Reproducibility archive for manuscript 623972: histone-cluster and prespecified ion-channel transcriptomic analyses in endometriosis

inal reproducibility archive supporting the revised analysis of manuscript 623972. The archive contains auditable GSE51981 and GSE153739 processed-expression workflows, proliferation and menstrual-phase sensitivity analyses, targeted histone-rich pathway analyses, and a pre-specified confirmatory ion-channel analysis with frozen gene sets and decision rules. It includes input matrices, analysis scripts, exact output tables including negative results, session information, run logs, the pre-specification and deviations log, and SHA256 checksums. Legacy differential-expression results that could not be reproduced from a documented statistical pipeline are not treated as verified findings in the revised manuscript.