A review of deep learning applications in human genomics using next-generation sequencing data

Table 5 Genomic tools/algorithm based on deep learning architecture for pharmacogenomics

Tools	Function	DL model	Application	Input/Output	Website Code Source	References
DeepDR	Drug Repositioning	DNN	To translate pharmacogenomics features identified from in vitro drug screening to predict the response of tumours	txt / txt	https://github.com/ChengF-Lab/deepDR	[97]
DNN-DTI (Drug–target interaction prediction)	Database	DNN	To predict drug-target interaction	txt / txt	https://github.com/JohnnyY8/DNN-DTI	[168]
DeepBL	Antibiotic Resistance	CNN	To predict the beta-lactamase (BLs) using protein or genome sequence datasets	FASTA / CSV	http://deepbl.erc.monash.edu.au	[98]
DeepDrug3D	Binding Site for drugs	CNN	To characterise and classify the protein 3D binding pockets	pdb / txt	https://github.com/pulimeng/DeepDrug3D	[115]
DrugCell	Drug response and synergy for cancer cells	CNN	To predict drug response and synergy	txt / txt	https://github.com/idekerlab/DrugCell	[26]
DeepSynergy	Anticancer drug synergy	FNN	To predict anticancer drug synergy	CSV / CSV	https://github.com/KristinaPreuer/DeepSynergy	[95]

ISSN: 1479-7364