Knowledge Specification of an Expert System. - James R. Slagle; David A. Gardiner; Kyungsook Han (IEEE Expert, 1990)

Qualitative Modeling of RNA Structure. - Kyungsook Han; Andrew Gelsey (IJCAI, 1993)

The Epistemology of Physical System Modeling. - Kyungsook Han; Andrew Gelsey (AAAI, 1994)

A vector-based method for drawing RNA secondary structure. - Kyungsook Han; Dohyung Kim; Hong-Jin Kim (Bioinform., 1999)

Web-Based Intelligent Call Center for an Intensive Care Unit. - Kyungsook Han; Dongkyu Lee (Web Intelligence, 2001)

New Representation and Algorithm for Drawing RNA Structure with Pseudoknots. - Yujin Lee; Wootaek Kim; Kyungsook Han (DaWaK, 2002)

A Mobile System for Extracting and Visualizing Protein-Protein Interactions. - Kyungsook Han; Hyoungguen Kim (EurAsia-ICT, 2002)

A Partitioned Approach to Protein Interaction Mapping. - Yanga Byun; Euna Jeong; Kyungsook Han (GD, 2002)

InterViewer: Dynamic Visualization of Protein-Protein Interactions. - Kyungsook Han; Byong-Hyon Ju; Jong H. Park (GD, 2002)

PseudoViewer: automatic visualization of RNA pseudoknots. - Kyungsook Han; Yujin Lee; Wootaek Kim (ISMB, 2002)

Visualization of RNA Pseudoknot Structures. - Wootaek Kim; Yujin Lee; Kyungsook Han (VECPAR, 2002)

Simulation studies of the effects of user mobility on the handoff performance of mobile communications. - Kyungsook Han (Simul. Model. Pract. Theory, 2002)

A Genetic Algorithm for Inferring Pseudoknotted RNA Structures from Sequence Data. - Dongkyu Lee; Kyungsook Han (Discovery Science, 2003)

Mining RNA Structure Elements from the Structure Data of Protein-RNA Complexes. - Daeho Lim; Kyungsook Han (Discovery Science, 2003)

Visualization of Protein-Protein Interaction Networks Using Force-Directed Layout. - Yanga Byun; Kyungsook Han (International Conference on Computational Science, 2003)

Computational Approach to Structural Analysis of Protein-RNA Complexes. - Namshik Han; Hyunwoo Kim; Kyungsook Han (International Conference on Computational Science, 2003)

A Genetic Algorithm for Predicting RNA Pseudoknot Structures. - Dongkyu Lee; Kyungsook Han (International Conference on Computational Science, 2003)

Complexity management in visualizing protein interaction networks. - Byong-Hyon Ju; Kyungsook Han (ISMB (Supplement of Bioinformatics), 2003)

Predicting Protein Interactions in Human by Homologous Interactions in Yeast. - Hyongguen Kim; Jong-Chan Park; Kyungsook Han (PAKDD, 2003)

A fast layout algorithm for protein interaction networks. - Kyungsook Han; Byong-Hyon Ju (Bioinform., 2003)

Visualization and analysis of protein interactions. - Byong-Hyon Ju; Byungkyu Park; Jong H. Park; Kyungsook Han (Bioinform., 2003)

PSEUDOVIEWER2: visualization of RNA pseudoknots of any type. - Kyungsook Han; Yanga Byun (Nucleic Acids Res., 2003)

Dynamic Visualization of Signal Transduction Pathways from Database Information. - Donghoon Lee; Byoung-Hyun Ju; Kyungsook Han (AIS, 2004)

DNA Secondary Structures for Probe Design. - Yanga Byun; Kyungsook Han (GD, 2004)

Prediction of Binding Sites in Protein-Nucleic Acid Complexes. - Namshik Han; Kyungsook Han (International Conference on Computational Science, 2004)

A Database Server for Predicting Protein-Protein Interactions. - Kyungsook Han; Byungkyu Park (International Conference on Computational Science, 2004)

Prediction of Protein Functions Using Protein Interaction Data. - Haemoon Jung; Kyungsook Han (International Conference on Computational Science, 2004)

