Resources

Proteomics Databases



Metabolomics Databases

• • How Does β-Hydroxybutyryl-CoA Drive Histone Kbhb Formation?

  Within cells, metabolism and gene expression are tightly interconnected. In recent years, histone modifications have been shown to serve not only as central mechanisms of epigenetic regulation but also as recorders of cellular metabolic states. Among these, histone β-hydroxybutyrylation (lysine β-hydroxybutyrylation, abbreviated as Kbhb) has emerged as a novel epigenetic mark that has attracted widespread attention. How, then, does the metabolic intermediate β-hydroxybutyryl-CoA drive the formation of......

• • Common Challenges in LC-MS/MS Protein Identification and How to Solve Them

  In proteomics research, LC-MS/MS (liquid chromatography-tandem mass spectrometry) has emerged as a central analytical technique for protein identification. Owing to its high sensitivity and high-throughput capacity, LC-MS/MS enables large-scale identification and quantification of proteins in complex biological samples. However, throughout experimental workflows and downstream data analysis, researchers frequently encounter challenges such as low protein identification yield, poor reproducibility, and......

• • How to Prepare Samples for Histone Butyrylation Analysis?

  Histones, as fundamental components of chromatin, are extensively involved in the regulation of gene expression, cell cycle progression, and DNA repair through diverse post-translational modifications. Among these, histone butyrylation represents an emerging modification structurally related to acetylation, with the capacity to influence chromatin architecture and transcriptional activity. Consequently, accurate identification and quantification of histone butyrylation have become critical in epigenet......

• • How to Choose the Right Database for Proteomics Protein Identification?

  In modern proteomics research, protein identification constitutes a key step. Advances in mass spectrometry have enabled researchers to acquire extensive peptide datasets from complex biological samples. However, peptides represent only fragments of information, and accurately mapping these fragments to specific proteins relies on high-quality protein databases. The choice of an appropriate database not only affects identification accuracy but also directly impacts the reliability of subsequent data a......

• • What Is Histone Crotonylation Analysis?

  Histone post-translational modifications (PTMs) represent a key mechanism regulating chromatin structure and gene expression. In recent years, with advances in mass spectrometry technologies, histone crotonylation (Kcr), a novel acylation modification, has attracted increasing attention. As a short-chain unsaturated acyl modification occurring on lysine residues, crotonylation is structurally distinct from classical acetylation and exhibits unique biological functions in transcriptional regulation, ce......

• • Advantages of SILAC Labeling Coupled with Mass Spectrometry in Protein Expression Research

  Accurate quantification of protein expression is essential for elucidating cell signaling, disease mechanisms, and drug targets. However, protein expression is regulated through complex, multilayered, and dynamic processes, and conventional methods such as Western blotting alone are often inadequate to meet the demands of high-throughput analysis, quantitative accuracy, and cross-sample comparability. As a metabolic labeling strategy, SILAC (Stable Isotope Labeling by Amino acids in Cell culture), whe......

• • Exosome Proteomics: Key Techniques and Applications in Research

  Exosomes are small extracellular vesicles with diameters of approximately 30-150 nm, widely present in biological fluids such as blood, urine, and saliva. As key mediators of intercellular communication, exosomes carry biomolecules including proteins, nucleic acids, and lipids, and play critical roles in disease diagnosis, drug target identification, and the optimization of therapeutic strategies. In recent years, with advances in mass spectrometry and proteomics, exosome proteomics has emerged as a m......

• • Antibody Mass Spectrometry Characterization: Principles, Workflow, and Applications

  In the context of the rapid advancement of biopharmaceutical research and development, antibody-based therapeutics (particularly monoclonal and bispecific antibodies) have become a central component of innovative drug development. Concurrently, increasing demands have been placed on the precise structural characterization and quality control of antibodies. As a high-resolution and high-sensitivity analytical technique, antibody mass spectrometry characterization is progressively emerging as a core too......

• • Applications and Value of PRM Mass Spectrometry in Protein Quantification

  Although immunoassay-based methods such as ELISA and Western blot are widely employed, they exhibit inherent limitations in specificity, throughput, and quantitative accuracy. These constraints become particularly evident when analyzing complex biological matrices and low-abundance proteins. Consequently, there is a growing demand for analytical approaches that offer high sensitivity, robust reproducibility, and accurate quantification to support applications such as biomarker validation, drug target ......

• • Advantages and Disadvantages of High-Throughput Ubiquitinomics

  Ubiquitination, as one of the most important post-translational modifications, is widely involved in biological processes such as cell cycle regulation, DNA repair, signal transduction, and protein degradation, and serves as a central mechanism for maintaining cellular homeostasis and regulating signaling pathways. However, ubiquitination is characterized by low abundance, rapid turnover, and complex chain architectures, which have long hindered its systematic and high-resolution characterization. Tra......