researchers to gain deeper functional insights into biological processes. Among the various quantitative proteomic approaches, Label-Free Quantification (LFQ) has emerged as one of the fastest....