PairAnalyzer: Extracting and Visualizing RNA Structure Elements Formed by Base Pairing. - Daeho Lim; Kyungsook Han (International Conference on Computational Science, 2004)

Computational Identification of -1 Frameshift Signals. - Sanghoon Moon; Yanga Byun; Kyungsook Han (International Conference on Computational Science, 2004)

HPID: The Human Protein Interaction Database. - Kyungsook Han; Byungkyu Park; Hyongguen Kim; Jinsun Hong; Jong-Chan Park (Bioinform., 2004)

Three-dimensional visualization of protein interaction networks. - Kyungsook Han; Yanga Byun (Comput. Biol. Medicine, 2004)

WebInterViewer: visualizing and analyzing molecular interaction networks. - Kyungsook Han; Byong-Hyon Ju; Haemoon Jung (Nucleic Acids Res., 2004)

Prediction of Ribosomal Frameshift Signals of User-Defined Models. - Yanga Byun; Sanghoon Moon; Kyungsook Han (International Conference on Computational Science (1), 2005)

Prediction of Protein Interactions by the Domain and Sub-cellular Localization Information. - Jinsun Hong; Kyungsook Han (International Conference on Computational Science (3), 2005)

A Layout Algorithm for Signal Transduction Pathways as Two-Dimensional Drawings with Spline Curves. - Donghoon Lee; Byoung-Hyun Ju; Kyungsook Han (International Conference on Computational Science (1), 2005)

Online Prediction of Interacting Proteins with a User-Specified Protein. - Byungkyu Park; Kyungsook Han (International Conference on Computational Science (3), 2005)

PSIbase: a database of Protein Structural Interactome map (PSIMAP). - Sungsam Gong; Giseok Yoon; Insoo Jang; Dan M. Bolser; Panos Dafas; Michael Schroeder 001; Hansol Choi; Yoobok Cho; Kyungsook Han; Sunghoon Lee; Hwanho Choi; Michael Lappe; et al. (Bioinform., 2005)

Web Service for Finding Ribosomal Frameshifts. - Yanga Byun; Sanghoon Moon; Kyungsook Han (International Conference on Computational Science (1), 2006)

Prediction of Readthroughs Based on the Statistical Analysis of Nucleotides Around Stop Codons. - Sanghoon Moon; Yanga Byun; Kyungsook Han (International Conference on Computational Science (1), 2006)

Prediction of Ribosomal -1 Frameshifts in the Escherichia coli K12 Genome. - Sanghoon Moon; Yanga Byun; Kyungsook Han (ICIC (3), 2006)

Web Service for Predicting Interacting Proteins and Application to Human and HIV-1 Proteins. - Byungkyu Park; Kyungsook Han (ICIC (3), 2006)

PseudoViewer: web application and web service for visualizing RNA pseudoknots and secondary structures. - Yanga Byun; Kyungsook Han (Nucleic Acids Res., 2006)

Multi-Layered Networks for Visualizing the Interactions between Heterogeneous Proteins. - Yu Chen; Guangyu Cui; Kyungsook Han (FBIT, 2007)

Identifying Functional Groups by Finding Cliques and Near-Cliques in Protein Interaction Networks. - Kyungsook Han; Guangyu Cui; Yu Chen (FBIT, 2007)

Prediction of Interacting Motif Pairs Using Stochastic Boosting. - Jisu Kim; Byungkyu Park; Kyungsook Han (FBIT, 2007)

Analysis of HCV Envelope Proteins Interacting with Human Proteins. - Chirag Nepal; Kyungsook Han (FBIT, 2007)

Estimating the Reliability of Protein-Protein Interactions. - Byungkyu Park; Kyungsook Han (FBIT, 2007)

Discovering Inter-Domain Paths between Hepatitis C Virus NS5A and Human Liver Proteins. - Guang-Zheng Zhang; Kyungsook Han (FBIT, 2007)

Mining Molecular Structure Data for the Patterns of Interactions Between Protein and RNA. - Kyungsook Han; Chirag Nepal (International Conference on Computational Science (1), 2007)

Comparative Analysis of the Interaction Networks of HIV-1 and Human Proteins. - Kyungsook Han; Byungkyu Park (International Conference on Computational Science (2), 2007)

