2026-10-14T15:48:56Z https://api.figshare.com/v2/oai

oai:figshare.com:article/34048580 2026-10-01T17:34:42Z category_7 category_12 category_13 category_14 category_46 category_734 category_132 portal_5 item_type_1 month_year_10_2026

<p>Permutation-based calibration of cross-disease module matching.</p> Jiayin Pang (4862023) Yu Li (183836) Zhichao Qi (107502) Wenbin Yang (661259) Medicine Cell Biology Genetics Molecular Biology Immunology Biological Sciences not elsewhere classified Infectious Diseases weighted gene co showed greater attenuation robust rank aggregation prespecified score threshold osteogenic stromal compartments integrating interaction topology expression network analysis evaluated network configurations derived carnival scores analyzed independently within 53 retained pair global null expectation xlink "> osteoarthritis shared biological processes context evidence retained 39 evaluable candidate osteoporosis frequently coexist least one compartment four evaluable configurations first multilayer public extracellular matrix organization data integration framework preserving null model positive module pairs osteoporosis </ p whereas hsp90aa1 exceeded first public data integration positive pairs null calibration shared axis osteoarthritis synovium module correspondences highest model genetic evidence candidate genes supported pairs positive coexpression total number tissue support specific support specific structure signaling priors related monocytes recalculation using ranked candidates provide candidates primary matched osteoclast differentiation older adults <p>(A) Null distribution of the total number of criteria-positive OA-OP module pairs across 10,000 block-stratified module-label permutations preserving each block-specific gene universe and exact module sizes. The orange line indicates the observed count of 234, the dashed blue line indicates the null mean of 254.83, and blue shading indicates the 95% null interval of 242–267. The upper-tail empirical P value was 0.9995. (B) Observed and null-calibrated counts for the nine OA-OP block combinations. Blue points and horizontal intervals indicate null means and 95% intervals; orange points indicate observed counts. Numbers indicate pair-specific correspondences with empirical FDR < 0.05. (C) Pair-specific empirical FDR across all 464 tested module combinations. Cells are colored by pair-level -log10(empirical FDR) for the 234 criteria-positive pairs; white cells did not meet the deterministic criteria. Black dots indicate the 53 pairs with empirical FDR < 0.05. OA, osteoarthritis; OP, osteoporosis; FDR, false discovery rate.</p> <p>(TIF)</p> 2026-10-01T17:34:29Z Image Figure 10.1371/journal.pone.0359583.s011 https://figshare.com/articles/figure/_p_Permutation-based_calibration_of_cross-disease_module_matching_p_/34048580 CC BY 4.0