Stochastic Simulation Algorithms for Chemical Reactions. - Tae-Hyuk Ahn; Yang Cao 001; Layne T. Watson (BIOCOMP, 2008)

Stochastic cell cycle modeling for budding yeast. - Tae-Hyuk Ahn; Pengyuan Wang 005; Layne T. Watson; Yang Cao 001; Clifford A. Shaffer; William T. Baumann (SpringSim, 2009)

Parallel stochastic simulations of budding yeast cell cycle: load balancing strategies and theoretical analysis. - Tae-Hyuk Ahn; Adrian Sandu (BCB, 2010)

Evaluating Performance Optimizations of Large-scale Genomic Sequence Search Applications using SST/macro. - Tae-Hyuk Ahn; Damian Dechev; Heshan Lin; Helgi Adalsteinsson; Curtis L. Janssen (SIMULTECH, 2011)

Fully implicit tau-leaping methods for the stochastic simulation of chemical kinetics. - Tae-Hyuk Ahn; Adrian Sandu (SpringSim (HPC), 2011)

Implicit Second Order Weak Taylor Tau-Leaping Methods for the Stochastic Simulation of Chemical Kinetics. - Tae-Hyuk Ahn; Adrian Sandu (ICCS, 2011)

Using SST/Macro for Effective Analysis of MPI-Based Applications: Evaluating Large-Scale Genomic Sequence Search. - Damian Dechev; Tae-Hyuk Ahn (IEEE Access, 2013)

Sipros/ProRata: a versatile informatics system for quantitative community proteomics. - Yingfeng Wang; Tae-Hyuk Ahn; Zhou Li; Chongle Pan (Bioinform., 2013)

Implicit Simulation Methods for Stochastic Chemical Kinetics - Tae-Hyuk Ahn; Adrian Sandu; Xiaoying Han (CoRR, 2013)

Omega: an Overlap-graph de novo Assembler for Metagenomics. - Bahlul Haider; Tae-Hyuk Ahn; Brian Bushnell; Juanjuan Chai; Alex Copeland; Chongle Pan (Bioinform., 2014)

Sigma: Strain-level inference of genomes from metagenomic analysis for biosurveillance. - Tae-Hyuk Ahn; Juanjuan Chai; Chongle Pan (Bioinform., 2015)

A Framework to Analyze the Performance of Load Balancing Schemes for Ensembles of Stochastic Simulations. - Tae-Hyuk Ahn; Adrian Sandu; Layne T. Watson; Clifford A. Shaffer; Yang Cao 001; William T. Baumann (Int. J. Parallel Program., 2015)

Overlap Graph Reduction for Genome Assembly using Apache Spark. - Alexander J. Paul; Dylan Lawrence; Tae-Hyuk Ahn (BCB, 2017)

SORA: Scalable Overlap-graph Reduction Algorithms for Genome Assembly using Apache Spark in the Cloud. - Alexander J. Paul; Dylan Lawrence; Myoungkyu Song; Seung-Hwan Lim; Chongle Pan; Tae-Hyuk Ahn (BIBM, 2018)

LONGO: an R package for interactive gene length dependent analysis for neuronal identity. - Matthew J. McCoy; Alexander J. Paul; Matheus B. Victor; Michelle Richner; Harrison W. Gabel; Haijun Gong; Andrew S. Yoo; Tae-Hyuk Ahn (Bioinform., 2018)

YeasTSS: an integrative web database of yeast transcription start sites. - Jonathan McMillan; Zhaolian Lu; Judith S. Rodríguez; Tae-Hyuk Ahn; Zhenguo Lin (Database J. Biol. Databases Curation, 2019)

Tool support for managing repetitive program changes in evolving software. - Vamshi Krishna Epuri; Sushma Sakala; Tae-Hyuk Ahn; Myoungkyu Song (IET Softw., 2019)

Performance Evaluation of Viral Infection Diagnosis using T-Cell Receptor Sequence and Artificial Intelligence. - Tim Kosfeld; Jonathan McMillan; Richard J. DiPaolo; Jie Hou 001; Tae-Hyuk Ahn (BCB, 2020)

Deep Neural Network Modeling for Phenotypic Prediction of Metagenomic Samples. - Yassin Mreyoud; Tae-Hyuk Ahn (BCB, 2020)

Practical Evaluation of Different Omics Data Integration Methods. - WenJia Feng; Zekun Yu; Mingon Kang; Haijun Gong; Tae-Hyuk Ahn (Precision Health and Medicine, 2020)

Comparison of 16S and whole genome dog microbiomes using machine learning. - Scott Lewis; Andrea Nash; Qinghong Li; Tae-Hyuk Ahn (BioData Min., 2021)

MegaR: an interactive R package for rapid sample classification and phenotype prediction using metagenome profiles and machine learning. - Eliza Dhungel; Yassin Mreyoud; Ho-Jin Gwak; Ahmad Rajeh; Mina Rho; Tae-Hyuk Ahn (BMC Bioinform., 2021)

An IDE Support for Validating Machine Learning Applications in Bioengineering Text Corpora. - Piyush Basia; Tae-Hyuk Ahn; Myoungkyu Song (BIBM, 2022)

Debugging Support for Machine Learning Applications in Bioengineering Text Corpora. - Kwok Sun Cheng; Tae-Hyuk Ahn; Myoungkyu Song (COMPSAC, 2022)

Tool Support for Improving Software Quality in Machine Learning Programs. - Kwok Sun Cheng; Pei-Chi Huang; Tae-Hyuk Ahn; Myoungkyu Song (Inf., 2023)

Bioinformatic approaches to blood and tissue microbiome analyses: challenges and perspectives. - Jammi Prasanthi Sirasani; Cory Gardner; Gihwan Jung; Hyunju Lee; Tae-Hyuk Ahn (Briefings Bioinform., 2024)