Who am I?

I am a postdoctoral fellow, department of biological sciences at the State University of New York at Buffalo. I received my Ph.D. degree in Bioinformatics from Seoul National University in 2019 under the supervision of Prof. Sun Kim. My research focus is to identify putative enhancers relavent to human FOXG1 syndrome and their interactions using machine learning methods and algorithms.


PhD in Bioinformatics

August 2019
Seoul National University
  • Thesis Title: Informatics techniques to navigate transcriptome space with biological networks from gene to pathway to phenotypes
  • Advisor: Prof. Sun Kim
  • Course Concentration: bioinformatics, machine learning, network and systems biology
  • Research Focus: transcriptome data analysis, network analysis, machine learning

ME in Information Engineering

February 2011
Inha University
  • Thesis Title: A Hybrid Enzyme Function Prediction System Using Sequence Similarity and Feature-based Classification
  • Advisor: Prof. Yoo-Sung Kim
  • Course Concentration: bioinformatics, data mining and database system
  • Research Focus: protein function prediction, amino acid sequence analysis

BE in Information and Communication Engineering

February 2009
Inha University


Postdoctoral Fellow

September 2019 - Present
Department of Biological Sciences, the State University of New York at Buffalo
  • Research Focus: enhancer interaction network analysis, TF/histone ChIP-seq data analysis

Guest Lecturer

Spring semester 2014
Konkuk University
  • Understanding in Bioinformatics

Research Assistant

March 2012 - August 2012
SNU Bioinformatics Institute

Military Service

August 2004 - August 2006
HHD, 498th CSB, 501st CSG, 19th TSC, 8th US Army
  • Information Management Officer (IMO) & Standard Army Maintenance System (SAMS) operator


July 2004
Education Through Music
  • Assisted homepage renewal

Overseas IT Trainee

February 2004 - July 2004
Queens College, City University of New York
  • Supported by the Ministry of Information and Communication, the Government of South Korea
  • Learned programming languages: C/C++, JAVA and C#
  • Achieved Sun Certified Java Programmer (SCJP)

Research Projects

Foxg1-Regulatory Interactions - Researches to find enhancers and their interactions regulating Foxg1 expression and the downstream regulations of Foxg1
Differentially Expressed Gene Identification Method - A machine learning-based differentially expressed genes identification method using network information and network propagation.
Tendinopathy - A research to find tendon regeneration factors in rotator cuff with Prof. Chris Jo at SNU Boramae Medical Center
Pathway Interaction Network Construction Method - A condition-specific pathway interaction network construction method by computing shortest paths on a weighted protein-protein interaction network
Xenotransplantation - A research to elucidate the cause of chronic islet graft loss with Prof. Chung Gyu Park at Seoul National University Hospital
Enzyme Reaction Rate - A research to find the factors affecting enzyme reaction rate by enzyme motif analysis
Enzyme Function Prediction System - Sequence similarity-based enzyme function prediction system using K-NN classification


