Version 1.4.0

This release updates BioAPI’s database import pipeline, dependencies, and documentation, with a focus on OncoKB and STRING data processing.

Highlights

• Updated Python dependencies for both the API and genomic ETL tools
• Improved OncoKB import support, including new XLSX-to-JSON processing for precision oncology therapies
• Added a new STRING import script and improved duplicate handling during import
• Corrected and refactored the BioMart/CiVIC gene data retrieval script
• Updated deployment and project documentation to match the new database sources and filenames
• Upgraded MongoDB from 6.0.12 to 8.3.2
• Upgraded NGINX from 1.23.3 to 1.31

Technical changes

• Fixed the OncoKB collection name used by the API
• Updated OncoKB import scripts and dataset filenames
• Refactored cancer gene list parsing for newer OncoKB formats
• Updated the HGNC download source
• Removed legacy bundled OncoKB data files

Version 1.3.0

Added Swagger documentation to allow users to use BioAPI from an UI

Version 1.2.2

Minor improvements

Version 1.2.1

• Standardized some fields
• Improved documentation
• Updated dump file

Version 1.2.0

Several fixes and standardized link to import dump file

1.0.0

Version 1.0.0 of BioAPI

0.1.0

Includes:

• validation of genes with different nomenclatures
• obtaining genes from the same group