Peijie Zhou

Jae Kyoung Kim

People

Lab webpage

 

Senior Researchers

Hyun Kim

  • Ph.D in Physics, Korea Univ., Korea
  • Research topic: scRNA-seq data analysis, Dimensionality reduction, Big Data analysis, Neuronal Dynamics

    1. Kim, H., Chang, W., Chae, S.J. et al. scLENS: data-driven signal detection for unbiased scRNA-seq data analysis, Nat Commun (2024)

    2. Eui Min Jeong†, Miri Kwon†, Eunjoo Cho†, Sang Hyuk Lee, Hyun Kim, Eun Young Kim*, Jae Kyoung Kim*, Systematic modeling-driven experiments identify distinct molecular clockworks underlying hierarchically organized pacemaker neurons, PNAS (2022)

Shingo Gibo

  • Ph.D in Design, Kyushu University, Japan
  • Postdoc Fellow, RIKEN, Japan
  • Research topic: Theoretical Biology, Nonlinear Oscillation, Acoustic Engineering

    1. Kim, H., Chang, W., Chae, S.J. et al. scLENS: data-driven signal detection for unbiased scRNA-seq data analysis, Nat Commun (2024)

    2. Eui Min Jeong†, Miri Kwon†, Eunjoo Cho†, Sang Hyuk Lee, Hyun Kim, Eun Young Kim*, Jae Kyoung Kim*, Systematic modeling-driven experiments identify distinct molecular clockworks underlying hierarchically organized pacemaker neurons, PNAS (2022)

Postdoc Fellows

Gyuyoung Hwang

  • Ph.D in Mathematical Sciences, Seoul National University, Korea
  • Research topic: Dynamical systems

Kévin SPINICCI

  • Ph.D in Computational Biology, Université Grenoble Alpes - France, Swansea University - Wales
  • Research topic: Studies of single-cell and implementation of a batch-effect correction method in scLENS

Brenda Lyn Gavina

  • Ph.D. in Mathematics, University of the Philippines Diliman, Philippines
  • Research topic: Optimization of oral contraceptive pill regimen

Graduate students

Yun Min Song

  • B.S. in Mathematical Sciences, KAIST, Korea
  • Research topic: Biochemical reaction network model reduction, Analysis and application of human activity/sleep data from wearable devices via mathematical model

    1. Song YM, Hong H, Kim JK, Universally valid reduction of multiscale stochastic biochemical systems using simple non-elementary propensities, PLoS Comp Biol (2021)

    2. Jeong EM, Song YM, Kim JK, Combined multiple transcriptional repression mechanisms generate ultrasensitivity and oscillations, Interface Focus (2022)

    3. Vu NT, Song YM, Tran QT, Yun H, Kim SK, Chae J, Kim JK, Beyond the Michaelis-Menten: Accurate Prediction of Drug Interactions through Cytochrome P450 3A4 Induction, Clinical Pharmacology & Therapeutics (2023)

    4. Song YM, Choi SJ, Park SH, Lee SJ, Joo EY, Kim JK, A real-time, personalized sleep intervention using mathematical modelling and wearable devices, Sleep (2023)

    5. Lee MP, Hoang K, Park S, Song YM, Joo EY, Chang W, Kim JH, Kim JK, Imputing Missing Sleep Data from Wearables with Neural Networks in Real-World Settings, Sleep (2023)

    6. Song YM, Campbell S, Shiau L, Kim JK, Ott W, Noisy delay denoises biochemical oscillators, Physical Review Letters (2024)

    7. Song YM, Jeong J, de los Reyes AV, Lim D, Cho C-H, Yeom JW, Lee T, Lee J-B, Lee H-J, Kim JK, Causal Dynamics of Sleep, Circadian Rhythm, and Mood in Major Depression and Bipolar Disorder Patients: Insights from Longitudinal Wearable Device Data, eBiomedicine (2024)

