Datasets:
row_id string | series_id string | week int64 | host_model string | abx_drug string | abx_exposure_index float64 | severity_index float64 | pain_score int64 | expected_pain_score int64 | pain_nonresponse_vs_expected int64 | crp_mg_L int64 | expected_crp_mg_L int64 | crp_nonresponse_vs_expected int64 | imaging_activity_score int64 | expected_imaging_activity_score int64 | imaging_nonresponse_vs_expected int64 | osteo_coherence_index float64 | later_surgery_or_prolonged_therapy_or_relapse_flag int64 | assay_method string | source_type string | osteo_plateau_signal int64 | earliest_osteo_plateau int64 | notes string |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ABXCS005-TR-0001 | S1 | 0 | human_sim | vancomycin | 0.1 | 0.9 | 8 | 8 | 0 | 120 | 120 | 0 | 8 | 8 | 0 | 0.9 | 0 | osteo_panel | simulated | 0 | 0 | baseline |
ABXCS005-TR-0002 | S1 | 1 | human_sim | vancomycin | 0.9 | 0.9 | 6 | 6 | 0 | 95 | 95 | 0 | 7 | 7 | 0 | 0.86 | 0 | osteo_panel | simulated | 0 | 0 | tracks expected |
ABXCS005-TR-0003 | S1 | 2 | human_sim | vancomycin | 0.9 | 0.9 | 6 | 5 | 1 | 90 | 75 | 15 | 7 | 6 | 1 | 0.35 | 0 | osteo_panel | simulated | 0 | 0 | first plateau signal |
ABXCS005-TR-0004 | S1 | 3 | human_sim | vancomycin | 0.9 | 0.9 | 6 | 4 | 2 | 88 | 60 | 28 | 7 | 5 | 2 | 0.3 | 0 | osteo_panel | simulated | 1 | 1 | onset |
ABXCS005-TR-0005 | S1 | 6 | human_sim | vancomycin | 0.9 | 0.9 | 7 | 2 | 5 | 92 | 35 | 57 | 7 | 3 | 4 | 0.2 | 1 | osteo_panel | simulated | 1 | 0 | prolonged or surgery later |
ABXCS005-TR-0006 | S2 | 0 | human_sim | cefazolin | 0.1 | 0.8 | 7 | 7 | 0 | 110 | 110 | 0 | 8 | 8 | 0 | 0.9 | 0 | osteo_panel | simulated | 0 | 0 | baseline |
ABXCS005-TR-0007 | S2 | 2 | human_sim | cefazolin | 0.9 | 0.8 | 4 | 4 | 0 | 65 | 65 | 0 | 6 | 6 | 0 | 0.84 | 0 | osteo_panel | simulated | 0 | 0 | improves |
ABXCS005-TR-0008 | S2 | 6 | human_sim | cefazolin | 0.9 | 0.8 | 2 | 2 | 0 | 20 | 20 | 0 | 3 | 3 | 0 | 0.83 | 0 | osteo_panel | simulated | 0 | 0 | resolves |
ABXCS005-TR-0009 | S3 | 0 | human_sim | vancomycin | 0.9 | 0.9 | 1 | 1 | 0 | 120 | 120 | 0 | 8 | 8 | 0 | 0.9 | 1 | osteo_panel | simulated | 0 | 0 | baseline pain low |
ABXCS005-TR-0010 | S4 | 3 | human_sim | vancomycin | 0.3 | 0.9 | 6 | 4 | 2 | 88 | 60 | 28 | 7 | 5 | 2 | 0.3 | 1 | osteo_panel | simulated | 0 | 0 | exposure low |
ABX-CS-005 Osteomyelitis Treatment Plateau
Purpose
Detect early osteomyelitis response plateau when improvement stops despite adequate therapy.
Core pattern
- severity_index high
- abx_exposure_index high
- osteo_coherence_index drops
- pain_nonresponse_vs_expected stays high
- crp_nonresponse_vs_expected stays high
- later_surgery_or_prolonged_therapy_or_relapse_flag appears
Files
- data/train.csv
- data/test.csv
- scorer.py
Schema
Each row is one timepoint in a within series osteomyelitis course.
Required columns
- row_id
- series_id
- week
- host_model
- abx_drug
- abx_exposure_index
- severity_index
- pain_score
- expected_pain_score
- pain_nonresponse_vs_expected
- crp_mg_L
- expected_crp_mg_L
- crp_nonresponse_vs_expected
- imaging_activity_score
- expected_imaging_activity_score
- imaging_nonresponse_vs_expected
- osteo_coherence_index
- later_surgery_or_prolonged_therapy_or_relapse_flag
- assay_method
- source_type
- osteo_plateau_signal
- earliest_osteo_plateau
Labels
osteo_plateau_signal
- 1 for rows at or after first confirmed plateau onset
earliest_osteo_plateau
- 1 only for the first onset row in that series
Scorer logic in v1
- exclude series where baseline pain is already low
- candidate onset point
- abx_exposure_index at least 0.80
- severity_index at least 0.80
- osteo_coherence_index at most 0.40
- pain_nonresponse_vs_expected at least 1.5
- crp_nonresponse_vs_expected at least 20
- for two consecutive points
- ignore one point pain spike then recovery
- confirmation
- later_surgery_or_prolonged_therapy_or_relapse_flag equals 1 later in series
Evaluation
Run
- python scorer.py --path data/test.csv
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