Briefings in Bioinformatics

CAREPath: Semantic Context-Aware Reasoning Paths with Mechanism-Augmented Embeddings for Drug Repurposing

Song H, Bang D, Koo B, Kim S, Lee S

DeepU-PRS: Nonlinear and Uncertainty-Aware SNP Heritability Modeling for Annotation-Informed Polygenic Risk Scoring

Junhyeong Lee*, Dokyoon Kim, Seunggeun Lee

AI-Guided Discovery and Optimization of Antimicrobial Peptides Through Species-Aware Language Model

Daehun Bae, Minsang Kim, Jiwon Seo, Hojung Nam

DD-PRiSM: A Deep Learning Framework for Decomposition and Prediction of Synergistic Drug Combinations

Iljung Jin, Songyeon Lee, Martin Schmuhalek, Hojung Nam

Exploring the potential of compound-protein complex structure-free models in virtual screening using BlendNet

Sangmin Seo, Hwanhee Kim, Jieun Lee, Seungyeon Choi, Sanghyun Park

Gene Expression Inference Based on Graph Neural Networks Using L1000 Data

Tae Hyun Kim, Harim Kim, Hyunjin Hwang, Shinwhan Kang, Kijung Shin, Inhwa Baek

Reinforcement learning with low-rank adaptation for targeted antimicrobial peptide design

Juntae Park, Daehun Bae, Bongsung Bae, Hojung Nam

Transcriptome Transformer: improving patient survival prediction via multitask learning of transcriptomic and clinical features

Koo B, Sung I, Lee S, Kim S

Single-cell RNA Sequencing Data Imputation Using Bi-level Feature Propagation

Junseok Lee, Sukwon Yun, Yeongmin Kim, Tianlong Chen, Manolis Kellis, Chanyoung Park

A model-agnostic framework to enhance knowledge graph-based drug combination prediction with drug–drug interaction data and supervised contrastive learning

Gu J, Bang D, Yi J, Lee S, Kim DK, Kim S

Improved drug response prediction by drug target data integration via network-based profiling

Pak M, Lee S, Sung I, Koo B, Kim S