dataset_registry.json

{
  "datasets": {
    "dev_eqtl_dlpfc": {
      "qtl_type": "eqtl",
      "omics_layer": "eQTL",
      "tissue": "DLPFC",
      "cohort": "ROSMAP",
      "n_samples": 458,
      "data_dir": "results/dev_eqtl_dlpfc",
      "description": "Voom-normalized, batch-corrected log2-CPM from ROSMAP bulk RNA-seq of dorsolateral prefrontal cortex. Joint normalization with PARDoS samples from shared batches (117, 129, 130, 131). All duplicates kept during normalization for better batch estimates, then deduplicated. GENCODE v43. Sample identity corrected using rnaseq_revised_swap_assessment_20260312.csv.gz.",
      "assay": "Bulk RNA Sequencing (Bulk RNA-seq)",
      "molecule": "transcriptomics"
    },
    "dev_hmcqtl_dlpfc": {
      "qtl_type": "hmcqtl",
      "omics_layer": "5hmCQTL",
      "tissue": "DLPFC",
      "cohort": "ROSMAP",
      "n_samples": 458,
      "data_dir": "results/dev_hmcqtl_dlpfc",
      "description": "5hmC DLPFC peaks, VST + ComBat, collapsed to one observation per individual. Sex/swap exclusions applied.",
      "assay": "DNA 5-hydroxymethylcytosine Sequencing (5hmC-DNA-seq)",
      "molecule": "methylation"
    },
    "dev_hmcqtl_serum": {
      "qtl_type": "hmcqtl_serum",
      "omics_layer": "5hmCQTL-serum",
      "tissue": "Serum-cfDNA",
      "cohort": "ROSMAP",
      "n_samples": 458,
      "data_dir": "results/dev_hmcqtl_serum",
      "description": "5hmC cfDNA MACS2 peaks, VST + ComBat, sex/swap exclusions applied.",
      "assay": "DNA 5-hydroxymethylcytosine Sequencing (5hmC-DNA-seq)",
      "molecule": "methylation"
    }
  }
}