    8. Song, Y. M.†, Kim, J. K.*, (2024). What’s driving rhythmic gene expression: Sleep or the clock?, Cell Systems (2024)

    9. Lim D, Jeong J, Song YM, Lee H-J, Kim JK, Highly Accurate Prediction of Mood Episodes in Mood Disorder Patients Using Sleep and Circadian Rhythm Features from Wearables, NPJ Digital Medicine (2024)

    10. Song YM, Jeon S, Cho A, Chung S, Ahn Y, Kim JK, Suh S, Predictors of Sleep Quality Trajectories and Alertness in Shift Workers Undergoing Cognitive-Behavioral Therapy for insomnia (Submitted)

    11. Song Y. M.†, Lee, K, Kim, J. K.*, Validity of the total QSSA in stochastic biochemical reaction networks. (Submitted)

    12. Lim, D.†, Choi, S. J., Song, Y. M., Park, H. R., Joo, E. Y.*, Kim, J. K.*, Enhanced circadian phase tracking: A 5-hour DLMO sampling protocol using wearable data. (Under Review)

    13. Jang, H. J.†, Song, Y. M.†, Jeon, J. S., Yun, H., Kim, S. K.*, Kim, J. K.*, Optimizing enzyme inhibition analysis: Precise estimation with a single inhibitor concentration. (Under Review at Nature Communications)

     

Dongju Lim

  • B.S. in Mathematical Sciences, KAIST, Korea
  • Research topic: Time-series data analysis using machine-learning and variance reduction in stochastic reaction network

    1. Yun Min Song†, Jaegwon Jeong†, Aurelio V de los Reyes†, Dongju Lim, Chul-Hyun Cho, Ji Won Yeom, Taek Lee, Jung-Been Lee, Heon-Jeong Lee*, and Jae Kyoung Kim*, Causal Dynamics of Sleep, Circadian Rhythm, and Mood in Major Depression and Bipolar Disorder Patients: Insights from Longitudinal Wearable Device Data, eBioMedicine (2024)

    2. Dongju Lim†, Jaegwon Jeong†, Yun Min Song, Chul-Hyun Cho, Ji Won Yeom, Taek Lee, Jung-Been Lee, Heon-Jeong Lee*, Jae Kyoung Kim*, Highly Accurate Prediction of Mood Episodes in Mood Disorder Patients Using Sleep and Circadian Rhythm Features from Wearables, npj Digital Medicine (2024)

    3. Gyeong-Im Shin†, Joon-Yung Cha†, Dongju Lim, Aliya Alimzhan, Gyeongik Ahn, Song Yi Jeong, Myung Geun Ji, Sang Yeol Lee, Min Gab Kim, Jeongsik Kim, Jae Kyoung Kim, Woe-Yeon Kim*, GIGANTEA gates TOR-mediated meristem activation to control plant diurnal root growth (In revision)

    4. Dongju Lim†, Su Jung Choi, Yun Min Song, Hea Ree Park, Eun Yeon Joo*, Jae Kyoung Kim*, Enhanced Circadian Phase Tracking: A 5 Hour DLMO Sampling Protocol Using Wearable Data (In revision)

    5. Dongju Lim†, Kyeong Tae Ko†, Hyojung Lee, Boseung Choi, Won Chang, Sunhwa Choi, Jae Kyoung Kim*, A History-Dependent Approach for Accurate Initial Condition Estimation in Epidemic Models

Olive R. Cawiding

  • B.S. in Mathematics, University of the Philippines Baguio
  • M.S. in Mathematics, University of the Philippines Baguio
  • Research topic: Causal inference

    1. Olive R. Cawiding†, Saebom Jeon, Donnabel Tubera-Panes, Aurelio A. de los Reyes V, Jae Kyoung Kim*, Disentangling climate’s dual role in dengue dynamics: a multi-region causal analysis study (In revision)

