Resources

Proteomics Databases



Metabolomics Databases

• • Protein Identification and Quantification by Mass Spectrometry

  Mass spectrometry (MS) is a powerful analytical tool in bioinformatics research, enabling precise identification of protein species and quantification of their abundance. It plays a crucial role in deciphering biological complexity, investigating cellular processes, and advancing disease research. Protein Identification by Mass Spectrometry: Protein identification by mass spectrometry involves detecting and characterizing the proteins present in a given sample. The structural and functional diversity of....

• • Chemical Cross-Linking Mass Spectrometry Quality Control

  Mass spectrometry is a powerful analytical technique widely used to determine molecular mass, identify unknown compounds, quantify known compounds, and investigate chemical, biological, and physical processes. Among these approaches, chemical cross-linking mass spectrometry (XL-MS) has emerged as a critical tool for studying protein structures and interactions. However, rigorous quality control is essential to ensure the accuracy and reproducibility of XL-MS data. This review outlines key quality control...

• • Construction of Peptide Library and Mass Spectrometry Analysis

  A peptide library is a diverse collection of peptides that can be generated using multiple approaches, including solid-phase peptide synthesis, enzymatic synthesis, PCR amplification, and recombinant expression under sterile conditions. Construction of Peptide Libraries: Peptide libraries can be constructed using either random or directed synthesis methods. Random synthesis includes both completely random peptide libraries, which encompass all possible amino acid combinations, and partially random..........

• • What Detector Is Used for Mass Spectrometry in Proteomics

  Mass spectrometry has emerged as a key research area in proteomics. The identification, quantification, and analysis of proteins in complex biological samples rely on mass spectrometry. Within mass spectrometry applications, the selection of an appropriate detector is particularly critical. Electron Multiplier: The electron multiplier is a traditional detector in mass spectrometry, known for its high sensitivity through signal amplification via electron multiplication. It utilizes a high-voltage electric...

• • Does Protein Degradation Affect Mass Spectrometry Identification

  Mass Spectrometry for Protein Analysis is a crucial tool in biological research, allowing researchers to determine the composition and structural characteristics of proteins. However, protein degradation is a prevalent challenge that can significantly affect the accuracy of mass spectrometry-based protein identification. This article examines the impact of protein degradation on mass spectrometry analysis and discusses strategies to mitigate its effects.

• • Precautions and Challenges in Protein Ubiquitination Detection Experiments

  Protein ubiquitination is a post-translational modification process involving the sequential attachment of the small protein ubiquitin to target proteins. This process plays a crucial role in various biological events, including the cell cycle, signal transduction, immune responses, and protein degradation. However, studying protein ubiquitination presents several challenges, as discussed in this paper.

• • Histone Methylation Modification Types in Plants

  In botanical research, DNA methylation is a crucial epigenetic modification that regulates gene expression, maintains chromatin stability, and influences various biological processes such as development. In plant genomes, DNA methylation primarily occurs at the fifth carbon position of cytosine (C). Based on the sequence context following the cytosine, DNA methylation can be classified into three types:

• • Post-Translational Modification Proteomics Analysis

  Post-translational modification proteomics (PTM proteomics) refers to the comprehensive profiling of proteins in organisms, tissues, or cells that undergo post-translational modifications. These chemical alterations include, but are not limited to, phosphorylation, ubiquitination, acetylation, methylation, and glycosylation. Such modifications significantly enhance the functional diversity of proteins and play pivotal roles in numerous biological processes, including signal transduction, regulation of......

• • Mass Spectrometry Analysis of HLA Peptides

  Mass spectrometry is an analytical technique used to detect and characterize substances by measuring the mass and relative abundance of ionized molecules. In immunological research, it serves as a robust tool for both qualitative and quantitative analysis of peptides associated with Human Leukocyte Antigens (HLA). This paper provides a concise overview of the application of mass spectrometry in studying HLA peptides.

• • Is Protein Purification Required Before Mass Spectrometry

  Mass spectrometry analysis generally requires protein purification. This is because the results of mass spectrometry can be influenced by other substances in the sample, such as salts or elution buffers, which may interfere with the proteins and distort the mass spectrometry results. To achieve accurate mass spectrometry data, it is therefore essential to purify the proteins from the sample. Several methods exist for protein purification, including centrifugation, electrophoresis, and chromatography.