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Proteomics Databases



Metabolomics Databases

• • How to Use De Novo Sequencing for Antibody Structure Analysis?

  De Novo sequencing refers to determining amino acid sequences directly from protein samples based on MS/MS fragment ion data acquired using high-resolution mass spectrometry, without relying on any reference databases. The core of this technique lies in digesting the protein into numerous short peptides that collectively cover the full sequence, interpreting the corresponding fragment spectra with specialized algorithms, and assembling these sequences to reconstruct the full-length light and heavy chains...

• • Application of AQUA Technology in Protein Research

  With life science research increasingly shifting toward precision and quantitative analysis, the importance of proteins as functional biomolecules has become more pronounced. Whether investigating disease mechanisms or developing therapeutic strategies, the accurate determination of protein expression levels and their dynamic changes is a critical prerequisite for scientific discovery. AQUA (Absolute Quantification), an absolute quantification mass spectrometry method based on stable isotope-labeled........

• • Applications and Challenges of SILAC Labeling in Quantitative Proteomics

  In quantitative proteomics, the ability to accurately and reproducibly measure protein abundance changes across different samples is crucial for uncovering underlying biological mechanisms. Stable Isotope Labeling by Amino acids in Cell culture (SILAC), a well-established metabolic labeling technique, introduces heavy isotope-labeled amino acids during cell growth, enabling high-precision and systematic quantification of proteins. This paper discusses the applications of SILAC in quantitative proteomics....

• • iTRAQ Quantification Technology: Principles, Advantages, and Applications

  In proteomics research, the accurate and sensitive comparison of protein abundance across different samples is crucial for elucidating underlying biological mechanisms. iTRAQ (Isobaric Tags for Relative and Absolute Quantitation), a mass spectrometry-based multiplex quantification technique, has become a pivotal tool in life sciences due to its high throughput, precision, and wide applicability. This paper systematically introduces the principles, key advantages, and major applications of iTRAQ technology.

• • 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....