Resources

Proteomics Databases



Metabolomics Databases

• • 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.

• • 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......

• • 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.

• • How Many Blood Proteome Samples Are Generally Needed for Detection

  Blood proteomics is the scientific study focused on analyzing the complete set of proteins present in whole blood, plasma, serum, or blood cells. The determination of the required number of samples for a study in blood proteomics is largely dependent on the specific aims and methodologies of the research. For instance, exploring biomarkers for rare diseases across large populations may necessitate hundreds to thousands of samples, whereas research on common diseases might require only a few dozen samples.

• • Proteomics Commonly Used Mass Spectrometry

  Proteomics is a field of study focused on understanding the structure and function of the entire proteome. This encompasses various aspects such as protein expression, post-translational modifications, interactions, and functional roles. The primary technique employed in proteomics research is mass spectrometry, a method capable of analyzing the molecular mass, structural characteristics, and chemical modifications of proteins.

• • What Measurements Does Proteomics Include

  Proteomics is the scientific discipline focused on the large-scale study of proteins, particularly their structures, functions, expression patterns, and interactions within cells, tissues, or entire organisms. The ultimate aim is to obtain a comprehensive understanding of these proteins. Proteomics involves various analytical and technological methodologies, as highlighted below.

• • What Are the Methods for Label-Free Quantitative Proteomics Analysis

  Label-Free Quantitative Proteomics (LFQ) is a technique used for determining relative protein quantities without the necessity for labeling or isotope tags. This method quantifies proteins by directly comparing the mass spectrometry signals across different samples. The following are several prevalent LFQ methods: Peak Area or Intensity-Based Methods: This approach quantifies protein abundance by comparing the mass spectrometry peak areas or intensities of identical peptide fragments across samples.

• • Quantitative Phosphoproteomics Requires the Amount of Peptides

  In quantitative phosphoproteomics analysis, peptide abundance is a critical factor, as it directly impacts the sensitivity, reproducibility, and quantitative accuracy of the experiments. The following are key considerations and suggestions: Sample Preparation: 1. Protein Extraction: Extract total proteins from cell or tissue samples, typically requiring several milligrams. 2. Protein Digestion: Using proteolytic enzymes like trypsin, digest the proteins into peptides. Generally, 1-5 mg of protein can yield

• • Proteomics Clustering Analysis

  Proteomics clustering analysis is a widely utilized statistical method for examining protein expression patterns and functions. By categorizing proteins with similar attributes, researchers can gain deeper insights into their roles and interactions. Steps in Proteomics Clustering Analysis: 1. Data Collection: Researchers initially gather protein expression data, often through techniques such as mass spectrometry or two-dimensional electrophoresis. 2. Data Preprocessing: This step involves preprocessing the

• • Is Labeling Required for 4D-DIA Quantitative Proteomics

  4D-DIA (Four-Dimensional Data-Independent Acquisition) is an innovative proteomics technique designed for comprehensive quantitative protein analysis. This method synergizes four dimensions of information: time, ion mobility, mass, and intensity, thereby enhancing the accuracy and efficiency of protein identification and quantification. In the context of 4D-DIA proteomics, conventional chemical labeling methods such as iTRAQ or TMT are generally not necessary for quantification. The critical steps and......