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AcidGNet HCT116 acidosis reproducibility archive
Release: ams-revision-2026-11-11. This research companion contains analysis code, settings and derived result tables from secondary analyses of public cancer cell-line expression datasets. It is not a clinical prediction resource.
Verify the archived results
From this folder run python verify_results.py (Python 3.9+, standard library
only; no GPU, network or R). It checks file hashes and recalculates the shared
HCT116 DEG counts, one-sided Fisher enrichment, threshold-sensitivity counts,
BH correction of archived Reactome ORA P values, and external AUROC and exact
label-allocation P values from saved sample predictions. The report in
checks/ records this release check. This does not rerun raw-data processing
or train any model.
Sources and full analysis
metadata/: source accessions, upstream links, available version/checksum records and supplement inventory. Raw third-party datasets and databases are not redistributed.results/: archived differential expression, pathway results, sample predictions, robustness controls and figure source tables.src/,config/,environment/: research scripts, settings and environment notes. Historical R package versions could not be recovered; the Python lock file is an environment archive, not a per-run session capture.docs/: source acquisition, script order, interpretation and sharing notes.
The six-sample HCT116 result assesses ranking. Jointly selected concordant genes are descriptive candidates. The graph did not show a stable advantage over the expression baseline; no patient or functional validation is claimed.
Rights and citation
The authors must confirm the licence for their code and the redistribution terms of any derived tables before public release. No blanket licence is assigned to reused data or software. Cite the original GEO accessions and publications as well as this archive's immutable commit after release. No publication DOI or repository URL has been assigned in this local build.
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