CV - Jaewoong Lee

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Name

Jaewoong Lee, Ph.D.

Contents

Contacts | Positions | Education | Academic Objectives | Publications | Teaching | Students Advised | Honor and Awards | Academic Experiences | Skills | Languages | References

Contacts

General: jaewoong.phd@icloud.com
UNIST: jaewoong@unist.ac.kr
CV: https://bit.ly/JaewoongLee_CV
Research statement: https://bit.ly/JaewoongLee_Research
0000-0002-4102-280X
Google Scholar: https://scholar.google.com/citations?user=CO2cenAAAAAJ
Webpage (Lab): https://compbio.unist.ac.kr

Positions

Postdoctoral Researcher at Ulsan National Institute of Science and Technology (UNIST)
- Computational Biology Lab @ UNIST (https://compbio.unist.ac.kr)
- Advisor: Prof. Semin Lee seminlee@unist.ac.kr
- (2025-09 - Present)

Education

Combined M.S. & Ph.D. in Biomedical Engineering
- at Ulsan National Institute of Science and Technology (UNIST)
- Thesis: Metagenomic Profiling in Preterm Birth, Periodontitis, and Colorectal Cancer
- Thesis PDF: Download thesis PDF (archived GitHub copy)
- Advisor: Prof. Semin Lee seminlee@unist.ac.kr
- (2020-09 - 2025-08)

B.S. in Computer Science and Engineering & Biomedical Engineering
- at Ulsan National Institute of Science and Technology (UNIST)
- (2016-03 - 2020-08)

High School Diploma
- at Gyeonggi Science High School for the Gifted
- (2013-03 - 2016-02)

Academic Objectives

Computational biology
Apply computational and statistical methods to model complex biological systems, with emphasis on integrating multi-omics data (e.g., whole-exome sequencing, whole-genome sequencing, bulk RNA-sequencing, metagenomics, etc.) for disease mechanism discovery.

Bioinformatics
Develop reproducible, transparent, and scalable pipelines for analyzing genomic and metagenomic datasets from massive parallel sequencing (e.g., Docker, GitHub, Makefile, etc.), ensuring robust data processing and analysis from sequencing to interpretation.

Metagenomics
Use 16S rRNA gene sequencing (e.g., QIIME2), shotgun metagenomic sequencing (e.g., PathSeq), and advanced computational tools to profile microbial communities at genus- & species-level resolution and connect microbial signatures with host health and disease.

Microbiome
Elucidate the role of host-microbe interactions in health and disease by identifying predictive microbial signatures (e.g., differentially abundant taxa; DAT), uncovering their functional consequences through pathway enrichment analyses, and evaluating their potential as diagnostic and/or therapeutic targets. This work is further guided by the Anna Karenina principle of dysbiosis, whereby healthy microbiomes are relatively consistent, whereas diseased microbiomes show heterogeneous and individualized disruptions.

Cancer genomics
Investigate somatic single-nucleotide variations (e.g., Mutect2), copy number alterations (e.g., PureCN, CNVkit), mutational signatures (e.g., SigProfiler), differentially expressed genes, enriched pathway prediction, and more to uncover genetic drivers of tumorigenesis & cancer progression, predict therapeutic response or inform therapeutic strategies, and suggest personalized and precision medicine.

Multi-omics
Integrate microbiome, genomics, transcriptomics, metabolomics, immunologic profiles, and clinical measurements to investigate host-microbiome interactions and disease mechanisms. Develop computational frameworks that combine microbial dysbiosis, host genomic alterations, and molecular phenotypes to improve biomarker discovery, disease classification, risk stratification, prognosis, and personalized therapeutic strategies.

