Resources

Proteomics Databases



Metabolomics Databases

• • Simultaneous Peptide Sequencing and Post-Translational Modification Profiling via Tandem Mass Spectrometry

  In proteomics, peptide sequencing and post-translational modification (PTM) profiling are essential for elucidating protein function, signaling pathways, and disease mechanisms. Recent advances in mass spectrometry, particularly tandem mass spectrometry (MS/MS), have enabled the concurrent acquisition of both peptide sequence and PTM data within a single experiment, substantially improving research efficiency and data utility. Tandem Mass Spectrometry: A Core Technique for Concurrent Sequence and PTM......

• • LC-MS/MS for Antibody Peptide Sequencing: Applications and Advantages

  Accurate determination of the primary structure of antibodies is critically important for drug development, functional characterization, and quality control. Liquid chromatography-tandem mass spectrometry (LC-MS/MS), due to its high sensitivity, broad dynamic range, and ability to detect post-translational modifications (PTMs), has become an essential platform for antibody peptide sequencing. It enables high-throughput and reproducible analysis, supporting comprehensive structural elucidation of antib......

• • How Does SILAC Contribute to Phosphorylation Research?

  Stable Isotope Labeling by Amino acids in Cell Culture (SILAC) has been widely applied as a metabolic labeling strategy in quantitative proteomics. Unlike chemical labeling methods such as iTRAQ and TMT, SILAC achieves isotope incorporation at the cellular level, thereby inherently minimizing biases introduced during sample preparation. This makes it a powerful approach for investigating protein post-translational modifications (PTMs), particularly phosphorylation. In this article, we provide an in-de......

• • How Does High-throughput Shotgun Proteomics Address the Challenges of Complex Sample Analysis?

  Proteomics has emerged as a critical tool for elucidating biological system functions, uncovering disease mechanisms, and identifying biomarkers. Nevertheless, complex samples, such as tissue sections, plasma, organoids, or host–pathogen co-culture systems, present formidable challenges in terms of protein diversity, abundance, and background interference. Obtaining comprehensive, accurate, and reproducible protein information from these samples remains a central issue in proteomics research. Owing to......

• • How Can Shotgun Proteomics Facilitate the Identification of Challenging Membrane Proteins?

  Membrane proteins are broadly distributed throughout cellular membrane systems, serving as essential mediators of signal transduction, molecular transport, and intercellular communication. Nevertheless, their high hydrophobicity, structural complexity, and generally low abundance often result in poor detection rates in conventional proteomics workflows. With the advancement of mass spectrometry technologies and sample preparation strategies, shotgun proteomics has emerged as a promising approach for m......

• • How Do iTRAQ/TMT Enhance Quantitative Performance in Shotgun Proteomics?

  In proteomics research, shotgun proteomics has been widely employed for complex sample analysis due to its broad proteome coverage and robust detection capability. Nevertheless, this approach encounters significant challenges in multi-sample quantitation, including poor reproducibility, limited throughput, and low analytical efficiency. Isobaric labeling strategies such as iTRAQ (Isobaric Tags for Relative and Absolute Quantitation) and TMT (Tandem Mass Tags) have effectively addressed these limitatio......

• • How Can Mass Spectrometry Peptidomics Facilitate Biomarker Discovery?

  Biomarkers are molecular indicators that objectively reflect biological states, disease progression, or responses to treatment. They are widely applied in early disease screening, personalized therapy, and therapeutic efficacy evaluation. In recent years, with the advancement of multi-omics technologies, researchers have been shifting from a genetic level perspective to a protein functional level perspective. In this context, mass spectrometry peptidomics, with its high-resolution profiling of protein......

• • How Can Top-Down Mass Spectrometry Enable Accurate Characterization of PTMs?

  Post-Translational Modifications (PTMs) are extensively involved in essential biological processes, including signal transduction, protein stability, and subcellular localization, and represent a central focus of systems biology and disease mechanism studies. Nevertheless, the coexistence of multiple modifications, their structural coupling, and their inherently low abundance render PTMs characterization highly challenging. Conventional proteomics strategies largely rely on enzymatic peptide analysis,......

• • De Novo Peptide Sequencing: A Critical Step in Peptide Drug Development

  Peptide-based therapeutics, representing a unique class of molecules positioned between small-molecule compounds and biologics, are gaining increasing traction across diverse fields such as oncology, metabolic disorders, and neurological diseases. This growing interest is driven by their high target specificity, favorable biodegradability, and reduced toxicity profiles. However, the inherent structural complexity and diverse chemical modifications of peptide molecules present significant challenges fo......

• • Comprehensive Guide to Peptide Sequencing Services: From Principles to Applications

  Peptide sequencing, grounded in high-resolution mass spectrometry (MS) technologies, involves the mass analysis, fragmentation interpretation, and bioinformatics-assisted comparison of peptides derived from proteolytically cleaved proteins. Through this process, the linear arrangement of amino acid residues in proteins or polypeptides is elucidated, thereby determining the primary structure of the target protein. Beyond structural elucidation, peptide sequencing enables precise localization of post-tr......