BioThings

BioThings provides a Python SDK to build high-performance data APIs that integrate biological annotations for biomedical entities such as genes, genetic variants, drugs, chemicals, and diseases from multiple data sources.

Key Features:

• Python SDK: Implemented in Python as a software development kit for constructing scalable web-service APIs from one or multiple data sources.
• High-performance APIs: Generates high-performance data APIs focused on biomedical entities including genes, genetic variants, drugs, chemicals, and diseases.
• Annotation integration: Automates the integration of biological annotations across disparate data sources.
• Reference APIs: Provides example APIs—MyGene.info, MyVariant.info, and MyChem.info—that deliver integrated annotations for genes, genetic variants, and chemical compounds.
• Identifier mapping and retrieval: Supports annotation retrieval and identifier mapping across integrated resources.
• Custom API creation and synchronization: Enables creation of custom BioThings APIs and synchronization with underlying data sources.

Scientific Applications:

• Integrated annotation access: Serving consolidated annotations for genes, genetic variants, and chemical compounds to support downstream analyses.
• Identifier harmonization: Streamlining identifier mapping across heterogeneous biomedical data sources.
• Scalable data services: Powering scalable web-service endpoints for programmatic access to aggregated biomedical annotations.
• Data integration for reuse: Automating integration of disparate annotations to enhance accessibility and reusability of biomedical resources.

Methodology:

Implemented in Python; automates integration of biological annotations across disparate data sources; constructs scalable web-service APIs from one or multiple data sources; synchronizes APIs with underlying data sources; exposes integrated annotations via APIs such as MyGene.info, MyVariant.info, and MyChem.info.