    2. Olive R. Cawiding†, Hyeontae Jo†, Saebom Jeon, Faeyza Rishad Ardi, Jae Kyoung Kim*, Seockhoon Chung*, Cancer-related Dysfunctional Beliefs and Attitude about Sleep-6 (C-DBAS-6): A practical and accurate shortened version using XGBoost and SymScore (Submitted)

    3. Olive R. Cawiding†, Sieun Lee†, Hyeontae Jo, Sungmoon Kim, Sooyeon Suh, Eun Yeon Joo, Seockhoon Chung, Jae Kyoung Kim*, SymScore: Machine Learning Accuracy Meets Transparency in a Symbolic Regression-Based Clinical Score Generator, Computers in Biology and Medicine (2024)

Kangmin Lee

  • B.S. in Physics, Seoul Natinal Univ
  • Research topic: Multiscale Stochastic PDE, Wearable data analysis

    1.Yun Min Song, Kangmin Lee, Jae Kyoung Kim, Validity of the total QSSA in stochastic biochemical reaction networks (Submitted)

Myna Lim

  • B.S. in Mathematics, Cornell Univ
  • Research topic: Timeseries Analysis, Dimension reduction

    1. Hyeontae Jo†, Myna Lim†, Hong Jun Jeon, Junseok Ahn, Saebom Jeon, Jae Kyoung Kim*, Seockhoon Chung*, Data-driven Shortened Insomnia Severity Index: A Machine Learning Approach. Sleep Breath (2024)

 

Undergraduate students

Hyeong Jun Jang

  • Undergraduate in School of Transplinary Studies, KAIST, Korea
  • Research topic: QSSA, Parameter estimation, Enzyme inhibition
    • Hyeong Jun Jang†, Yun Min Song, Jang Su Jeon, Hwi-yeol Yun, Sang Kyum Kim, Jae Kyoung Kim*, Optimizing enzyme inhibition analysis: precise estimation with a single inhibitor concentration

Juhyeon Kim

  • Undergraduate in Mathematical Sciences, KAIST, Korea
  • Research topic: Mathematical modeling of circadian rhythms

Kyeongtae Ko

  • Undergraduate in Department of Statistics, Kyungpook National University, Korea (Expected graduation date: Mar. 2025)
  • Research topic: Epidemiological modeling and Data analysis using machine learning and bayesian method.
    • Dongju Lim†, Kyeong Tae Ko†, Hyojung Lee, Boseung Choi, Won Chang, Sunhwa Choi, Jae Kyoung Kim*, A History-Dependent Approach for Accurate Initial Condition Estimation in Epidemic Models

Sieun Lee

  • Undergraduate in Department of Mathematics, Kyungpook National University, Korea
  • Research topic: Improving Efficiency of Sleep Disorder Diagnosis via SymScore
    • Olive R. Cawiding†, Sieun Lee†, Hyeontae Jo, Sungmoon Kim, Sooyeon Suh, Eun Yeon Joo, Seockhoon Chung, Jae Kyoung Kim*, SymScore: Machine Learning Accuracy Meets Transparency in a Symbolic Regression-Based Clinical Score Generator, Computers in Biology and Medicine (2024)

 

Former members

Senior researchers

Aurelio A. de los Reyes V

  • Currently, Professor, University of the Philippines Diliman.
  • IBS BIMAG Senir Reseacher 2021-2022
  • PhD. Karl-Franzens Universitaet Graz, Austria
    1. Yun Min Song†, Jaegwon Jeong†, Aurelio V de los Reyes†, Dongju Lim, Chul-Hyun Cho, Ji Won Yeom, Taek Lee, Jung-Been Lee, Heon-Jeong Lee*, and Jae Kyoung Kim*, Causal Dynamics of Sleep, Circadian Rhythm, and Mood in Major Depression and Bipolar Disorder Patients: Insights from Longitudinal Wearable Device Data, eBioMedicine (2024)

Hyeontae Jo

  • Currently, Assistant Prof. Korea U. Sejong Campus
  • Ph.D in Mathematics, Postec, Korea
  • Research topic: Big data analysis and neural-network with physics-informed neural network

