Datasets:
row_id
string | series_id
string | exposure_rank
int64 | organism
string | strain_id
string | antibiotic_name
string | antibiotic_class
string | ft_greater_mic_frac
float64 | mic_mg_L
float64 | cfu0_log10
float64 | cfu24_log10
float64 | kill_24_log10
float64 | media
string | assay_method
string | source_type
string | threshold_drift_signal
int64 | earliest_drift
int64 | notes
string |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ABXPD008-TR-0001
|
S1
| 1
|
Escherichia coli
|
EC-ATCC25922
|
piperacillin_tazobactam
|
beta_lactam
| 0.35
| 1
| 7.2
| 6.2
| 1
|
CAMHB
|
ftmic_time_kill
|
simulated
| 0
| 0
|
baseline
|
ABXPD008-TR-0002
|
S1
| 2
|
Escherichia coli
|
EC-ATCC25922
|
piperacillin_tazobactam
|
beta_lactam
| 0.5
| 1
| 7.2
| 5.6
| 1.6
|
CAMHB
|
ftmic_time_kill
|
simulated
| 0
| 0
|
improves
|
ABXPD008-TR-0003
|
S1
| 3
|
Escherichia coli
|
EC-ATCC25922
|
piperacillin_tazobactam
|
beta_lactam
| 0.7
| 1
| 7.2
| 4.9
| 2.3
|
CAMHB
|
ftmic_time_kill
|
simulated
| 0
| 0
|
improves
|
ABXPD008-TR-0004
|
S2
| 1
|
Klebsiella pneumoniae
|
KP-CLIN190
|
ceftriaxone
|
beta_lactam
| 0.4
| 0.5
| 7.1
| 5.2
| 1.9
|
CAMHB
|
ftmic_time_kill
|
simulated
| 0
| 0
|
baseline
|
ABXPD008-TR-0005
|
S2
| 2
|
Klebsiella pneumoniae
|
KP-CLIN190
|
ceftriaxone
|
beta_lactam
| 0.55
| 0.5
| 7.1
| 5.15
| 1.95
|
CAMHB
|
ftmic_time_kill
|
simulated
| 1
| 1
|
ftmic up kill flat
|
ABXPD008-TR-0006
|
S2
| 3
|
Klebsiella pneumoniae
|
KP-CLIN190
|
ceftriaxone
|
beta_lactam
| 0.7
| 0.5
| 7.1
| 5.3
| 1.8
|
CAMHB
|
ftmic_time_kill
|
simulated
| 1
| 0
|
ftmic up kill worse
|
ABXPD008-TR-0007
|
S3
| 1
|
Staphylococcus aureus
|
SA-CLIN701
|
cefazolin
|
beta_lactam
| 0.45
| 0.5
| 6.9
| 5.6
| 1.3
|
CAMHB
|
ftmic_time_kill
|
simulated
| 0
| 0
|
baseline
|
ABXPD008-TR-0008
|
S3
| 2
|
Staphylococcus aureus
|
SA-CLIN701
|
cefazolin
|
beta_lactam
| 0.6
| 0.5
| 6.9
| 5
| 1.9
|
CAMHB
|
ftmic_time_kill
|
simulated
| 0
| 0
|
improves
|
ABXPD008-TR-0009
|
S3
| 3
|
Staphylococcus aureus
|
SA-CLIN701
|
cefazolin
|
beta_lactam
| 0.75
| 0.5
| 6.9
| 5.05
| 1.85
|
CAMHB
|
ftmic_time_kill
|
simulated
| 0
| 0
|
small variance
|
ABXPD008-TR-0010
|
S4
| 1
|
Pseudomonas aeruginosa
|
PA-CLIN404
|
cefepime
|
beta_lactam
| 0.55
| 2
| 7.3
| 6.9
| 0.4
|
CAMHB
|
ftmic_time_kill
|
simulated
| 0
| 0
|
single row control
|
ABX-PD-008: Time Above MIC Threshold Drift
This dataset tests when the required fT>MIC rises before obvious clinical failure.
The expected pattern is simple.
Higher fT>MIC should produce more 24h killing.
Drift is when fT>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
- ft_greater_mic_frac
- mic_mg_L
- cfu0_log10
- cfu24_log10
- kill_24_log10
- media
- assay_method
- source_type
- threshold_drift_signal
- earliest_drift
Labels
threshold_drift_signal
- 1 for rows at or after drift
earliest_drift
- 1 only for the first detected row in that series
Evaluation
Run
- python scorer.py --path data/test.csv
The scorer
- detects drift when fT>MIC rises but killing does not
- requires exposure to be maintained
- avoids false calls when baseline inoculum varies too much
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