Integration of Immune Models Using Petri Nets. - Dokyun Na; Inho Park; Kwang Hyung Lee; Doheon Lee (ICARIS, 2004)

Mathematical Modeling of Immune Suppression. - Dokyun Na; Doheon Lee (ICARIS, 2005)

Fuzzy Continuous Petri Net-Based Approach for Modeling Helper T Cell Differentiation. - Inho Park; Dokyun Na; Kwang Hyung Lee; Doheon Lee (ICARIS, 2005)

Fuzzy Continuous Petri Net-Based Approach for Modeling Immune Systems. - Inho Park; Dokyun Na; Doheon Lee; Kwang Hyung Lee (WIRN/NAIS, 2005)

RBSDesigner: software for designing synthetic ribosome binding sites that yields a desired level of protein expression. - Dokyun Na; Doheon Lee (Bioinform., 2010)

Mathematical modeling of translation initiation for the estimation of its efficiency to computationally design mRNA sequences with desired expression levels in prokaryotes. - Dokyun Na; Sunjae Lee; Doheon Lee (BMC Syst. Biol., 2010)

On the Importance of Polar Interactions for Complexes Containing Intrinsically Disordered Proteins. - Eric T. C. Wong; Dokyun Na; Jörg Gsponer (PLoS Comput. Biol., 2013)

Evaluation of Disease-Associated Text-Mining Databases. - Myeong-Sang Yu; Dokyun Na (DTMBIO@CIKM, 2015)

In silico prediction of potential chemical reactions mediated by human enzymes. - Myeong-Sang Yu; Hyang-Mi Lee; Aaron Park; Chungoo Park; Hyithaek Ceong; Ki-Hyeong Rhee; Dokyun Na (BMC Bioinform., 2018)

Computational determination of hERG-related cardiotoxicity of drug candidates. - Hyang-Mi Lee; Myeong-Sang Yu; Sayada Reemsha Kazmi; Seong Yun Oh; Ki-Hyeong Rhee; Myung-Ae Bae; Byung Ho Lee; Dae-Seop Shin; Kwang-Seok Oh; Hyithaek Ceong; Donghyun Lee; Dokyun Na (BMC Bioinform., 2019)

In silico approaches and tools for the prediction of drug metabolism and fate: A review. - Sayada Reemsha Kazmi; Ren Jun; Myeong-Sang Yu; Chanjin Jung; Dokyun Na (Comput. Biol. Medicine, 2019)

2-D chemical structure image-based in silico model to predict agonist activity for androgen receptor. - Myeong-Sang Yu; Jingyu Lee; Yongmin Lee; Dokyun Na (BMC Bioinform., 2020)

LightBBB: computational prediction model of blood-brain-barrier penetration based on LightGBM. - Bilal Shaker; Myeong-Sang Yu; Jin Sook Song; Sunjoo Ahn; Jae Yong Ryu; Kwang-Seok Oh; Dokyun Na (Bioinform., 2021)

Comparability of reference-based and reference-free transcriptome analysis approaches at the gene expression level. - Sung-Gwon Lee; Dokyun Na; Chungoo Park (BMC Bioinform., 2021)

In silico methods and tools for drug discovery. - Bilal Shaker; Sajjad Ahmad; Jingyu Lee; Chanjin Jung; Dokyun Na (Comput. Biol. Medicine, 2021)

A machine learning model for classifying G-protein-coupled receptors as agonists or antagonists. - Joo-Seong Oh; Hyithaek Ceong; Dokyun Na; Chungoo Park (BMC Bioinform., 2022)

A machine learning-based quantitative model (LogBB_Pred) to predict the blood-brain barrier permeability (logBB value) of drug compounds. - Bilal Shaker; Jingyu Lee; Yunhyeok Lee; Myeong-Sang Yu; Hyang-Mi Lee; Eunee Lee; Hoon-Chul Kang; Kwang-Seok Oh; Hyung Wook Kim; Dokyun Na (Bioinform., 2023)

Autoinhibited Protein Database: a curated database of autoinhibitory domains and their autoinhibition mechanisms. - Daeahn Cho; Hyang-Mi Lee; Ji Ah Kim; Jae Gwang Song; Su-hee Hwang; Bomi Lee; Jinsil Park; Kha Mong Tran; Jiwon Kim; Phuong Ngoc Lam Vo; Jooeun Bae; Teerapat Pimt; et al. (Database J. Biol. Databases Curation, 2024)

A computational clinical decision-supporting system to suggest effective anti-epileptic drugs for pediatric epilepsy patients based on deep learning models using patient's medical history. - Daeahn Cho; Myeong-Sang Yu; Jeongyoon Shin; Jingyu Lee; Yubin Kim 003; Hoon-Chul Kang; Se Hee Kim; Dokyun Na (BMC Medical Informatics Decis. Mak., 2024)

Precision medicine approach for in vitro modeling and computational screening of anti-epileptic drugs in pediatric epilepsy patients with SCN2A (R1629L) mutation. - Jihun Kim; Bilal Shaker; Ara Ko; Sunggon Yoo; Dokyun Na; Hoon-Chul Kang (Comput. Biol. Medicine, 2025)

hERGBoost: A gradient boosting model for quantitative IC50 prediction of hERG channel blockers. - Myeong-Sang Yu; Jingyu Lee; Yunhyeok Lee; Daeahn Cho; Kwang-Seok Oh; Jidon Jang; Nuong Thi Nong; Hyang-Mi Lee; Dokyun Na (Comput. Biol. Medicine, 2025)