    1. Jo H, Hong H, Hwang H,J, Chang W, Kim JK, Density Physics-Informed Neural Network identifies sources of cell heterogeneity in signal transduction under antibiotic stress, Cell Patterns (2023)

    2. Hyeontae Jo†, Hong Jun Jeon, Junseok Ahn, Saebom Jeon*, Jae Kyoung Kim*, Seockhoon Chung*, Dysfunctional Beliefs and Attitude about Sleep-6 (DBAS-6): Data-driven Shortened Version from A Machine Learning Approach (Submitted)

    3. Hyeontae Jo†, Myna Lim†, Hong Jun Jeon, Junseok Ahn, Saebom Jeon, Jae Kyoung Kim*, Seockhoon Chung*, Data-driven Shortened Insomnia Severity Index: A Machine Learning Approach (Submitted)

Pan Li

  • Currently, research scientist at Zhejiang University, School of Medicine in Hangzhou 
  • Ph.D in Computational Biology, University of Leeds, United Kingdom
  • Research topic: Modeling the circadian regulation of cardiac function

    1. Pan Li†, Sangbo Lee, Kwang-Yeon Choi, Jonathan E. Rubin*, and Jae Kyoung Kim*, Cardiogenic and Chronobiological Mechanisms in Seizure-Induced Sinus Arrhythmias, Plos Computational Biology(2025)

    2. Mark Boyett†*, Pan Li, Yirong Xiang, Henggui Zhang, Jae Kyoung Kim, Alicia D’Souza*, Circadian determinants of heart rhythm and arrhythmia. Journal of Molecular and Cellular Cardiology(2025)

    2. Li P, Kim JK, Circadian regulation of sinoatrial nodal cell pacemaking function: dissecting the roles of autonomic control, body temperature, and local circadian rhythmicity, PLoS Computational Biology (2024)

Postoc fellows

Bryan S. Hernandez

  • Currently, Assistant Prof. University of the Philippines Diliman.
  • IBS BIMAG Postdoctoral Fellow 2021-2022
  • PhD. University of the Philippines Diliman. Philippine
    1. Hyukpyo Hong, Bryan S. Hernandez, Jinsu Kim, Jae Kyoung Kim*, Computational translation framework identifies biochemical reaction networks with special topologies and their long-term dynamics, SIAM Journal on Applied Mathematics (2023)
    2. Bryan S Hernandez, Patrick Vincent N. Lubenia, Matthew Johnston, Jae Kyoung Kim, A framework for deriving analytic long-term behavior of biochemical reaction networks, PLOS Comp Biol (2022)