Publications
(Co-first author†)

Jaewoong Lee†, Hyun-Joo Kim†, Eun-Hye Kim†, Seunghoon Kim†, Byeongjun Park, Suji Hong, Jihoon Kang, Ju-Youn Lee, and Semin Lee. "Prediction Model for Periodontitis Stage Based on the Salivary Microbiome." mSystems, (2026): e01103-25. doi:10.1128/msystems.01103-25

Hong, You Mi†, Jaewoong Lee†, Dong Hyu Cho, Jung Hun Jeon, Jihoon Kang, Min-Gul Kim, Semin Lee, and Jin Kyu Kim. "Predicting preterm birth using machine learning techniques in oral microbiome." Scientific Reports 13, no. 1 (2023): 21105. doi:10.1038/s41598-023-48466-x

Lee, Eungyung, Suhyun Park, Sunwoo Um, Seunghoon Kim, Jaewoong Lee, Jinho Jang, Hyoung-oh Jeong et al. "Microbiome of saliva and plaque in children according to age and dental caries experience." Diagnostics 11, no. 8 (2021): 1324. doi:10.3390/diagnostics11081324

Kim, Eun-Hye, Seunghoon Kim, Hyun-Joo Kim, Hyoung-oh Jeong, Jaewoong Lee, Jinho Jang, Ji-Young Joo et al. "Prediction of chronic periodontitis severity using machine learning models based on salivary bacterial copy number." Frontiers in Cellular and Infection Microbiology no. 10 (2020): 571515. doi:10.3389/fcimb.2020.571515

Kim, Seunghoon, Hyun Jung Kee, Dahee Kim, Jinho Jang, Hyoung-oh Jeong, Nam Suk Sim, Mischa Selig, Jana Ihlow, Livius Penter, Taejoo Hwang, David Whee-Young Choi, Kyoung Jun Lee, Jaewoong Lee, et al. "Multiregional single-cell transcriptomics reveals an association between partial EMT and immunosuppressive states in oral squamous cell carcinoma." iScience (2025). doi:10.1016/j.isci.2025.112988

Hwang, Taejoo, Lukasz Karol Sitko, Ratih Khoirunnisa, Fernanda Navarro-Aguad, David M. Samuel, Hajoong Park, Banyoon Cheon, Luthfiyyah Mutsnaini, Jaewoong Lee, et al. "Comprehensive whole-genome sequencing reveals origins of mutational signatures associated with aging, mismatch repair deficiency and temozolomide chemotherapy." Nucleic Acids Research (2024): gkae1122. doi:10.1093/nar/gkae1122

Teaching

UNIST BME424 in 2026 spring semester
- at Ulsan National Institute of Science and Technology (UNIST)
- Course title: Cancer genomics
- Link: https://github.com/CompbioLabUnist/BME424
- (2026-03 - 2026-08)

UNIST BME610 in 2025 fall semester
- at Ulsan National Institute of Science and Technology (UNIST)
- Course title: Advanced cancer genomics
- Link: https://github.com/CompbioLabUnist/BME610
- (2025-09 - 2025-12)

POSTECH Genomics practices course
- at Pohang University of Science and Technology (POSTECH)
- Course title: Analysis practice of somatic short nucleotide variants and copy number variation
- (2024-01)

Students Advised

Teaching Materials
1. Linux guide: https://github.com/Fumire/LinuxLecture
2. Standard pipeline: https://github.com/CompbioLabUnist/Standard-Pipeline

Undergraduate student
1. Jinwon Baek, undergraduate, UNIST. Guided internship in 2024.
2. Minseo Kwon, undergraduate, UNIST. Guided internship in 2024.
3. Eunjin Paek, undergraduate, Korea University. Guided internship in 2024.
4. Hyojong Myung, undergraduate, Yonsei University. Guided internship in 2024.
5. Eunsu Song, undergraduate, Hanyang University. Guided internship in 2025.
6. Minseo Kim, undergraduate, UNIST. Guided internship in 2025.
7. Haeun Back, undergraduate, UNIST. Guided internship in 2025.
8. Jiyu Son, undergraduate, Kyungpook National University. Guided internship in 2025.
9. Dayeon Lee, undergraduate, Soongsil University. Guided internship in 2025.
10. Kyung-hye Han, undergraduate, UNIST. Guided internship in 2025.
11. Jiheon Lee, undergraduate, UNIST. Guided internship in 2025.
12. Jueun Kang, undergraduate, UNIST. Guided internship in 2025.
13. Jueun Kwon, B.S., Handong University. Guided internship in 2026.
14. Seoyeon Han, undergraduate, UNIST. Guided internship in 2026.
15. Hansol Jang, undergraduate, UNIST. Guided internship in 2026.

