{
  "dataset": "GSE325735",
  "contrast": "Dox 2000 ng/mL, SRSF1 transgene versus mTagBFP2/BFP control, matched by donor line and passage",
  "mapping_source": "Direct sample-ID mapping from Nature Aging Supplementary Table 15, sheet 3a (MOESM15), whose SampleID values match the human raw-count matrix column aliases.",
  "mapping_qc": {
    "supplementary_table_sample_rows_Dox2000_SRSF1_or_BFP": 34,
    "directly_mapped_comparison_samples": 24,
    "comparison_groups": 6,
    "independent_donor_line_count": 6,
    "replicates_per_group": 2,
    "all_24_comparison_samples_directly_mapped": true
  },
  "method": "Raw gene counts; log2(CPM+0.5); two technical replicates averaged within each group; paired SRSF1-minus-BFP contrasts computed per independent donor line. No mapping by GEO accession order.",
  "human_raw_counts_sha256": "8f1d726665a18a0f92285d790014077953be1e0733c93efc92939a1c4090046d",
  "supplementary_table15_sha256": "ccc325183e166fcd7adf23f853b76a90337e7d4fc49ad165a5c1b5aee0a069a3",
  "gene_ids": {
    "SRSF1": "ENSG00000136450",
    "IL1R1": "ENSG00000115594",
    "IL1B": "ENSG00000125538",
    "IL6": "ENSG00000136244",
    "CXCL8": "ENSG00000169429",
    "MYC": "ENSG00000136997",
    "KRAS": "ENSG00000133703",
    "MAPK1": "ENSG00000100030",
    "MAPK3": "ENSG00000102882",
    "NFKBIA": "ENSG00000100906",
    "CDKN1A": "ENSG00000124762",
    "CDKN2A": "ENSG00000147889",
    "SERPINE1": "ENSG00000106366",
    "MKI67": "ENSG00000148773",
    "CCND1": "ENSG00000110092",
    "TP53": "ENSG00000141510",
    "COL1A1": "ENSG00000108821",
    "COL3A1": "ENSG00000168542"
  },
  "summary": {
    "IL1R1": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": -0.6059789201751848,
      "median_log2_CPM_difference": -0.513828701866931,
      "fold_change_CPM_plus_half": 0.6570254135795662,
      "donor_lines_increased": 0,
      "donor_lines_decreased": 6,
      "exploratory_two_sided_exact_sign_test_p": 0.03125,
      "directional_summary_only": true
    },
    "IL1B": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": 0.012202739716974581,
      "median_log2_CPM_difference": -0.1285689744820747,
      "fold_change_CPM_plus_half": 1.0084941670725178,
      "donor_lines_increased": 2,
      "donor_lines_decreased": 4,
      "exploratory_two_sided_exact_sign_test_p": 0.6875,
      "directional_summary_only": true
    },
    "COL3A1": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": -1.4380866188175314,
      "median_log2_CPM_difference": -1.622043860075003,
      "fold_change_CPM_plus_half": 0.36905644275831806,
      "donor_lines_increased": 0,
      "donor_lines_decreased": 6,
      "exploratory_two_sided_exact_sign_test_p": 0.03125,
      "directional_summary_only": true
    },
    "CXCL8": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": 1.3858008684400371,
      "median_log2_CPM_difference": 1.3231737285251994,
      "fold_change_CPM_plus_half": 2.61316979365296,
      "donor_lines_increased": 6,
      "donor_lines_decreased": 0,
      "exploratory_two_sided_exact_sign_test_p": 0.03125,
      "directional_summary_only": true
    },
    "CDKN1A": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": 1.141004096226868,
      "median_log2_CPM_difference": 0.9937889901310761,
      "fold_change_CPM_plus_half": 2.205344587737591,
      "donor_lines_increased": 6,
      "donor_lines_decreased": 0,
      "exploratory_two_sided_exact_sign_test_p": 0.03125,
      "directional_summary_only": true
    },
    "IL6": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": -0.3845276670808289,
      "median_log2_CPM_difference": -0.5392443377682418,
      "fold_change_CPM_plus_half": 0.7660297527510057,
      "donor_lines_increased": 2,
      "donor_lines_decreased": 4,
      "exploratory_two_sided_exact_sign_test_p": 0.6875,
      "directional_summary_only": true
    },
    "SERPINE1": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": -0.861742578974145,
      "median_log2_CPM_difference": -0.9153229339203683,
      "fold_change_CPM_plus_half": 0.5502874840817332,
      "donor_lines_increased": 0,
      "donor_lines_decreased": 6,
      "exploratory_two_sided_exact_sign_test_p": 0.03125,
      "directional_summary_only": true
    },
    "MYC": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": -0.2566761482239195,
      "median_log2_CPM_difference": -0.25172115399039585,
      "fold_change_CPM_plus_half": 0.8370141119676439,
      "donor_lines_increased": 0,
      "donor_lines_decreased": 6,
      "exploratory_two_sided_exact_sign_test_p": 0.03125,