Graduate students

Daewook Kim

  • Currently, Assistant Prof. KAIST, Daejeon (2024. 9~)
  • Van Loo Assistant Professor at the Department of Mathematics, University of Michigan, Ann Arbor (2021. 9~)
  • Ph.D. in Mathematical Sciences, KAIST, Korea: Theoretical Frameworks and Mathematical Models to Study Biological Systems with Time Dela
    1. Kim DW, Chang C, Chen X, Doran A, Gaudreault F, Wager T, DeMarco GJ, Kim JK, Systems approach reveals photosensitivity and PER2 level as determinants of clock‐modulator efficacy, Molecular Systems Biology (2019)
    2. Kim DW, Zavala E, Kim JK, Wearable technology and systems modeling for personalized chronotherapy, Curr Opin Syst Biol (2020)
    3. Zou X, DW Kim, Gotoh T, Liu J, Kim JK, Finkielstein CV, A systems biology approach identifies hidden regulatory connections between the circadian and cell-cycle checkpoints, Front. Physiol. (2020)
    4. Beesley S†, Kim DW†, DAlessandro M, Jin Y, Lee K, Joo H, Young Y, Tomko R, Kim JK, Lee C, Wake-sleep cycles are severely disrupted by diseases affecting cytoplasmic homeostasis, PNAS (2020)
    5. Pay ML†, Kim DW†, Somers DE, Kim JK, Foocor M, Modeling of Plant Circadian Clock for Characterizing Hypocotyl Growth under Different Light Quality Conditions, in silico Plants (2022) 
    6. Dae Wook Kim†, Hyukpyo Hong†, and Jae Kyoung Kim, Systematic inference identifies a major source of heterogeneity in cell signaling dynamics: the rate-limiting step number, Science Advances (2022)
    7. Abe YO, Yoshitane H, Kim DW, Koebis M, Aiba A, Kim JK, Fukada Y, Rhythmic transcription of Bmal1 stabilizes the circadian timekeeping system in mammals, Nature Communications (2022)
    8. Kim DW, Byun JM, Lee JK, Kim JK, Koh Y, Chemotherapy delivery time affects anti- lymphoma treatment outcome in a sex-dependent manner, JCI Insight (2022)
    9. Seok Joo Chae, Dae Wook Kim, Seunggyu Lee, and Jae Kyoung Kim, Spatially coordinated collective phosphorylation filters spatiotemporal noises for precise circadian timekeeping, iScience (2023)
    10. Seokjoo Chae†, Dae Wook Kim, Oleg A. Igoshin, Seunggyu Lee and Jae Kyoung Kim*, Beyond microtubule: Cellular environment at the endoplasmic reticulum attracts proteins to the nucleus, essential for nuclear transport, iScience (2024)
    11. Song Yi Jeong†, Dae Wook Kim†, Seokmin Ha†, Gyeongik Ahn, Gyeong-Im Shin, Cam Chau Nguyen, Joon-Yung Cha, Jae Kyoung Kim*, Woe-Yeon Kim*, Unraveling strong circadian rhythms: synergy in protein degradation and synthesis (Submitted)

Seok Joo Chae

  • Currently, Postdoc Fellow, Rice U, USA (2024. 9~)
  • B.Sc. in Mathematical Sciences, KAIST, Korea
  • Research topic: Spatiotemporal dynamics of protein in intracellular environments, NK immunotherapy modeling, single-cell RNA seqeucning analysis

    1. Lee S†, Chae SJ†, Jang IH, Oh S, Kim SM, Lee SY, Kim JH, Ko J, Kim HJ, Kim JK, B7H6 is the Predominant Activating Ligand Driving Natural Killer Cell-Mediated Killing in Liquid Tumor Patients: Evidence from Clinical, In Silico, In Vitro, and In Vivo Studies, (Submitted) (2024)

    2. Shin S†, Chae SJ†, Lee S, Kim JK, Universally valid reduction of multiscale stochastic biochemical systems using simple non-elementary propensities, PLoS Computational Biology (2024)

    3. Kim H, Chang W, Chae SJ, Park JE, Seo M, Kim JK, scLENS: data-driven signal detection for unbiased scRNA-seq data analysis, Nature Communications (2024)

    4. Chae SJ, Kim DW, Igoshin OA, Lee S, Kim JK, Beyond microtubules: The cellular environment at the endoplasmic reticulum attracts proteins to the nucleus, enabling nuclear transport, iScience (2024)

    5. Chae SJ, Kim DW, Lee S, Kim JK, Spatially coordinated collective phosphorylation filters spatiotemporal noises for precise circadian timekeeping, iScience (2023)

