May 15, 2015

Registering Structures

    Reviewed by Kiyoko Kinoshita

Note: The previous page may have more information regarding this series.


Graphical Interface

One method of submitting a glycan structure is through a graphical interface. The interface used is based on the work done for GlycanBuilder with Vaadin as described in

Damerell D, Ceroni A, Maass K, Ranzinger R, Dell A, Haslam SM. The GlycanBuilder and GlycoWorkbench glycoinformatics tools: updates and new developments. Biol Chem. 2012;393:1357–1362. PubMed.

It is possible to create or extend embedded default structures from this interface.


Glytoucan Graphical Interface


Once the structure is complete, a sequence is generated from the input and sent to the database to check if it was previously registered. If the structure is found in the database, a link and accession number indicating the structure ID will be displayed; otherwise, a final confirmation screen will be shown. If the submit button is entered to indicate confirmation, the newly registered accession number and graphical representation will be displayed.


Glytoucan Graphical Interface Results


As all sequences will be stored in GlycoCT (condensed) format, the sequence initially input will be displayed under original structure, while the sequence converted into WURCS will be displayed under Structure. The image generated will be shown on the right. This screen is necessary to confirm there are no issues in the conversion process.





If you would like to know more, please feel free to read the next page in this series.


About the author

Nobuyuki Aoki is a research assistant at Soka University. Technical architect, Random Programmer, and Official Plant Watcher of the glycan repository project.