Predicting Binding Sites of Hepatitis C Virus Complexes Using Residue Binding Propensity and Sequence Entropy. - Guang-Zheng Zhang; Chirag Nepal; Kyungsook Han (International Conference on Computational Science (1), 2007)

FSDB: A frameshift signal database. - Sanghoon Moon; Yanga Byun; Kyungsook Han (Comput. Biol. Chem., 2007)

Hepatitis C virus contact map prediction based on binary encoding strategy. - Guang-Zheng Zhang; Kyungsook Han (Comput. Biol. Chem., 2007)

A general computational model for predicting ribosomal frameshifts in genome sequences. - Yanga Byun; Sanghoon Moon; Kyungsook Han (Comput. Biol. Medicine, 2007)

Prediction of RNA-Binding Residues in Proteins Using the Interaction Propensities of Amino Acids and Nucleotides. - Rojan Shrestha; Jisu Kim; Kyungsook Han (ICIC (1), 2008)

Prediction of Binding Sites in HCV Protein Complexes Using a Support Vector Machine. - Taihui Yoo; Jaetak Lee; Kyungsook Han (ICIC (1), 2008)

Dynamic Identification and Visualization of Gene Regulatory Networks from Time-Series Gene Expression Profiles. - Yu Chen; Kyungsook Han (ICIC (1), 2009)

PseudoViewer3: generating planar drawings of large-scale RNA structures with pseudoknots. - Yanga Byun; Kyungsook Han (Bioinform., 2009)

Finding motif pairs in the interactions between heterogeneous proteins via bootstrapping and boosting. - Jisu Kim; De-Shuang Huang; Kyungsook Han (BMC Bioinform., 2009)

An ontology-based search engine for protein-protein interactions. - Byungkyu Park; Kyungsook Han (BMC Bioinform., 2010)

A semi-supervised learning approach to predict synthetic genetic interactions by combining functional and topological properties of functional gene network. - Zhuhong You; Zheng Yin; Kyungsook Han; De-Shuang Huang; Xiaobo Zhou 001 (BMC Bioinform., 2010)

Gene expression data classification using locally linear discriminant embedding. - Bo Li 002; Chun-Hou Zheng 001; De-Shuang Huang; Lei Zhang 006; Kyungsook Han (Comput. Biol. Medicine, 2010)

Prediction of Human Proteins Interacting with Human Papillomavirus Proteins. - Guangyu Cui; Chao Fang; Kyungsook Han (ICIC (3), 2011)

Connectivity Analysis of Hippocampus in Alzheimer's Brain Using Probabilistic Tractography. - Md. Kamrul Hasan; Wook Lee; Byungkyu Park; Kyungsook Han (ICIC (3), 2011)

Prediction of RNA-binding amino acids from protein and RNA sequences. - Sungwook Choi; Kyungsook Han (BMC Bioinform., 2011)

Prediction of protein-protein interactions between viruses and human by an SVM model. - Guangyu Cui; Chao Fang; Kyungsook Han (BMC Bioinform., 2012)

Modeling the interactions of Alzheimer-related genes from the whole brain microarray data and diffusion tensor images of human brain. - Byungkyu Park; Wook Lee; Kyungsook Han (BMC Bioinform., 2012)

Scoring Protein-Protein Interactions Using the Width of Gene Ontology Terms and the Information Content of Common Ancestors. - Guangyu Cui; Kyungsook Han (ICIC (3), 2013)

Database of Protein-Nucleic Acid Binding Pairs at Atomic and Residue Levels. - Byungkyu Park; Hyungchan Kim; Sangmin Lee; Kyungsook Han (ICIC (3), 2013)

KGVDB: a population-based genomic map of CNVs tagged by SNPs in Koreans. - Sanghoon Moon; Kwang Su Jung; Young Jin Kim 003; Mi Yeong Hwang; Kyungsook Han; Jong-Young Lee; Kiejung Park; Bong-Jo Kim (Bioinform., 2013)

Predicting protein-binding RNA nucleotides using the feature-based removal of data redundancy and the interaction propensity of nucleotide triplets. - Sungwook Choi; Kyungsook Han (Comput. Biol. Medicine, 2013)

