2026-10-12T12:22:42Z https://www.scidb.cn/oai

10.57760/sciencedb.012kb 2026-09-20T10:18:25Z

2026-09-20 Code and Data Deposit — Plaque Mechanotransduction Reanalysis doi:10.57760/sciencedb.012kb en This deposit accompanies the manuscript "The Mechanical-Force-Related Transcriptome of Human Carotid Plaque Co-varies With the Macrophage–Foam-Cell Compartment and Is Not Detectable in Circulating Blood". All primary datasets are public (GEO and GTEx); this deposit does not redistribute raw series matrix files but provides the derived data objects that are not re-derivable in practice from the GEO series pages alone, together with the complete analysis code, so that every number reported in the manuscript can be reproduced and audited. Derived data comprise Supplementary Tables S1–S11: the reconstructed 2,609-gene mechanical-force-related (MRG) set with per-gene provenance; plaque and blood differential-expression statistics; power analysis; cell-type marker-programme scores; an 816-gene × 13-cell-type signature matrix derived from the GSE159677 single-cell carotid atlas with NNLS deconvolution fractions; composition-adjusted differential expression; and GSE21545 within-patient plaque–PBMC paired scores (n = 96). Analysis code is deposited under its original run names; all random processes use fixed seeds written in each script header, with 00_run_all.py as the master runner. The deposit spans three public cohorts (GSE43292 paired plaque–intima; PREDICT and Cathgen blood cohorts), the GSE159677 single-cell deconvolution reference, the GSE21545 within-patient paired validation, and a GTEx v8 same-donor artery↔whole-blood contrast; the cross-tissue regression is calibrated with a 20,000-set expression-matched empirical null. Runtime: Python 3.13 (NumPy, pandas, SciPy, scikit-learn, Scanpy). atherosclerosis; carotid plaque; mechanical-force-related genes; transcriptome; cell-type deconvolution; reproducible analysis code youbin Liu RESTRICTED dataset Science Data Bank