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Oligosaccharide Assembly

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Protein glycosylation starts in the ER lumen and continues in the Golgi apparatus. Glycosyltransferases catalyze the addition of sugar molecules or glycosylation of proteins. Usually, these enzymes add sugars to the hydroxyl groups of selected serine or threonine residues to form O-linked glycans or the amino groups of asparagine residues to form N-linked glycans. Different positions on the same polypeptide chain can contain differently linked glycans.
Multiple sugar molecules that may or may...

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Bioinformatics Resources for the Study of Glycan-Mediated Protein Interactions

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Qrator: a web-based curation tool for glycan structures.

Matthew Eavenson¹, Krys J Kochut², John A Miller¹

¹Department of Computer Science.

|August 29, 2014

Summary

This summary is machine-generated.

Qrator is a new web application that helps researchers curate glycan structures more accurately. It uses canonical trees and literature references to improve the validation of N-glycans, O-glycans, and glycosphingolipids.

Keywords:

Qrator curation glycan ontology structure matching

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A Quantitative Glycomics and Proteomics Combined Purification Strategy

A Quantitative Glycomics and Proteomics Combined Purification Strategy

Published on: March 8, 2016

Area of Science:

Carbohydrate Chemistry
Bioinformatics
Glycomics

Background:

Existing glycan structure databases suffer from proprietary schemas and annotation errors, hindering laboratory data analysis.
The complexity of glycan structures makes manual curation a difficult and time-consuming task.
Accurate glycan structure validation is crucial for reliable glycomics research.

Purpose of the Study:

To develop an efficient and accurate workflow for curating glycan structures.
To introduce Qrator, a web-based application designed to assist researchers in glycan curation.
To improve the quality and consistency of glycan structure databases.

Main Methods:

Implementation of Qrator, a web application integrating literature, database references, user annotations, and canonical trees.
Development of a glycan curation workflow incorporating a structure-matching algorithm against canonical trees.
Creation and extension of canonical trees for N-glycans, O-glycans, and glycosphingolipids.

Main Results:

Qrator facilitates informed decision-making during glycan curation.
The application has been used to initiate the curation of large datasets of N-glycans, O-glycans, and glycosphingolipids.
The developed curation workflow, enhanced by canonical trees, has improved the overall curation process.

Conclusions:

Qrator provides a valuable tool for improving the accuracy and efficiency of glycan structure curation.
The use of canonical trees significantly aids in validating glycan structures based on biosynthetic pathways.
This approach enhances the reliability of glycan databases for downstream applications in glycomics research.