Curated Machine Learning Models for MIC Prediction

Tetracycline

Pathogen: Escherichia coli
Algorithm: GDBT,LR,RF, SVC
Score: Average AUC: For EC: close to 1 (GDBT)
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Pathogen: Mycobacterium tuberculosis
Algorithm: GDBT,LR,RF, SVC
Score: Average AUC: For EC: close to 1 (GDBT)
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Pathogen: Neisseria gnorrheae
Algorithm: GDBT,LR,RF, SVC
Score: Average AUC: For EC: close to 1 (GDBT)
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Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92 (within ± 1 fold)
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90 (within ± 1 fold)
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Ampicillin

Pathogen: Escherichia coli
Algorithm: RF,GDBT, DNN
Score: Average accuracy: 0.91
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Pathogen: Escherichia coli
Algorithm: FFNNs-NCA
Score: Accuracy: 94% - 100%
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Pathogen: Klebsiella pneumoniae
Algorithm: FFNNs-NCA
Score: Accuracy: 94% - 100%
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Pathogen: Escherichia coli
Algorithm: LGB
Score: Average F1 score: 0.893
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Gentamicin

Pathogen: Escherichia coli
Algorithm: RF,GDBT, DNN
Score: Average accuracy: 0.91
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Pathogen: Escherichia coli
Algorithm: LGB
Score: Average F1 score: 0.893
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Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Trimethoprim/Sulfamethoxazole

Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN and enformer based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Pathogen: Acinetobacter baumannii
Algorithm: RF, SVM, XGB
Score: Within ± 1 fold Accuracy: 0.96
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Amikacin

Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Pathogen: Acinetobacter baumannii
Algorithm: RF, SVM, XGB
Score: Accuracy: 0.96
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Ampicillin/Sulbactam

Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Cefazolin

Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Nitrofurantoin

Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Amoxicillin

Pathogen: Escherichia coli
Algorithm: RF,GDBT, DNN
Score: Average accuracy: 0.91
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Pathogen: Escherichia coli
Algorithm: LGB
Score: Average F1 score: 0.893
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Amoxicillin-Clavulanate

Pathogen: Escherichia coli
Algorithm: RF,GDBT, DNN
Score: Average accuracy: 0.91
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Pathogen: Escherichia coli
Algorithm: LGB
Score: Average F1 score: 0.893
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Trimethoprim

Pathogen: Escherichia coli
Algorithm: RF,GDBT, DNN
Score: Average accuracy: 0.91
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Pathogen: Escherichia coli
Algorithm: LGB
Score: Average F1 score: 0.893
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Ciprofloxacin

Pathogen: Escherichia coli
Algorithm: RF,GDBT, DNN
Score: Average accuracy: 0.91
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Pathogen: Escherichia coli
Algorithm: RF, LR
Score: Accuracy: 65% (2 fold dilution); 93% (4 fold dilution)
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Pathogen: Escherichia coli
Algorithm: GDBT,LR,RF, SVC
Score: Average AUC: close to 1 (GDBT)
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Pathogen: Mycobacterium tuberculosis
Algorithm: GDBT,LR,RF, SVC
Score: Average AUC: close to 1 (GDBT)
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Pathogen: Neisseria gnorrheae
Algorithm: GDBT,LR,RF, SVC
Score: Average AUC: close to 1 (GDBT)
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Pathogen: Escherichia coli
Algorithm: XGB, L1 &L2 regression
Score: Accuracy = 0.81 - 0.95
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB, L1 &L2 regression
Score: Accuracy = 0.81 - 0.95
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Pathogen: Acinetobacter baumannii
Algorithm: XGB, L1 &L2 regression
Score: Accuracy = 0.81 - 0.95
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Pathogen: Escherichia coli
Algorithm: LGB
Score: Average F1 score: 0.893
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Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Pathogen: Pseudomonas aeruginosa
Algorithm: SVM
Score: F1 score: 0.82-0.92
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Pathogen: Pseudomonas aeruginosa
Algorithm: CB, GPC, GBC, KNN, LGB, RF, EGB
Score: F1 score: 0.6 - 0.629
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Pathogen: Acinetobacter baumannii
Algorithm: RF, SVM, XGB
Score: Accuracy: 0.96
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Tobramycin

Pathogen: Escherichia coli
Algorithm: RF,GDBT, DNN
Score: Average accuracy: 0.91
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Pathogen: Acinetobacter baumannii
Algorithm: XGB, L1 &L2 regression
Score: Accuracy: 0.81 - 0.95
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Pathogen: Escherichia coli
Algorithm: XGB, L1 &L2 regression
Score: Accuracy: 0.81 - 0.95
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB, L1 &L2 regression
Score: Accuracy: 0.81 - 0.95
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Pathogen: Escherichia coli
Algorithm: LGB
Score: Average F1 score: 0.893
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Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN and enformer based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Pathogen: Pseudomonas aeruginosa
Algorithm: SVM
Score: F1 score: 0.82-0.92
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Ceftazidime

Pathogen: Escherichia coli
Algorithm: RF,GDBT, DNN
Score: Average accuracy: 0.91
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Pathogen: Escherichia coli
Algorithm: FFNNs-NCA
Score: Accuracy: 94% - 100%
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Pathogen: Klebsiella pneumoniae
Algorithm: FFNNs-NCA
Score: Accuracy: 94% - 100%
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Pathogen: Escherichia coli
Algorithm: LGB
Score: Average F1 score: 0.893
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Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Pseudomonas aeruginosa
Algorithm: SVM
Score: F1 score: 0.82-0.92
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Pathogen: Pseudomonas aeruginosa
Algorithm: CB, GPC, GBC, KNN, LGB, RF, EGB
Score: F1 score: 0.6 - 0.629
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Pathogen: Acinetobacter baumannii
Algorithm: RF, SVM, XGB
Score: Accuracy: 0.96
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Cefepime

