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DNA Microarrays

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

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Updated: Jan 1, 2026

Author Spotlight: MAPP Protocol – Advancing Glycan Analysis

Author Spotlight: MAPP Protocol – Advancing Glycan Analysis

Published on: September 29, 2023

GlyMDB: Glycan Microarray Database and analysis toolset.

Yiwei Cao¹, Sang-Jun Park¹, Akul Y Mehta²

¹Departments of Biological Sciences and Bioengineering, Lehigh University, Bethlehem, PA 18015, USA.

Bioinformatics (Oxford, England)

|December 17, 2019

Summary

This summary is machine-generated.

Glycan Microarray Database (GlyMDB) aids researchers in analyzing glycan-binding protein interactions. This web resource links microarray data with protein structures, simplifying the interpretation of complex glycan-binding data.

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Glycan Profiling of Plant Cell Wall Polymers using Microarrays

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Published on: December 17, 2012

Area of Science:

Glycomics
Structural Biology
Bioinformatics

Background:

Glycan microarrays reveal glycan-binding protein (GBP) interactions but present interpretation challenges due to fluorescence intensity ambiguity and complex glycan structures.
Understanding protein-carbohydrate interactions is crucial for numerous biological activities.

Purpose of the Study:

To develop a web-based resource, the Glycan Microarray Database (GlyMDB), for analyzing glycan microarray data alongside protein structures.
To facilitate the identification of structural determinants involved in glycan binding.

Main Methods:

Developed Glycan Microarray Database (GlyMDB), a searchable resource with a toolset for data/structure analysis.
Integrated 5203 glycan microarray samples from the Consortium for Functional Glycomics.
Linked microarray data to Protein Data Bank (PDB) structures.
Implemented BLAST for protein sequence-based searches to match microarray data with PDB structures.

Main Results:

GlyMDB provides data visualization and glycan-binding motif discovery.
Users can upload their data for analysis, including binder/non-binder classification and signal intensity graphing.
The database links to PDB structures for visualization and further investigation of glycan-binding sites.

Conclusions:

GlyMDB simplifies the interpretation of complex glycan microarray data.
The database enhances the study of protein-carbohydrate interactions by integrating experimental data with structural information.
Facilitates discovery of glycan-binding motifs and sites.