_dashboard_state.json

{
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    "problem_statement": "Determine the effect of JAK inhibitor treatment on T-cell activation states in rheumatoid arthritis.",
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    "tissue": "synovial_fluid",
    "modality": "scRNA-seq",
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      "output_summary": "Collected 6 samples (quality=0.56)",
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    "justification": "The recent historical sample was from 'blood', but the target tissue specified in the query ('synovial_fluid') differs significantly due to disease pathology affecting local fluid composition. Stratifying based on organ/tissue type ensures cohort homogeneity required for comparing RA vs non-RA controls within the specific joint space.",
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    "summary": "Selected cohort of 4 samples with criteria {}",
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  "latent": {
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    "hidden_failure_conditions": [
      "High ambient RNA may confound DE in low-abundance transcripts"
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}