Bioinformatics tools for studying glycan-protein interactions

ContributorsGhraichy, Marie
Master program titleMaîtrise universitaire (Master) en Biologie, orientation Bioinformatique et analyse des données en biologie
Defense date2016

Lectin-glycan interactions have important roles in numerous biological processes. They are known to be involved in both normal and pathological reactions. For a deeper understanding of these bindings, the interactive partners, and their functions, databases like Consortium for Functional Glycomics and glycosciences provide access to results of glycan array experiments. An important step for a better comprehension of the results of these experiments is realizing the origin of the glycans present on the glycan arrays, or in other words how are glycan arrays defined. In order to do this, we collected data on the described carbohydrate antigens, or epitopes, from different sources and authors. Data was structured and integrated to give a set of 553 unique known epitopes. We compiled several sources that collect information on epitopes and set to ease access to this information as well as to make it meaningful. For that purpose, we developed Glydin', a visualization tool supporting data exploration. The network is built upon structural similarities of the epitopes that are described by their monosaccharide composition. Each node is an epitope. An edge connects two epitopes when one is the extension of the other by one or more monosaccharides. Glydin' allows the user to search an epitope, see its structure, name and where it was referenced with links to the original sources. This tool thus provides a unified, structured resource of all the known epitopes in literature and is available online at http://glycoproteome.expasy.org/epitopes/. It can be valuable in the analysis of glycan array experiments, for example finding the relationship between different binding partners of a given lectin.

Citation (ISO format)
GHRAICHY, Marie. Bioinformatics tools for studying glycan-protein interactions. 2016.
Main files (1)
Master thesis
  • PID : unige:86523

Technical informations

Creation08/31/2016 3:53:00 PM
First validation08/31/2016 3:53:00 PM
Update time03/15/2023 12:41:02 AM
Status update03/15/2023 12:41:02 AM
Last indexation01/29/2024 8:48:54 PM
All rights reserved by Archive ouverte UNIGE and the University of GenevaunigeBlack