Pathogen: Escherichia coli
Algorithm: XGB, L1 &L2 regression
Score: Accuracy = 0.81 - 0.95
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB, L1 &L2 regression
Score: Accuracy = 0.81 - 0.95
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Pathogen: Acinetobacter baumannii
Algorithm: XGB, L1 &L2 regression
Score: Accuracy = 0.81 - 0.95
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Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Pathogen: Acinetobacter baumannii
Algorithm: RF, SVM, XGB
Score: Accuracy: 0.96
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Levofloxacin

Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Acinetobacter baumannii
Algorithm: XGB, L1 &L2 regression
Score: Accuracy = 0.81 - 0.95
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Pathogen: Escherichia coli
Algorithm: XGB, L1 &L2 regression
Score: Accuracy = 0.81 - 0.95
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB, L1 &L2 regression
Score: Accuracy = 0.81 - 0.95
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92 (within ± 1 fold)
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90 (within ± 1 fold)
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Pathogen: Acinetobacter baumannii
Algorithm: RF, SVM, XGB
Score: Accuracy: 0.96
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Cefotaxime

Pathogen: Escherichia coli
Algorithm: RF,GDBT, DNN
Score: Average accuracy: 0.91
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Pathogen: Escherichia coli
Algorithm: XGB, L1 &L2 regression
Score: Accuracy = 0.81 - 0.95
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB, L1 &L2 regression
Score: Accuracy = 0.81 - 0.95
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Pathogen: Acinetobacter baumannii
Algorithm: XGB, L1 &L2 regression
Score: Accuracy = 0.81 - 0.95
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Pathogen: Escherichia coli
Algorithm: FFNNs-NCA
Score: Accuracy: 94% - 100%
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Pathogen: Klebsiella pneumoniae
Algorithm: FFNNs-NCA
Score: Accuracy: 94% - 100%
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Cefoxitin

Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Cefuroxime-Sodium

Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Azithromycin

Pathogen: Neisseria gnorrheae
Algorithm: GDBT,LR,RF, SVC
Score: Average AUC: close to 1 (GDBT)
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Pathogen: Escherichia coli
Algorithm: GDBT,LR,RF, SVC
Score: Average AUC: close to 1 (GDBT)
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Pathogen: Mycobacterium tuberculosis
Algorithm: GDBT,LR,RF, SVC
Score: Average AUC: close to 1 (GDBT)
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Cefixime

Pathogen: Escherichia coli
Algorithm: GDBT,LR,RF, SVC
Score: Average AUC: close to 1 (GDBT)
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Pathogen: Mycobacterium tuberculosis
Algorithm: GDBT,LR,RF, SVC
Score: Average AUC: close to 1 (GDBT)
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Pathogen: Neisseria gnorrheae
Algorithm: GDBT,LR,RF, SVC
Score: Average AUC: close to 1 (GDBT)
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Piperacillin/Tazobactam

Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Cefuroxime

Pathogen: Escherichia coli
Algorithm: RF,GDBT, DNN
Score: Average accuracy: 0.91
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Pathogen: Escherichia coli
Algorithm: LGB
Score: Average F1 score: 0.893
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Cephalothin

Pathogen: Escherichia coli
Algorithm: RF,GDBT, DNN
Score: Average accuracy: 0.91
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Pathogen: Escherichia coli
Algorithm: LGB
Score: Average F1 score: 0.893
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Aztreonam

Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Colistin

Pathogen: Klebsiella pneumoniae
Algorithm: LR, XGB, RF, SVM, GDBT
Score: Rule Based: AUROC - 0.791;Reference Based: AUROC - 0.894;Reference-free: AUROC - 0.692
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Pathogen: Acinetobacter baumannii
Algorithm: RF, SVM, XGB
Score: Accuracy: 0.96
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Pathogen: Acinetobacter baumannii
Algorithm: RF, SVM, XGB
Score: Accuracy: 0.96
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Tigecycline

Pathogen: Acinetobacter baumannii
Algorithm: RF, SVM, XGB
Score: Within ± 1 fold Accuracy: 0.96
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Penicillin

Pathogen: Escherichia coli
Algorithm: GDBT,LR,RF, SVC
Score: Average AUC: close to 1 (GDBT)
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Imipenem

Pathogen: Escherichia coli
Algorithm: FFNNs-NCA
Score: Accuracy: 94% - 100%
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Pathogen: Klebsiella pneumoniae
Algorithm: FFNNs-NCA
Score: Accuracy: 94% - 100%
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Pathogen: Escherichia coli
Algorithm: LGB
Score: Average F1 score: 0.893
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Pathogen: Klebsiella pneumoniae
Algorithm: LGB
Score: Average F1 score: close 1
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Pathogen: Klebsiella pneumoniae
Algorithm: XGB
Score: Average Accuracy: 0.92
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN
Score: Accuracy: 0.70 - 0.90
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Pathogen: Klebsiella pneumoniae
Algorithm: CNN; Enformer-based
Score: CNN: 0.838 ± 0.002; Enformer based model: 0.770 ± 0.003
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Pathogen: Acinetobacter baumannii
Algorithm: RF, SVM, XGB
Score: Accuracy: 0.96
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Minocycline

Pathogen: Acinetobacter baumannii
Algorithm: RF, SVM, XGB
Score: Accuracy: 0.96
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Cefoperazone-Sulbactam

Pathogen: Acinetobacter baumannii
Algorithm: RF, SVM, XGB
Score: Accuracy: 0.96
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AWARE classifications from the WHO AWaRe list 2023