Datasets:
row_id string | series_id string | timepoint_h int64 | host_model string | tox_biomarker_name string | tox_biomarker_units string | stress_index float64 | exposure_a_index float64 | exposure_b_index float64 | baseline_tox_biomarker float64 | monoA_tox_delta float64 | monoB_tox_delta float64 | expected_additive_tox float64 | observed_combo_tox float64 | tox_excess float64 | severe_toxicity_flag int64 | drug_a string | drug_b string | source_type string | toxicity_additivity_warning_signal int64 | earliest_toxicity_additivity_warning int64 | notes string |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ABXCT008-TR-0001 | S1 | 0 | human_sim | creatinine | mg_dL | 0.1 | 0.1 | 0.1 | 0.9 | 0.1 | 0.1 | 1.1 | 0.9 | -0.2 | 0 | gentamicin | vancomycin | simulated | 0 | 0 | baseline |
ABXCT008-TR-0002 | S1 | 12 | human_sim | creatinine | mg_dL | 0.9 | 0.85 | 0.85 | 0.9 | 0.1 | 0.1 | 1.1 | 1.2 | 0.1 | 0 | gentamicin | vancomycin | simulated | 0 | 0 | within additive |
ABXCT008-TR-0003 | S1 | 24 | human_sim | creatinine | mg_dL | 0.9 | 0.9 | 0.9 | 0.9 | 0.1 | 0.1 | 1.1 | 1.55 | 0.45 | 0 | gentamicin | vancomycin | simulated | 0 | 0 | first excess |
ABXCT008-TR-0004 | S1 | 36 | human_sim | creatinine | mg_dL | 0.9 | 0.9 | 0.9 | 0.9 | 0.1 | 0.1 | 1.1 | 1.6 | 0.5 | 0 | gentamicin | vancomycin | simulated | 1 | 1 | confirmed warning |
ABXCT008-TR-0005 | S1 | 72 | human_sim | creatinine | mg_dL | 0.9 | 0.9 | 0.9 | 0.9 | 0.1 | 0.1 | 1.1 | 2.4 | 1.3 | 1 | gentamicin | vancomycin | simulated | 1 | 0 | severe later |
ABXCT008-TR-0006 | S2 | 0 | human_sim | ALT | U_L | 0.1 | 0.1 | 0.1 | 25 | 5 | 5 | 35 | 26 | -9 | 0 | rifampin | linezolid | simulated | 0 | 0 | baseline |
ABXCT008-TR-0007 | S2 | 24 | human_sim | ALT | U_L | 0.9 | 0.9 | 0.9 | 25 | 5 | 5 | 35 | 36 | 1 | 0 | rifampin | linezolid | simulated | 0 | 0 | no excess |
ABXCT008-TR-0008 | S2 | 48 | human_sim | ALT | U_L | 0.9 | 0.9 | 0.9 | 25 | 5 | 5 | 35 | 34 | -1 | 0 | rifampin | linezolid | simulated | 0 | 0 | stable |
ABXCT008-TR-0009 | S3 | 0 | human_sim | creatinine | mg_dL | 0.1 | 0.9 | 0.9 | 2.2 | 0.1 | 0.1 | 2.4 | 2.2 | -0.2 | 0 | gentamicin | vancomycin | simulated | 0 | 0 | baseline already high |
ABXCT008-TR-0010 | S4 | 0 | human_sim | creatinine | mg_dL | 0.3 | 0.9 | 0.9 | 0.9 | 0.1 | 0.1 | 1.1 | 1.55 | 0.45 | 1 | gentamicin | vancomycin | simulated | 0 | 0 | stress low |
ABX-CT-008 Toxicity-Additivity Warning
Purpose
Detect when combined toxicity exceeds simple additivity from each drug alone.
Core pattern
- stress_index high
- exposure indices high
- tox_excess rises and stays high
- later severe_toxicity_flag appears
Files
- data/train.csv
- data/test.csv
- scorer.py
Schema
Each row is one timepoint in a within series time course.
Required columns
- row_id
- series_id
- timepoint_h
- host_model
- tox_biomarker_name
- tox_biomarker_units
- stress_index
- exposure_a_index
- exposure_b_index
- baseline_tox_biomarker
- monoA_tox_delta
- monoB_tox_delta
- expected_additive_tox
- observed_combo_tox
- tox_excess
- severe_toxicity_flag
- drug_a
- drug_b
- source_type
- toxicity_additivity_warning_signal
- earliest_toxicity_additivity_warning
Labels
toxicity_additivity_warning_signal
- 1 for rows at or after first confirmed warning point
earliest_toxicity_additivity_warning
- 1 only for the first warning row in that series
Scorer logic in v1
- baseline_tox_biomarker must be below a simple ceiling
- candidate warning point
- stress_index at least 0.80
- exposure_a_index and exposure_b_index at least 0.80
- tox_excess at least 0.40 at two consecutive timepoints
- exclude tox_excess spike then snapback artifacts
- confirmation
- severe_toxicity_flag equals 1 later in series
Evaluation
Run
- python scorer.py --path data/test.csv
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