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Article
Open AccesspGlycoQuant with a deep residual network for quantitative glycoproteomics at intact glycopeptide level
Large-scale intact glycopeptide identification has been advanced by software tools. However, tools for quantitative analysis remain lagging behind, which hinders exploring the differential site-specific glycos...
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Article
Open AccessAMPK induces degradation of the transcriptional repressor PROX1 impairing branched amino acid metabolism and tumourigenesis
Tumour cell metabolic plasticity is essential for tumour progression and therapeutic responses, yet the underlying mechanisms remain poorly understood. Here, we identify Prospero-related homeobox 1 (PROX1) as ...
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Article
Nascent Proteome and Glycoproteome Reveal the Inhibition Role of ALG1 in Hepatocellular Carcinoma Cell Migration
Asparagine-linked glycosylation protein 1 homolog (ALG1) participates in the initial stage of protein N-glycosylation and N-glycosylation has been implicated in the process of hepatocellular carcinoma (HCC) progr...
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Article
Open AccessGproDIA enables data-independent acquisition glycoproteomics with comprehensive statistical control
Large-scale profiling of intact glycopeptides is critical but challenging in glycoproteomics. Data independent acquisition (DIA) is an emerging technology with deep proteome coverage and accurate quantitative ...
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Article
Size-dependent sub-proteome analysis of urinary exosomes
Exosomes are cell-derived functional microparticles which exist in most body fluids. They carry abundant signaling molecules to transfer information between cells and microenvironment. Research on exosomes’ he...
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Article
Investigating the proteomic expression profile of tobacco (Nicotiana tabacum) leaves during four growth stages using the iTRAQ method
Despite the importance of tobacco (Nicotiana tabacum) in agriculture and model organism investigations, the proteomic changes that occur in the tobacco leaf as it matures remain to be explored. In this study, an ...
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Article
Glucose-regulated phosphorylation of TET2 by AMPK reveals a pathway linking diabetes to cancer
Diabetes is a complex metabolic syndrome that is characterized by prolonged high blood glucose levels and frequently associated with life-threatening complications1,2. Epidemiological studies have suggested that ...
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Article
Open AccessAcetylation accumulates PFKFB3 in cytoplasm to promote glycolysis and protects cells from cisplatin-induced apoptosis
Enhanced glycolysis in cancer cells has been linked to cell protection from DNA damaging signals, although the mechanism is largely unknown. The 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3 (PFKFB3) c...
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Article
Highly selective SiO2–NH2@TiO2 hollow microspheres for simultaneous enrichment of phosphopeptides and glycopeptides
Glycosylation and phosphorylation as the commonest and most important posttranslational modifications of proteins play critical roles in biological processes. Specific and sensitive strategies have been develo...
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Open AccessDiscovering potential serological biomarker for chronic Hepatitis B Virus-related hepatocellular carcinoma in Chinese population by MAL-associated serum glycoproteomics analysis
The accuracy of current biomarkers for the diagnosis of hepatocellular carcinoma (HCC), especially chronic Hepatitis B Virus (HBV)-related HCC, is limited. Recent progress in glycoproteomics has provided a nov...
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Article
A novel protocol for enzymatic digestion based on covalent binding by protein immobilization
The process of protein digestion is a critical step for successful protein identification in proteomic analysis. Many efforts have been dedicated to enhancing the digestion efficiency for sufficient digestion....
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Article
Open AccesspGlyco: a pipeline for the identification of intact N-glycopeptides by using HCD- and CID-MS/MS and MS3
Confident characterization of the microheterogeneity of protein glycosylation through identification of intact glycopeptides remains one of the toughest analytical challenges for glycoproteomics. Recently prop...
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Article
Integrated system for extraction, purification, and digestion of membrane proteins
An integrated system was developed for directly processing living cells into peptides of membrane proteins. Living cells were directly injected into the system and cracked in a capillary column by ultrasonic t...
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Article
A novel method to isolate protein N-terminal peptides from proteome samples using sulfydryl tagging and gold-nanoparticle-based depletion
A novel method to isolate global N-termini using sulfydryl tagging and gold-nanoparticle-based depletion (STagAu method) is presented. The N-terminal and lysine amino groups were first completely dimethylated ...
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Article
Open AccessMacroH2A1 associates with nuclear lamina and maintains chromatin architecture in mouse liver cells
In the interphase nucleus, chromatin is organized into three-dimensional conformation to coordinate genome functions. The lamina-chromatin association is important to facilitate higher-order chromatin in mamma...
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Article
Direct digestion of proteins in living cells into peptides for proteomic analysis
To analyze the proteome of an extremely low number of cells or even a single cell, we established a new method of digesting whole cells into mass-spectrometry-identifiable peptides in a single step within 2 h....
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Open AccessTear proteomic analysis of Sjögren syndrome patients with dry eye syndrome by two-dimensional-nano-liquid chromatography coupled with tandem mass spectrometry
We examined the tear film proteome of patients with Sjögren's syndrome (SS) and dry eye syndrome (group A), patients with dry eye symptoms (group B) and normal volunteers (group C). Tear samples were pooled fr...
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Article
Response of peptide intensity to concentration in ESI-MS-based proteome
High-throughput quantification with label-free methods has received considerable attention in electrospray ionization (ESI)-mass spectrometry (MS), but the manner by which MS signals respond to peptide concent...
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Article
Open AccessProteomic analysis of prolactinoma cells by immuno-laser capture microdissection combined with online two-dimensional nano-scale liquid chromatography/mass spectrometry
Pituitary adenomas, the third most common intracranial tumor, comprise nearly 16.7% of intracranial neoplasm and 25%-44% of pituitary adenomas are prolactinomas. Prolactinoma represents a complex heterogeneous...
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Article
New lysine-acetylated proteins screened by immunoaffinity and liquid chromatography-mass spectrometry
The lack of selective extraction specific for lysine-acetylated proteins has been a major problem in the field of acetylation biology, though acetylation plays a key role in many biological processes. In this ...