Classification of diffusion tensor images for the early detection of Alzheimer's disease. - Wook Lee; Byungkyu Park; Kyungsook Han (Comput. Biol. Medicine, 2013)

Inference of Dynamic Gene Regulatory Relations with Multiple Regulators. - Jeonghoon Lee 001; Yu Chen; Kyungsook Han (ICIC (3), 2014)

DBBP: database of binding pairs in protein-nucleic acid interactions. - Byungkyu Brian Park; Hyungchan Kim; Kyungsook Han (BMC Bioinform., 2014)

Sequence-based prediction of protein-binding sites in DNA: Comparative study of two SVM models. - Byungkyu Brian Park; Jinyong Im; Narankhuu Tuvshinjargal; Wook Lee; Kyungsook Han (Comput. Methods Programs Biomed., 2014)

SVM-Based Classification of Diffusion Tensor Imaging Data for Diagnosing Alzheimer's Disease and Mild Cognitive Impairment. - Wook Lee; Byungkyu Park; Kyungsook Han (ICIC (2), 2015)

Predicting protein-binding RNA nucleotides with consideration of binding partners. - Narankhuu Tuvshinjargal; Wook Lee; Byungkyu Park; Kyungsook Han (Comput. Methods Programs Biomed., 2015)

Assessing protein-protein interactions based on the semantic similarity of interacting proteins. - Guangyu Cui; Byungmin Kim; Saud Alguwaizani; Kyungsook Han (Int. J. Data Min. Bioinform., 2015)

Prediction of Lysine Acetylation Sites Based on Neural Network. - Wenzheng Bao; Zhichao Jiang; Kyungsook Han; De-Shuang Huang (ICIC (2), 2016)

Analysis of MicroRNA and Transcription Factor Regulation. - Wei-Li Guo; Kyungsook Han; De-Shuang Huang (ICIC (1), 2016)

Prediction of Target Genes Based on Multiway Integration of High-Throughput Data. - Wei-Li Guo; Kyungsook Han; De-Shuang Huang (ICIC (1), 2016)

Predicting Transcription Factor Binding Sites in DNA Sequences Without Prior Knowledge. - Wook Lee; Byungkyu Park; Daesik Choi; Chungkeun Lee; Hanju Chae; Kyungsook Han (ICIC (1), 2016)

Novel Algorithm for Multiple Quantitative Trait Loci Mapping by Using Bayesian Variable Selection Regression. - Lin Yuan 001; Kyungsook Han; De-Shuang Huang (ICIC (3), 2016)

PRIdictor: Protein-RNA Interaction predictor. - Narankhuu Tuvshinjargal; Wook Lee; Byungkyu Park; Kyungsook Han (Biosyst., 2016)

An efficient algorithm for planar drawing of RNA structures with pseudoknots of any type. - Yanga Byun; Kyungsook Han (J. Bioinform. Comput. Biol., 2016)

GeneNetFinder2: Improved Inference of Dynamic Gene Regulatory Relations with Multiple Regulators. - Kyungsook Han; Jeonghoon Lee 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2016)

Predicting protein-binding regions in RNA using nucleotide profiles and compositions. - Daesik Choi; Byungkyu Park; Hanju Chae; Wook Lee; Kyungsook Han (BMC Syst. Biol., 2017)

miRNA-Disease Association Prediction with Collaborative Matrix Factorization. - Zhen Shen; You-Hua Zhang; Kyungsook Han; Asoke K. Nandi; Barry Honig; De-Shuang Huang (Complex., 2017)

An improved method for predicting interactions between virus and human proteins. - Byungmin Kim; Saud Alguwaizani; Xiang Zhou; De-Shuang Huang; Byunkyu Park; Kyungsook Han (J. Bioinform. Comput. Biol., 2017)

Finding Protein-Binding Nucleic Acid Sequences Using a Long Short-Term Memory Neural Network. - Jinho Im; Byungkyu Park; Kyungsook Han (ICIC (2), 2018)

Finding Potential RNA Aptamers for a Protein Target Using Sequence and Structure Features. - Wook Lee; Jisu Lee; Kyungsook Han (ICIC (1), 2018)

