Resources

Proteomics Databases



Metabolomics Databases

• • What Are the Experimental Workflows in Golgi Apparatus Proteomics?

  The Golgi apparatus is a critical membranous organelle responsible for protein modification, sorting, and trafficking. Comprehensive characterization of the Golgi proteome facilitates understanding of its functional roles in the secretory pathway, glycosylation, and disease development. With advances in high-resolution mass spectrometry, Golgi proteomics has become a central strategy for investigating subcellular organelle function. Sample Preparation and Golgi Isolation 1. Selection of Sample Types ......

• • What Is Golgi Apparatus Proteomics?

  Golgi apparatus proteomics (Golgi proteomics) is the systematic application of proteomic technologies to investigate the composition, structure, function, and dynamic alterations of proteins within the Golgi apparatus. By integrating subcellular fractionation, mass spectrometry, and bioinformatics methodologies, this field seeks to comprehensively define the molecular mechanisms through which the Golgi regulates cellular physiology and pathology. Golgi Apparatus Proteomics: Central Approaches for Dec......

• • What Is Mitochondrial Proteomics?

  Mitochondrial proteomics represents a major branch of proteomics that seeks to systematically identify, quantify, and characterize the functions of proteins associated with mitochondria. Beyond their central role in ATP production, mitochondria are integral to redox homeostasis, regulation of apoptosis, lipid metabolism, and calcium signaling. Consequently, mitochondrial proteomics provides critical insight into cellular dysfunction, disease mechanisms, and the discovery of novel therapeutic targets. ......

• • What Is Endoplasmic Reticulum Proteomics and What Does It Reveal?

  Endoplasmic reticulum proteomics (ER proteomics) represents a major branch of proteomics that focuses on defining the composition, functional roles, modification states, and dynamic alterations of proteins residing in the endoplasmic reticulum (ER). Through high-resolution mass spectrometry, subcellular fractionation, and advanced bioinformatics, researchers are able to generate comprehensive maps of the ER proteome and elucidate its central mechanisms in protein folding, quality surveillance, signal ......

• • What Is FFPE Sample Proteomics?

  FFPE sample proteomics refers to the application of mass spectrometry and related technologies to analyze formalin-fixed, paraffin-embedded (FFPE) tissues, aiming to systematically identify, quantify, and characterize protein expression patterns. This approach has been widely utilized in clinical research, cancer biomarker discovery, drug target validation, and investigations of disease mechanisms. What Is an FFPE Sample? FFPE represents the most widely used preservation strategy in histopathology: 1......

• • What Post-translational Modifications Occur in Mitochondrial Proteins?

  Mitochondrial protein modifications represent fundamental mechanisms governing mitochondrial function and cellular metabolic homeostasis. With continuous advances in mass spectrometry technologies, numerous post-translational modifications (PTMs) have been identified on mitochondrial proteins. These modifications influence protein stability, enzymatic activity, and molecular interactions, and are strongly associated with a wide range of diseases, including neurodegenerative disorders, cancer, and meta......

• • How to Perform Proteomic Analysis on Paraffin-Embedded Tissue Samples?

  Formalin-fixed paraffin-embedded (FFPE) tissues are widely used in clinical pathology research, encompassing diverse disease types and extensive patient information, and therefore represent valuable resources for proteomics. However, protein crosslinking and chemical modifications introduced during formalin fixation and paraffin embedding pose significant technical challenges for proteomic analysis. Key Challenges in FFPE Sample Proteomic Analysis 1. Protein Crosslinking and Denaturation Formalin fix......

• • How Does Golgi Apparatus Proteomics Reveal Protein Trafficking and Secretion Pathways?

  In eukaryotic cells, the Golgi apparatus functions as a central hub for protein processing and trafficking. It receives newly synthesized proteins from the endoplasmic reticulum, executes post-translational modifications (including glycosylation and phosphorylation), and subsequently directs cargo to destinations such as the plasma membrane, lysosomes, or the extracellular milieu. This highly coordinated transport system is governed by precisely regulated molecular mechanisms, whose elucidation increa......

• • How to Combine DDA and DIA for Deep Proteome Coverage?

  In proteomics research, achieving deeper proteome coverage has consistently been a central objective. With advances in mass spectrometry technologies, Data-Dependent Acquisition (DDA) and Data-Independent Acquisition (DIA) have become the dominant strategies, each offering distinct technical strengths. In recent years, hybrid approaches that combine DDA and DIA have increasingly been regarded as effective solutions for improving both identification depth and quantitative accuracy. DDA and DIA: Advant......

• • How to Identify ER Membrane Proteins Using LC-MS/MS?

  The endoplasmic reticulum (ER) is the most extensively distributed and structurally intricate membranous organelle in eukaryotic cells. It plays essential roles in protein synthesis and folding, calcium storage, lipid metabolism, and signal transduction. ER membrane proteins, which are fundamental determinants of ER architecture and function, govern critical processes including the unfolded protein response (UPR), maintenance of calcium homeostasis, and transmembrane trafficking. With the rapid advanc......