Data Release Notes

Versioning Format

The versioning format follows a three-digit structure: X.Y.Z.

• The first digit (X) changes when a major update is introduced, such as changes in the data model.
• The second digit (Y) increments with each new release.
• The third digit (Z) is updated for bug fixes or minor changes.

Version 1.0.2

Data Updates

• Published updated Metabolomics Workbench data.
• Published sample data from the Early Detection Research Network.

Backend and Infrastructure Updates

• evidence_source database names now retain their original casing for accuracy and consistency.
• EDRN identifiers were added to the namespace map.
• HUGO Gene Nomenclature Committee (HGNC) was added to the cross-reference JSON file.
• Fixed an issue where evidence_source values without tags were previously dropped; these are now preserved.
• Added a user-guided spelling correction function to improve data entry quality.
• The TSV-to-JSON converter now automatically checks for header spelling errors.
• Introduced _suggest_header_corrections to flag and propose fixes for misspelled headers.
• Enhanced _stream_tsv with a call to _check_header_spelling to prevent invalid headers from being processed.

Version 1.0.1

Data Updates

• Added xrefs.tsv to the list of datasets.

Backend & Infrastructure Updates

• Fixed ID formatting issues in NCBI and UniProt references within oncomx.tsv, removing erroneous spaces (e.g., NCBI: 3288 → NCBI:3288) and extraneous text (e.g., "(composition)"). Affected biomarkers included AN6295-1, AN6756-1, AN6728-1, and others.
• Merged assessed entity type synonyms.

Version 1.0.0

• BiomarkerKB data portal available with OncoMX, OpenTargets, MarkerDB, ClinVar, PubMed Central Biomarker Gene Set Curation, MW, UniProtKB, GWAS, CIViC biomarker data.