Honor and Awards

Graduate fellowship in Ulsan National Institute of Science and Technology (UNIST)
- Full tuition granted for all semesters
- Learning material benefits every month
- (2020-09 - 2025-08)

Undergraduate fellowship in Ulsan National Institute of Science and Technology (UNIST)
- Admission with the highest distinction
- Full tuition granted for all semesters
- Learning material benefits for every semester
- News (Korean)
- (2016-03 - 2020-08)

2015 Supercomputing Youth Camp in Ulsan National Institute of Science and Technology (UNIST)
- The Grand Award (The 1st Place): Hojoon Ryu, Jaewoong Lee, and Byeongchan Lim
- Youth Camp Site (Korean)
- News (Korean)
- (2015-08)

Academic Experiences

Undergraduate research intern
- Supervisor: Prof. Taejoon Kwon tkwon@unist.ac.kr
- Research topic: Copy number variation (CNV) in cancer
- Link: https://github.com/Fumire/TK_LabInternship
- (2018-07 - 2018-08)

Undergraduate research intern
- Supervisor: Prof. Semin Lee seminlee@unist.ac.kr
- Research topic: Whole-exome sequencing (WES) and bulk RNA sequencing (RNA-seq) on cancer
- Link: https://github.com/Fumire/SeminLee_LabInternship
- (2018-09 - 2019-05)

Undergraduate research intern
- Supervisor: Prof. Inkyung Jung ijung@kaist.ac.kr
- Research topic: Single-cell RNA-sequencing and gene expression
- Link: https://github.com/Fumire/IKJ_LabInternship
- (2019-06 - 2019-07)

Undergraduate research intern
- Supervisor: Prof. Semin Lee seminlee@unist.ac.kr
- Research topic: Neoantigen prediction for ependymoma
- Link: https://github.com/Fumire/SeminLeeLab_2019Fall
- (2019-09 - 2020-08)

Skills

Unix-like Operating Systems
- I am the server administrator at Computational Biology Lab @ UNIST.
- I install, configure, and manage servers with Ubuntu and/or CentOS.

Hardware Assembly & Maintenance
- Build and configure custom high-performance desktop workstations and servers.
- Troubleshoot and repair hardware-level issues, including system diagnostics and component replacement, to ensure continuous research uptime.

Programming Languages
- I mainly program in the following programming languages: C++, Python3, Makefile, Bash.
- I have experience programming in the following programming languages: C, CUDA, R, Java, MATLAB.
- I no longer use the following programming languages: Python2, PHP.

Scientific Computing with Python 3
- I have extensive experience in scientific computing using Python modules: Numpy, Pandas, Scipy, Scikit-learn, Matplotlib, Seaborn.

Algorithmic Problem Solving
- I have experience in algorithmic problem-solving using C++ and its standard libraries.

Languages

한국어 (Korean): 모국어 (Native language)

English: TOEIC score 820

日本語 (Japanese): JLPT N2 JLPT levels

References

Prof. Semin Lee, Associate Professor, Ulsan National Institute of Science and Technology (UNIST): seminlee@unist.ac.kr

Prof. Hyoung-oh Jeong, Research Professor, Ulsan National Institute of Science and Technology (UNIST): hyoung-oh@unist.ac.kr

Prof. Hyun-Joo Kim, Associate Professor, Department of Periodontology, Dental and Life Science Institute, School of Dentistry, Pusan National University: periohjkim@pusan.ac.kr

Prof. Ju Youn Lee, Professor, Department of Periodontology, Dental and Life Science Institute, School of Dentistry, Pusan National University: heroine@pusan.ac.kr

Last modified

2026-06-16

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