AIMC Topic: Glycosylation

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GlyTrait: A Versatile Bioinformatics Tool for Glycomics Analysis.

Journal of proteome research
We developed GlyTrait, a Python-based framework designed to enhance Glycomics analysis through the innovative calculation and interpretation of derived traits from -glycome data. Glycomics research often grapples with the interpretability and biologi...

Deciphering the determinants of recombinant protein expression across the human secretome.

Proceedings of the National Academy of Sciences of the United States of America
Protein secretion is an essential process of mammalian cells. In biomanufacturing, this process can be optimized to enhance production yields and biotherapeutic quality. While cell line engineering and bioprocess optimization have yielded high protei...

Integrated multi-omics analysis and machine learning refine molecular subtypes and prognosis in hepatocellular carcinoma through O-linked glycosylation genes.

Functional & integrative genomics
O-glycosylation significantly influences cellular physiological processes and disease regulation by modulating the structure, function, and stability of proteins. However, there is a notable gap in research focusing on O-glycosylation in relation to ...

Lectin-affinity glycosylation pattern analysis of plasma extracellular vesicles: An all-in-one clinical assessment for gastric cancer diagnosis and treatment.

Cancer letters
Extracellular vesicles (EVs) exhibit extensive glycosylation modifications, which are promising biomarkers for gastric cancer (GC). However, EV glycomics and the potential application of EV glycosylation patterns in liquid biopsy remain largely unexp...

Library-based virtual match-between-runs quantification in GlyPep-Quant improves site-specific glycan identification.

Nature communications
Glycosylation changes are closely related to various diseases, including cancer. The quantitative analysis of site-specific glycans at proteomics scale remains challenging due to low glycopeptide spectra interpretation. Here, we present GlyPep-Quant,...

Ultradeep N-glycoproteome atlas of mouse reveals spatiotemporal signatures of brain aging and neurodegenerative diseases.

Nature communications
The current depth of site-specific N-glycoproteomics is insufficient to fully characterize glycosylation events in biological samples. Herein, we achieve an ultradeep and precision analysis of the N-glycoproteome of mouse tissues by integrating multi...

Identification and Validation of Glycosylation‑Related Genes in Ischemic Stroke Based on Bioinformatics and Machine Learning.

Journal of molecular neuroscience : MN
Ischemic stroke (IS) constitutes a severe neurological disorder with restricted treatment alternatives. Recent investigations have disclosed that glycosylation is closely associated with the occurrence and outcome of IS. Nevertheless, data on the tra...

DOGpred: A Novel Deep Learning Framework for Accurate Identification of Human O-linked Threonine Glycosylation Sites.

Journal of molecular biology
O-linked glycosylation is a crucial post-translational modification that regulates protein function and biological processes. Dysregulation of this process is associated with various diseases, underscoring the need to accurately identify O-linked gly...

Glycosylation profiling of triple-negative breast cancer: clinical and immune correlations and identification of LMAN1L as a biomarker and therapeutic target.

Frontiers in immunology
INTRODUCTION: Breast cancer (BC) is the most prevalent malignant tumor in women, with triple-negative breast cancer (TNBC) showing the poorest prognosis among all subtypes. Glycosylation is increasingly recognized as a critical biomarker in the tumor...