Datasets:
row_id string | series_id string | exposure_rank int64 | organism string | strain_id string | antibiotic_name string | antibiotic_class string | auc_24_mg_h_L float64 | mic_mg_L float64 | auc_mic_ratio float64 | cfu0_log10 float64 | cfu24_log10 float64 | kill_24_log10 float64 | media string | assay_method string | source_type string | decoupling_signal int64 | earliest_decoupling int64 | notes string |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ABXPD006-TR-0001 | S1 | 1 | Escherichia coli | EC-ATCC25922 | levofloxacin | fluoroquinolone | 40 | 0.25 | 160 | 7.2 | 5.2 | 2 | CAMHB | auc_time_kill | simulated | 0 | 0 | baseline exposure |
ABXPD006-TR-0002 | S1 | 2 | Escherichia coli | EC-ATCC25922 | levofloxacin | fluoroquinolone | 80 | 0.25 | 320 | 7.2 | 4.6 | 2.6 | CAMHB | auc_time_kill | simulated | 0 | 0 | more killing with higher ratio |
ABXPD006-TR-0003 | S1 | 3 | Escherichia coli | EC-ATCC25922 | levofloxacin | fluoroquinolone | 140 | 0.25 | 560 | 7.2 | 3.9 | 3.3 | CAMHB | auc_time_kill | simulated | 0 | 0 | expected monotone gain |
ABXPD006-TR-0004 | S2 | 1 | Klebsiella pneumoniae | KP-CLIN088 | ceftriaxone | 3rd_gen_cephalosporin | 120 | 0.5 | 240 | 7.1 | 5.1 | 2 | CAMHB | auc_time_kill | simulated | 0 | 0 | baseline |
ABXPD006-TR-0005 | S2 | 2 | Klebsiella pneumoniae | KP-CLIN088 | ceftriaxone | 3rd_gen_cephalosporin | 220 | 0.5 | 440 | 7.1 | 5.05 | 2.05 | CAMHB | auc_time_kill | simulated | 1 | 1 | ratio up kill flat |
ABXPD006-TR-0006 | S2 | 3 | Klebsiella pneumoniae | KP-CLIN088 | ceftriaxone | 3rd_gen_cephalosporin | 360 | 0.5 | 720 | 7.1 | 5.2 | 1.9 | CAMHB | auc_time_kill | simulated | 1 | 0 | ratio up kill worse |
ABXPD006-TR-0007 | S3 | 1 | Staphylococcus aureus | SA-ATCC29213 | vancomycin | glycopeptide | 180 | 1 | 180 | 6.9 | 5.2 | 1.7 | CAMHB | auc_time_kill | simulated | 0 | 0 | baseline |
ABXPD006-TR-0008 | S3 | 2 | Staphylococcus aureus | SA-ATCC29213 | vancomycin | glycopeptide | 300 | 1 | 300 | 6.9 | 4.7 | 2.2 | CAMHB | auc_time_kill | simulated | 0 | 0 | expected improvement |
ABXPD006-TR-0009 | S3 | 3 | Staphylococcus aureus | SA-ATCC29213 | vancomycin | glycopeptide | 420 | 1 | 420 | 6.9 | 4.75 | 2.15 | CAMHB | auc_time_kill | simulated | 0 | 0 | small variance |
ABXPD006-TR-0010 | S4 | 1 | Escherichia coli | EC-CLIN501 | meropenem | carbapenem | 90 | 0.03 | 3,000 | 7.2 | 6.6 | 0.6 | CAMHB | auc_time_kill | simulated | 0 | 0 | low kill despite high ratio single row |
ABX-PD-006: AUC/MIC Ratio Decoupling
This dataset tests when AUC/MIC stops predicting bacterial killing.
The expected pattern is simple.
Higher AUC/MIC should produce more 24h killing.
Decoupling is when AUC/MIC rises but killing does not improve.
Files
- data/train.csv
- data/test.csv
- scorer.py
Schema
Each row is one exposure condition in an ordered series.
Required columns
- row_id
- series_id
- exposure_rank
- organism
- strain_id
- antibiotic_name
- antibiotic_class
- auc_24_mg_h_L
- mic_mg_L
- auc_mic_ratio
- cfu0_log10
- cfu24_log10
- kill_24_log10
- media
- assay_method
- source_type
- decoupling_signal
- earliest_decoupling
Labels
decoupling_signal
- 1 for rows at or after decoupling
earliest_decoupling
- 1 only for the first detected row in that series
Evaluation
Run
- python scorer.py --path data/test.csv
The scorer
- checks ratio consistency
- detects decoupling when ratio rises but kill does not
- avoids false calls when baseline inoculum varies too much
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