Resources

Proteomics Databases



Metabolomics Databases

• • Cell Supernatant Proteomics

  Scope Cell supernatant proteomics enables the systematic identification of secreted proteins present in the extracellular environment. These proteins often play critical roles in intercellular communication, immune responses, and disease progression. Identifying secreted proteins in the cell supernatant provides valuable insights into extracellular signaling pathways and cellular responses under various physiological and pathological conditions.   Quantitative analysis of proteins allows researchers t......

• • Comparison of Peptide Content Determination Methods

  Peptide content determination methods play a critical role in fields such as biomedical research, drug development, and protein engineering. Accurate quantification of peptide content facilitates a deeper understanding of their biological functions, supports dose-response evaluations in pharmacology, and ensures quality control throughout production processes. Currently, several primary peptide content determination methods are widely employed, each with distinct principles, advantages, and limitation......

• • How to Analyze Quantitative Proteomics Data

  To analyze quantitative proteomics data is to engage in a complex, multi-step process that spans from raw data preprocessing to statistical evaluation and biological interpretation. The following outlines a typical analytical workflow:   1. Data Preprocessing Mass spectrometry data processing begins with software tools such as MaxQuant or Proteome Discoverer, which perform critical steps including peak detection, charge state deconvolution, and mass calibration.   Protein identification is conducted b......

• • O-Glycosylation Detection

  O-glycosylation detection is essential for understanding one of the most prevalent forms of post-translational modification (PTM) found in proteins and peptides. O-glycosylation involves the covalent attachment of a sugar moiety—commonly N-acetylgalactosamine (GalNAc), galactose, or xylose—to the hydroxyl group of serine (Ser) or threonine (Thr) residues via an O-glycosidic bond. This modification plays a critical role in regulating protein function, stability, and intercellular communication. Aberran......

• • Methods for Protein Purity Determination

  Methods for protein purity determination must be carefully selected and accurately applied to obtain reliable analytical data. The accuracy of purity assessment has a direct impact on the reproducibility and interpretability of subsequent experiments. Several widely used methods for protein purity determination are outlined below.   SDS-Polyacrylamide Gel Electrophoresis (SDS-PAGE) 1. Principle SDS-PAGE separates proteins in a mixture based on their molecular weight. Proteins are denatured and uniform......

• • Advances in Protein Research: Recombinant Expression, Purification, and Identification

  In the field of biopharmaceuticals, proteins play a critical role in drug development processes. Through protein research, scientists can better understand protein structures and functions, and assess whether a given protein meets specific therapeutic or experimental requirements. Recent studies have reported significant advances in the areas of recombinant protein expression, purification, and identification. This article provides a detailed overview of these developments, with a particular focus on ......

• • Cross-Linking Mass Spectrometry Techniques

  Cross-linking mass spectrometry techniques integrate chemical cross-linking with mass spectrometry analysis to investigate spatial interactions between proteins and to elucidate the architecture of protein complexes. By applying cross-linkers containing reactive groups that form stable covalent bonds between neighboring amino acid residues within or between proteins, XL-MS enables the capture and identification of these interactions. This, in turn, provides valuable insights into the three-dimensional......

• • Post-IP Mass Spectrometry Analysis

  Post-IP mass spectrometry analysis is a powerful integrative technique for identifying the components of protein complexes and investigating protein–protein interactions. This approach begins with the immunoprecipitation (IP) of a target protein and its potential interaction partners using a specific antibody, followed by mass spectrometry (MS) to identify the co-precipitated proteins and examine their potential post-translational modifications. The key steps and considerations of this workflow are ou......

• • Determination of Protein Molecular Weight by Electrophoresis

  The determination of protein molecular weight by electrophoresis is a widely employed laboratory technique, most commonly performed using sodium dodecyl sulfate–polyacrylamide gel electrophoresis (SDS-PAGE). This method leverages the ability of SDS (sodium dodecyl sulfate) to bind uniformly to proteins, conferring a consistent negative charge and enabling separation based on molecular weight. The following outlines the fundamental principles and procedural steps of this method:   Principle 1. Role of ......

• • High Throughput Single Cell Sequencing

  High throughput single cell sequencing enables comprehensive profiling of the genome, transcriptome, and epigenome at the resolution of individual cells. This technique has demonstrated considerable utility in medical research, particularly in oncology. Tumors typically consist of highly heterogeneous cell populations. By applying single cell sequencing, researchers can identify distinct subpopulations within tumors and gain deep insights into their unique gene expression profiles and mutational landscapes.