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SugarDrawer: A Web-Based Database Search Tool with Editing Glycan Structures.

Shinichiro Tsuchiya1, Masaaki Matsubara1, Kiyoko F Aoki-Kinoshita2,3

  • 1The Noguchi Institute, Tokyo 173-0003, Japan.

Molecules (Basel, Switzerland)
|December 10, 2021
PubMed
Summary
This summary is machine-generated.

Researchers can now easily search and draw complex glycan structures using SugarDrawer, a new web-based tool. This glycoscience software aids collaboration by integrating diverse glycan databases and supporting standard formats.

Keywords:
GlycoCTSNFG notationWURCSdatabase searchdrawing softwareglycan structure

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Area of Science:

  • Life Sciences
  • Glycosciences
  • Bioinformatics

Background:

  • Database integration is crucial for interdisciplinary research in life sciences.
  • The glycosciences benefit from global collaboration, exemplified by the GlyTouCan repository.
  • Existing tools lack comprehensive glycan structure depiction and database search capabilities.

Purpose of the Study:

  • To develop an accessible web-based tool for searching and depicting glycan structures.
  • To facilitate easier integration and searching of data from multiple glycan databases.
  • To support researchers in visualizing and manipulating complex glycan information.

Main Methods:

  • Developed SugarDrawer, a web-based tool for glycan structure depiction and database searching.
  • Implemented features for drawing glycans with ambiguity, such as underdetermined linkages.
  • Integrated template structures and pop-up windows for intuitive glycan editing.
  • Supported the Symbol Nomenclature for Glycans (SNFG) for attachment site selection.
  • Enabled input and output in WURCS and GlycoCT formats.

Main Results:

  • SugarDrawer allows users to easily depict and edit diverse glycan structures on a canvas.
  • The tool facilitates database searching based on drawn glycan structures.
  • It supports ambiguous glycan representations and specific element selection.
  • Unique features include SNFG-compliant attachment site selection.
  • Seamless input/output in WURCS and GlycoCT formats is supported.

Conclusions:

  • SugarDrawer enhances collaboration in glycosciences by simplifying glycan structure visualization and database searching.
  • The tool addresses the need for an easy-to-use platform for researchers across various fields.
  • It promotes data standardization and accessibility within the glycosciences community.