  • MLDEG: A Machine Learning Approach to Identify Differentially Expressed Genes Using Network Property and Network Propagation
  • Ji Hwan Moon, Sangseon Lee, Minwoo Pak, Benjamin Hur, and Sun Kim
    IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2021
  • Network Propagation for the Analysis of Multi-omics Data
  • Minwoo Pak, Dabin Jeong, Ji Hwan Moon, Hongryul Ann, Benjamin Hur, Sangseon Lee, Sun Kim
    Recent Advances in Biological Network Analysis, 185-217, 2021
  • PRC2 Acts as a Critical Timer That Drives Oligodendrocyte Fate over Astrocyte Identity by Repressing the Notch Pathway
  • Wenxian Wang, Hyeyoung Cho, Dongkyeong Kim, Younjung Park, Ji Hwan Moon, Su Jeong Lim, Sung Min Yoon, Michael McCane, Sue A Aicher, Sangsoo Kim, Ben Emery, Jae W Lee, Seunghee Lee, Yungki Park, Soo-Kyung Lee
    Cell Reports 32 (11), 108147, 2020
  • Mesenchymal stem cell-derived exosomes suppress proliferation of T cells by inducing cell cycle arrest through p27kip1/Cdk2 signaling
  • Sunho Lee, Sueon Kim, Hyunwoo Chung, Ji Hwan Moon, Seong Jun Kang, Chung-Gyu Park
    Immunology letters 225, 16-22, 2020
  • Impact of mutations in DNA methylation modification genes on genome-wide methylation landscapes and downstream gene activations in pan-cancer
  • Chai-Jin Lee, Hongryul Ahn, Dabin Jeong, Minwoo Pak, Ji Hwan Moon, Sun Kim
    BMC Medical Genomics 13 (3), 1-14, 2020
  • Bioinformatic analysis of peripheral blood RNA-sequencing sensitively detects the cause of late graft loss following overt hyperglycemia in pig-to-nonhuman primate islet xenotransplantation
  • Hyun-Je Kim*, Ji Hwan Moon*, Hyunwoo Chung*, Jun-Seop Shin, Bongi Kim, Jong-Min Kim, Jung-Sik Kim, Il-Hee Yoon, Byoung-Hoon Min, Seong-Jun Kang, Yong-Hee Kim, Kyuri Jo, Joungmin Choi, Heejoon Chae, Won-Woo Lee, Sun Kim & Chung-Gyu Park (*equal contribution)
    Scientific Reports 9 (1), 1-11, 2019
  • Venn-diaNet: venn diagram based network propagation analysis framework for comparing multiple biological experiments
  • Benjamin Hur, Dongwon Kang, Sangseon Lee, Ji Hwan Moon, Gung Lee, Sun Kim
    BMC bioinformatics 20 (23), 1-12, 2019
  • Literature-based condition-specific miRNA-mRNA target prediction
  • Minsik Oh, Sungmin Rhee, Ji Hwan Moon, Heejoon Chae, Sunwon Lee, Jaewoo Kang, Sun Kim
    PLoS One 12 (3), e0174999, 2017
  • PINTnet: construction of condition-specific pathway interaction network by computing shortest paths on weighted PPI
  • Ji Hwan Moon, Sangsoo Lim, Kyuri Jo, Sangseon Lee, Seokjun Seo, Sun Kim
    BMC systems biology 11 (2), 15, 2017
  • Flow maximization analysis of cell cycle pathway activation status in breast cancer subtypes
  • Sangseon Lee, Ji Hwan Moon, Youngjune Park, Sun Kim
    2017 IEEE International Conference on Big Data and Smart Computing, 91-95, 2017
  • Influence maximization in time bounded network identifies transcription factors regulating perturbed pathways
  • Kyuri Jo, Inuk Jung, Ji Hwan Moon, Sun Kim
    Bioinformatics 32 (12), i128-i136, 2016
  • A new bioinformatics analysis can reveal intestinal infection as a cause of graft rejection in islet xenotransplantation in non-human primate.(TRAN1P. 940)
  • Hyun-Je Kim, Ji-Hwan Moon, Jun-Seop Shin, Bongi Kim, Jung-Sik Kim, Byong-hoon Min, Kyo-ri Cho, Sung-Jun Kang, Nari Byun, Thuy Phuong, Jong-Min Kim, Sun Kim, Chung-Gyu Park
    The Journal of Immunology 194 (1 Supplement), 140.22-140.22, 2015
  • A hybrid online signature verification system supporting multi-confidential levels defined by data mining techniques
  • Ji Hwan Moon, Sung Gyu Lee, Sung Young Cho, Yoo-Sung Kim
    International Journal of Intelligent Systems Technologies and Applications 9, 2010
  • Genome-wide enzyme function prediction system using K-NN classification on sequence similarity
  • Joo-sung Kim, Ji Hwan Moon, Yoo-Sung Kim, Sun Kim
    International Conference on Emerging Databases, 182-187, 2009

    Skills & Proficiency

    Perl & Python