      "directional_summary_only": true
    },
    "CDKN2A": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": -1.041355247877296,
      "median_log2_CPM_difference": -1.2431367919478777,
      "fold_change_CPM_plus_half": 0.485870838878543,
      "donor_lines_increased": 0,
      "donor_lines_decreased": 6,
      "exploratory_two_sided_exact_sign_test_p": 0.03125,
      "directional_summary_only": true
    },
    "MKI67": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": -0.39859880235243345,
      "median_log2_CPM_difference": -0.137736976629804,
      "fold_change_CPM_plus_half": 0.7585947002129855,
      "donor_lines_increased": 2,
      "donor_lines_decreased": 4,
      "exploratory_two_sided_exact_sign_test_p": 0.6875,
      "directional_summary_only": true
    },
    "CCND1": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": 0.03195117115915055,
      "median_log2_CPM_difference": 0.04828066856860236,
      "fold_change_CPM_plus_half": 1.0223939265156803,
      "donor_lines_increased": 3,
      "donor_lines_decreased": 3,
      "exploratory_two_sided_exact_sign_test_p": 1.0,
      "directional_summary_only": true
    },
    "KRAS": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": -0.17676301529882732,
      "median_log2_CPM_difference": -0.1950707921077397,
      "fold_change_CPM_plus_half": 0.884685746546036,
      "donor_lines_increased": 1,
      "donor_lines_decreased": 5,
      "exploratory_two_sided_exact_sign_test_p": 0.21875,
      "directional_summary_only": true
    },
    "NFKBIA": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": 0.3637989850837096,
      "median_log2_CPM_difference": 0.4309601939080112,
      "fold_change_CPM_plus_half": 1.2868099398202553,
      "donor_lines_increased": 5,
      "donor_lines_decreased": 1,
      "exploratory_two_sided_exact_sign_test_p": 0.21875,
      "directional_summary_only": true
    },
    "MAPK3": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": -0.1558599808514908,
      "median_log2_CPM_difference": -0.17564902045072994,
      "fold_change_CPM_plus_half": 0.8975971617253995,
      "donor_lines_increased": 1,
      "donor_lines_decreased": 5,
      "exploratory_two_sided_exact_sign_test_p": 0.21875,
      "directional_summary_only": true
    },
    "TP53": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": 0.44409233294422457,
      "median_log2_CPM_difference": 0.5705109757955373,
      "fold_change_CPM_plus_half": 1.3604579193619029,
      "donor_lines_increased": 5,
      "donor_lines_decreased": 1,
      "exploratory_two_sided_exact_sign_test_p": 0.21875,
      "directional_summary_only": true
    },
    "COL1A1": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": -0.975051675429083,
      "median_log2_CPM_difference": -0.98538560089911,
      "fold_change_CPM_plus_half": 0.5087216239889725,
      "donor_lines_increased": 0,
      "donor_lines_decreased": 6,
      "exploratory_two_sided_exact_sign_test_p": 0.03125,
      "directional_summary_only": true
    },
    "SRSF1": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": -3.8022806630424006,
      "median_log2_CPM_difference": -3.8566285025932654,
      "fold_change_CPM_plus_half": 0.07168024292608366,
      "donor_lines_increased": 0,
      "donor_lines_decreased": 6,
      "exploratory_two_sided_exact_sign_test_p": 0.03125,
      "directional_summary_only": true
    },
    "MAPK1": {
      "n_independent_donor_lines": 6,
      "mean_log2_CPM_difference": 0.024932755492553877,
      "median_log2_CPM_difference": -0.0035720006082646805,
      "fold_change_CPM_plus_half": 1.0174322681327692,
      "donor_lines_increased": 2,
      "donor_lines_decreased": 4,
      "exploratory_two_sided_exact_sign_test_p": 0.6875,
      "directional_summary_only": true
    }
  },
  "limitations": [
    "Secondary reanalysis of the originating study, not independent biological replication.",
    "Only six donor-derived fibroblast lines, one Dox dose and one 3-day induction schedule are analyzed.",
    "Technical replicates are not treated as independent biological replicates.",
    "Exploratory sign tests have low power at n=6; no p-value is presented as confirmatory evidence.",
    "Selected marker panel only; no full differential-expression, splice-isoform, protein activity, tumor-incidence, organ-toxicity or clinical analysis.",
    "Bulk RNA expression cannot establish human benefit or safety.",
    "No therapeutic use, gene therapy, or self-experimentation is supported."
  ]
}