Datasets:
row_id
string | series_id
string | timepoint_h
int64 | organism
string | strain_id
string | antibiotic_name
string | antibiotic_class
string | exposure_index
float64 | mic_mg_L
float64 | pae_hours
float64 | media
string | assay_method
string | source_type
string | pae_loss_signal
int64 | earliest_pae_loss
int64 | notes
string |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ABXPD003-TR-0001
|
S1
| 0
|
Escherichia coli
|
EC-ATCC25922
|
meropenem
|
carbapenem
| 1
| 0.03
| 3.5
|
CAMHB
|
pae_regrowth_delay
|
simulated
| 0
| 0
|
baseline PAE
|
ABXPD003-TR-0002
|
S1
| 24
|
Escherichia coli
|
EC-ATCC25922
|
meropenem
|
carbapenem
| 1.1
| 0.03
| 3.4
|
CAMHB
|
pae_regrowth_delay
|
simulated
| 0
| 0
|
stable
|
ABXPD003-TR-0003
|
S1
| 48
|
Escherichia coli
|
EC-ATCC25922
|
meropenem
|
carbapenem
| 1.05
| 0.03
| 3.3
|
CAMHB
|
pae_regrowth_delay
|
simulated
| 0
| 0
|
stable
|
ABXPD003-TR-0004
|
S2
| 0
|
Klebsiella pneumoniae
|
KP-CLIN021
|
ceftriaxone
|
3rd_gen_cephalosporin
| 1
| 0.5
| 2.8
|
CAMHB
|
pae_regrowth_delay
|
simulated
| 0
| 0
|
baseline PAE
|
ABXPD003-TR-0005
|
S2
| 24
|
Klebsiella pneumoniae
|
KP-CLIN021
|
ceftriaxone
|
3rd_gen_cephalosporin
| 1
| 0.5
| 2.6
|
CAMHB
|
pae_regrowth_delay
|
simulated
| 0
| 0
|
small drop
|
ABXPD003-TR-0006
|
S2
| 48
|
Klebsiella pneumoniae
|
KP-CLIN021
|
ceftriaxone
|
3rd_gen_cephalosporin
| 1.05
| 0.5
| 1.3
|
CAMHB
|
pae_regrowth_delay
|
simulated
| 1
| 1
|
PAE halves before MIC changes
|
ABXPD003-TR-0007
|
S2
| 72
|
Klebsiella pneumoniae
|
KP-CLIN021
|
ceftriaxone
|
3rd_gen_cephalosporin
| 1.1
| 0.5
| 1.1
|
CAMHB
|
pae_regrowth_delay
|
simulated
| 1
| 0
|
continued low PAE
|
ABXPD003-TR-0008
|
S3
| 0
|
Staphylococcus aureus
|
SA-ATCC29213
|
vancomycin
|
glycopeptide
| 1
| 1
| 2.2
|
CAMHB
|
pae_regrowth_delay
|
simulated
| 0
| 0
|
baseline
|
ABXPD003-TR-0009
|
S3
| 24
|
Staphylococcus aureus
|
SA-ATCC29213
|
vancomycin
|
glycopeptide
| 1
| 1
| 0.2
|
CAMHB
|
pae_regrowth_delay
|
simulated
| 0
| 0
|
likely measurement issue
|
ABXPD003-TR-0010
|
S3
| 48
|
Staphylococcus aureus
|
SA-ATCC29213
|
vancomycin
|
glycopeptide
| 1
| 1
| 2.1
|
CAMHB
|
pae_regrowth_delay
|
simulated
| 0
| 0
|
snap back supports error
|
ABX-PD-003: Post-Antibiotic Effect Loss
This dataset tests early resistance signals that appear before MIC changes.
The signal is loss of the post-antibiotic effect.
PAE is the duration of growth suppression after drug removal.
Files
- data/train.csv
- data/test.csv
- scorer.py
Schema
Each row is one timepoint in a longitudinal series.
Required columns
- row_id
- series_id
- timepoint_h
- organism
- strain_id
- antibiotic_name
- antibiotic_class
- exposure_index
- mic_mg_L
- pae_hours
- media
- assay_method
- source_type
- pae_loss_signal
- earliest_pae_loss
Labels
pae_loss_signal
- 1 for rows at or after meaningful PAE loss
earliest_pae_loss
- 1 only for the first detected row in that series
Evaluation
Run
- python scorer.py --path data/test.csv
The scorer reports
- series level F1 for pae_loss_signal
- earliest loss hits and misses
- measurement spike flags
Notes
The scorer avoids a common mistake.
It does not call resistance when exposure collapses.
It also flags spike and snap PAE values as likely measurement artifacts.
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