Glycan-protein interaction motifs - A semantic based annotation method
What you will discover: The development of a tool allowing those unfamiliar with SPARQL to access databases of glycan structure.
You are: An experimental or structural glycobiologist, or a computer scientist interested in democratizing SPARQL queries
Speaker: Catherine Hayes, a Bioinformatician/Biocurator at Glyco@Expasy, Proteome Informatics Group (PIG) led by Frédérique Lisacek.
Click to access specific sections of the talk:
00:19 Glycobiology
01:39 Biological questions?
02:04 Glyco@Expasy
02:11 Glycan structure - string formats
07:17 GlySTreeM uses
08:00 Method to automatically generate substructure queries
12:50 GlycoQL - user interface
13:20 Federated queries - command line
14:14 Ontologies in GlycoInformatics
Reference papers and resource
Glycomics@Expasy: https://glycoproteome.expasy.org/glyc...
GlyConnect: https://glyconnect.expasy.org/
GlyConnect RDF: https://glyconnect.expasy.org/rdf
GlySTreeM: https://glyconnect.expasy.org/glystre...
GlycoQL: https://glyconnect.expasy.org/glycoql/
Any questions about this talk? Contact Catherine at [email protected].
More about the speaker:
Catherine Hayes received her PhD from the Chemistry Department of the National University of Ireland, Galway (NUIG) in 2009, on structural bioinformatics of protein-ligand interactions. Concurrently, she worked with the Centre for BioAnalytical Sciences (CBAS) on a glycan mass spectrometry project, before moving to the Biomedicine Department, University of Gothenburg to work with Niclas Karlsson on the structural elucidation of mucin type O-linked oligosaccharides. While in Gothenburg she also had project exchanges with the groups of Pauline Rudd (NIBRT, Dublin), Nicki Packer (Macquarie University, Sydney) and Frederique Lisacek (SIB, Geneva).
After a break of some years she returned to the field, as a biocurator of GlyConnect (2020), again in the group of F. Lisacek. She is currently involved in biocuration, annotation, semantic web technologies and development of tools in both the glycomic and proteomic field.
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