Projects
The High-performance Integrated Virtual Environment (HIVE) platform
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HIVE is a cloud-based environment optimized for the storage and analysis of extra-large data, such as biomedical data, clinical data, next-generation sequencing (NGS) data, mass spectrometry files, confocal microscopy images, post-market surveillance data, medical recall data, and many others. HIVE provides secure web access for authorized users to deposit, retrieve, annotate and compute on Big Data, and analyze the outcomes using web user interfaces. More here.
GlyGen Data Repository
Template:MainGlyGen uses unique processing and integration workflow to retrieve and extract data from various resources. After standardization and harmonization, the high-quality datasets are created. The process of dataset creation is fully documented in BioCompute Objects.These datasets are further processed to create JSON objects and RDF triples that populate MongoDB docstore and Virtuoso triplestore backend databases respectively. The docstore is used by various GlyGen web services while the triplestore is accessed through the GlyGen SPARQL endpoint.
Frequently Asked Questions
Template:Main The FAQ section contains a list of questions asked by users regarding using the portal, API and SPARQL endpoint as well as questions related to the data, data integration and quality control.
GlyGen Web Service API
Template:MainThe GlyGen APIs allow programmatic access of the GlyGen data objects for glycans, proteins, and glycoproteins in the MongoDB docstore. The GlyGen APIs have been documented using the Swagger framework (https://swagger.io/). Some of these web services are generic and provide searching, listing and detailed record access functionalities for GlyGen data objects, while others are custom designed to respond to specific biological questions or use cases collected from the user community.
GlyGen Triplestore
Template:MainThe GlyGen knowledgebase uses a Virtuoso triplestore to store GlyGen triples data. The triplestore can be accessed through the GlyGen SPARQL endpoint.
Glycan Structure Dictionary
Template:MainThe Glycan Structure Dictionary has been developed as a reference dictionary to provide a standardized list of widely used glycan terms that can help in the curation and mapping of glycan structures described in publications.