GLIC Seminar Series

The aim of the GLIC seminar series is to introduce and promote software tools and databases to the bioinformatics and (glyco-)biology community. If you want to learn more about GLIC please visit our home page.

Special Topic: Glycan Arrays

The GLIC webinar series on the special topic of glycan arrays will focus on tools and databases for processing, interpreting and storing glycan array data. The seminar series will start with an introduction to glycan arrays and how they can be used to study the interaction between glycans and other biological components, such as proteins, bio-fluids, lectins or micro-organism. In the following webinars individual groups will present their software tools and databases, and demonstrate their access and usage. All webinars will start at 10am ET.

Organizers

Rene Ranzinger and Akul Mehta

Schedule

Date/Time	Presenter	Title	Resources
02/06/2023	René Ranzinger and Akul Mehta	Introduction to glycan arrays	Slides YouTube
02/13/2023	Yukie Akune	CarbArrayART for glycan microarray data storage, presentation and reporting	Slides Software YouTube
02/27/2023	Akul Mehta	Using GLAD for exploratory glycan microarray data analysis and visualization	Slides Files Software YouTube
03/06/2023	Zachary Klamer	Using CarboGrove to guide experimental design and data interpretation	Slides Software YouTube
03/20/2023	René Ranzinger	The Glycan Array Data Repository	Slides Database YouTube
03/27/2023	Jon Lundstrøm	LectinOracle@glycowork: Lectin binding predictions & glycan sequence analysis in Python	Slides Files Software YouTube

Details

Introduction to glycan arrays

Presenter

René Ranzinger¹ and Akul Mehta²
¹Complex Carbohydrate Research Center
University of Georgia
Athens, GA, USA

²National Center for Functional Glycomics
Harvard Medical School
Boston, MA, USA

Time
02/06/2023 10am ET

Abstract
This first webinar will start with a short introduction into the webinar series and the individual talks. In this seminar we will provide a general overview about glycan array experiment and data processing and illustrate the use of this technique and data for the generation of new biological knowledge.

Material

CarbArrayART for glycan microarray data storage, presentation and reporting

Presenter

Yukie Akune
Department of Metabolism, Digestion and Reproduction
Imperial College London
London, UK

Time
02/13/2023 10am ET

Abstract
CarbArrayART (Carbohydrate microArray Analysis and Reporting Tool) is a software tool for day to day use for: (1) Recording scan data and related metadata. (2) Processing and presentation of data as tables and charts with filtering and sorting functions and (3) Reporting data compliant with MIRAGE guidelines.

Material

Using GLAD for exploratory glycan microarray data analysis and visualization

Presenter

Akul Mehta
National Center for Functional Glycomics
Harvard Medical School
Boston, MA, USA

Time
02/27/2023 10am ET

Abstract
GLAD is a useful tool to explore data from several glycan microarray experiments. GLAD allows you to visualize your data and compare datasets using several visualization options. It also allows for basic data wrangling such as filtering and sorting your data.

Material

Using CarboGrove to guide experimental design and data interpretation

Presenter

Zachary Klamer (zachary.klamer@vai.org)
Van Andel Research Institute
Grand Rapids, MI, USA

Time
03/06/2023 10am ET

Abstract
Lectins and Glycan Binding Proteins are powerful and accessible tools for glycan analysis. Despite the abundance of datasets providing glycan-binding profiles of GBPs, researchers frequently interpret GBP binding using inaccurate or incomplete definitions of GBP specificity. Here we present CarboGrove, a database of data-driven and human-readable glycan binding specificities derived from 36 different glycan array platforms for hundreds of glycan binding proteins. To enable users to readily access the binding information, the database features many options for searching and filtering the results including the ability to search by affinity to various motifs. Furthermore, glycan-binding models can be downloaded and used for the prediction of GBP to new glycans, a crucial step in experimental design and the automated interpretation of glycan binding data.

Material

The Glycan Array Data Repository

Presenter

René Ranzinger
Complex Carbohydrate Research Center
University of Georgia
Athens, GA, USA

Time
03/20/2023 10am ET

Abstract
The Glycan Array Data Repository is a online database for storing and sharing glycan array data. Every group or individual can create a account and submit their data including the MIRAGE compliant metadata. Users can freely search and access the sbumitted dataset.

Material

LectinOracle@glycowork: Lectin binding predictions & glycan sequence analysis in Python

Presenter

Jon Lundstrøm
Department of Chemistry and Molecular Biology and Wallenberg Centre for Molecular and Translational Medicine
University of Gothenburg
Gothenburg, Sweden

Time
03/27/2023 10am ET

Abstract
LectinOracle is a deep learning model for generalizable lectin-glycan binding predictions. Here, we demonstrate LectinOracle and showcase its use within glycowork, our Python package for glycan sequence processing & analysis, including interpretation of the results.

Material