Constructing Gene Co-expression Networks for Prognosis of Lung Adenocarcinoma. - Byungkyu Park; Jinho Im; Kyungsook Han (ICIC (2), 2018)

Mutli-Features Prediction of Protein Translational Modification Sites. - Wenzheng Bao; Chang-An Yuan 001; Youhua Zhang; Kyungsook Han; Asoke K. Nandi; Barry Honig; De-Shuang Huang (IEEE ACM Trans. Comput. Biol. Bioinform., 2018)

Sequence-Based Prediction of Putative Transcription Factor Binding Sites in DNA Sequences of Any Length. - Wook Lee; Byungkyu Park; Kyungsook Han (IEEE ACM Trans. Comput. Biol. Bioinform., 2018)

Integration of Multi-Omics Data for Gene Regulatory Network Inference and Application to Breast Cancer. - Lin Yuan 001; Lehang Guo; Chang-an Yuan 001; Youhua Zhang; Kyungsook Han; Asoke K. Nandi; Barry Honig; De-Shuang Huang (IEEE ACM Trans. Comput. Biol. Bioinform., 2019)

Discovering protein-binding RNA motifs with a generative model of RNA sequences. - Byungkyu Park; Kyungsook Han (Comput. Biol. Chem., 2020)

Constructive Prediction of Potential RNA Aptamers for a Protein Target. - Wook Lee; Kyungsook Han (IEEE ACM Trans. Comput. Biol. Bioinform., 2020)

A Method for Constructing an Integrative Network of Competing Endogenous RNAs. - Seokwoo Lee; Wook Lee; Shulei Ren; Kyungsook Han (ICIC (3), 2021)

GeneCoNet: A web application server for constructing cancer patient-specific gene correlation networks with prognostic gene pairs. - Byungkyu Park; Wook Lee; Kyungsook Han (Comput. Methods Programs Biomed., 2021)

Predicting TF-DNA Binding Motifs from ChIP-seq Datasets Using the Bag-Based Classifier Combined With a Multi-Fold Learning Scheme. - Qinhu Zhang; Dailun Wang; Kyungsook Han; De-Shuang Huang (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

Multi-Scale Capsule Network for Predicting DNA-Protein Binding Sites. - Qinhu Zhang; Wenbo Yu; Kyungsook Han; Asoke K. Nandi; De-Shuang Huang (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

Predicting Lymph Node Metastasis and Distant Metastasis using Differential Correlations of miRNAs and Their Target RNAs in Cancer. - Seokwoo Lee; Myounghoon Cho; Wook Lee; Byungkyu Park; Kyungsook Han (BIBM, 2022)

Guest Editorial for Special Section on the 16th International Conference on Intelligent Computing (ICIC). - De-Shuang Huang; Kyungsook Han; Tatsuya Akutsu (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

A New Approach to Deriving Prognostic Gene Pairs From Cancer Patient-Specific Gene Correlation Networks. - Byungkyu Park; Wook Lee; Kyungsook Han (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

A Deep Learning Model for RNA-Protein Binding Preference Prediction Based on Hierarchical LSTM and Attention Network. - Zhen Shen; Qinhu Zhang; Kyungsook Han; De-Shuang Huang (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

DLoopCaller: A deep learning approach for predicting genome-wide chromatin loops by integrating accessible chromatin landscapes. - Siguo Wang; Qinhu Zhang; Ying He; Zhen Cui; Zhen-Hao Guo; Kyungsook Han; De-Shuang Huang (PLoS Comput. Biol., 2022)

Constructing a Cancer Patient-Specific Network Based on Second-Order Partial Correlations of Gene Expression and DNA Methylation. - Wook Lee; Seokwoo Lee; Kyungsook Han (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

Constructing Integrative ceRNA Networks and Finding Prognostic Biomarkers in Renal Cell Carcinoma. - Seokwoo Lee; Wook Lee; Shulei Ren; Byungkyu Park; Kyungsook Han (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

Predicting distant metastatic sites of cancer using perturbed correlations of miRNAs with competing endogenous RNAs. - Myeonghoon Cho; Byungkyu Park; Kyungsook Han (Comput. Biol. Chem., 2025)