config.json

{
 "approved_by_author": "\u231b",
 "citation": "Goeminne, L. J. E., et al. \"Plasma protein-based organ-specific aging and mortality models unveil diseases as accelerated aging of organismal systems.\" Cell Metabolism 37, 205\u2013222.e6 (2025).",
 "citations": 128,
 "citations_date": "2026-10-02",
 "clock_name": "organagemortalitythyroid",
 "data_type": "proteomics",
 "doi": "https://doi.org/10.1016/j.cmet.2024.10.005",
 "journal": "Cell Metabolism",
 "last_author": "Vadim N. Gladyshev",
 "model_type": "elastic net Cox regression",
 "n_features": 2,
 "notes": "Thyroid OrganAge mortality model for Olink Explore 3072, using author-recommended fold 1. Trained on UK Biobank plasma measured with Olink Explore 3072. Input columns are original case-sensitive protein symbols (e.g. NTproBNP, HLA-DRA), not UniProt IDs or Olink assay IDs. Values are assay-normalized Olink NPX on the log2 relative-abundance scale, not raw counts, concentrations, linear abundances or z-scores. No additional centering or cohort scaling is applied. Absent proteins contribute zero; NaNs in supplied proteins propagate, matching the original Example_Script.R scoring expressions. For other assays, the authors recommend a symmetric abundance distribution, protein-wise mean subtraction and SD division, then multiplication by the full-model UKB protein SDs in Table S3. This cohort-dependent cross-platform preparation is not performed by pyaging. The optional Example_Script.R SD-matching step is also external; NPX labeling alone does not establish comparability across Olink panels, batches, plasma and serum. Output is relative natural-log mortality hazard, not age in years. The 2026 Insilico trial used conventional OrganAge models on Olink Explore 3072 serum; organ-specific variants are not the six-clock comparison endpoints. pyaging returns the original raw score and does not apply the trial wrapper's cohort harmonization or mortality-to-years conversion. Models labelled Female and Male contain protein features; neither requires a sex covariate. Academic/non-commercial research use only; commercial use requires a separate license from the authors.",
 "platform": [
  "Olink Explore 3072"
 ],
 "population": "adults",
 "predicts": [
  "mortality risk"
 ],
 "reference_values": true,
 "research_only": true,
 "species": "Homo sapiens",
 "tissue": [
  "plasma"
 ],
 "training_target": [
  "mortality"
 ],
 "unit": [
  "log hazard"
 ],
 "version": "0.5.5",
 "year": 2025
}