Hyukpyo Hong

  • Currently, Van Vleck Assistant Professor, U of Wisconsin, Madison (2023. 9~)
  • Ph.D. in Mathematical Sciences, KAIST, Korea
  • Research topic: Analysis of human activity patterns using a fractal analysis for diagnois/ Inference of time delay distributio from timeseries data/ Stochatic analysis of chemical reaction network
    1. Hyukpyo Hong, Jinsu Kim, M Ali Al-Radhawi, Eduardo Sontag, and Jae Kyoung Kim, Derivation of stationary distributions of biochemical reaction networks via structure transformation, Communicaiton Biology (2021)
    2. Yun Min Song, Hyukpyo Hong, and Jae Kyoung Kim, Universally valid reduction of multiscale stochastic biochemical systems using simple non-elementary propensities,PLOS Comp Biol(2021)
    3. Jaehyoung Hong, Su Jung Choi, Se Ho Park, Hyukpyo Hong, Victoria Booth, Eun Yeon Joo, and Jae Kyoung Kim, Personalized sleep-wake patterns aligned with circadian rhythm relieve daytime sleepiness, iScience (2021)
    4. Hyukpyo Hong, Boseung Choi, Jae Kyoung Kim (2021), Beyond the Michaelis–Menten: Bayesian Inference for Enzyme Kinetic Analysis. In Quentin Vanhaelen (Ed.) Computational Methods for Estimating the Kinetic Parameters of Biological Systems, Springer U
    5. Mark Jayson Cortez, Hyukpyo Hong, Boseung Choi*, Jae Kyoung Kim*, and Krešimir Josic*, Hierarchical Bayesian models of transcriptional and translational regulation processes with delays, Bioinformatics (2021)
    6. Dae Wook Kim†, Hyukpyo Hong†, and Jae Kyoung Kim, Systematic inference identifies a major source of heterogeneity in cell signaling dynamics: the rate-limiting step number, Science Advances (2022)
    7. Hyukpyo Hong†, Ji Yun Noh†, Hyojung Lee, Sunhwa Choi, Boseung Choi, Jae Kyoung Kim*, Eui-Cheol Shin*, Increasing viral transmission paradoxically reduces progression rates to severe COVID-19 during endemic transition, Immune Network (2022)
    8. Hyukpyo Hong, Bryan S. Hernandez, Jinsu Kim, Jae Kyoung Kim*, Computational translation framework identifies biochemical reaction networks with special topologies and their long-term dynamics, SIAM Journal on Applied Mathematics (2023)
    9. Hyukpyo Hong, Mark Jayson Cortez, Yu-Yu Cheng, Hang Joon Kim, Boseung Choi, Kresimir Josic, and Jae Kyoung Kim, Inferring delays in partially observed gene regulatory networks, Bioinformatics (2023)
    10. Hyeontae Jo, Hyukpyo Hong, and Jae Kyoung Kim*, Density Physics-Informed Neural Network reveals sources of cell heterogeneity in signal transduction, Cell Patterns (2023)
    11. Hyukpyo Hong, Seokhwan Moon, Yuji Hirono*, Jae Kyoung Kim*, Topological Criterion for Robust Perfect Adaptation of Reaction Fluxes in Biological Networks (Submitted)

Eui Min Jeong

  • Currently, an assistant professor in Data Science, Inha University     
  • Ph.D in Mathematics, KAIST, Korea
  • Research topic: Biological data analysis and mathematical modeling

    1. Yuta Otobe†, Eui Min Jeong†, Shunsuke Ito†, Yuta Shinohara, Nobuhiro Kurabayashi, Atsu Aiba, Yoshitaka Fukada*, Jae Kyoung Kim*, Hikari Yoshitane*, Phosphorylation of DNA-binding domains of CLOCK-BMAL1 is essential for PER-dependent inhibition in circadian clock of mammalian cells, PNAS (2024)

    2. Eui Min Jeong, Jae Kyoung Kim, A robust ultrasensitive transcriptional switch in noisy cellular environments, npj syst. biol. appl. (2024)

    3. Eui Min Jeong, Yun Min Song, Jae Kyoung Kim, Combined multiple transcriptional repression mechanisms generate ultrasensitivity and oscillations, Interface focus (2022)

    4. Eui Min Jeong†, Miri Kwon†, Eunjoo Cho†, Sang Hyuk Lee, Hyun Kim, Eun Young Kim*, Jae Kyoung Kim*, Systematic modeling-driven experiments identify distinct molecular clockworks underlying hierarchically organized pacemaker neurons, PNAS (2022)

Tyczynska Malgorzata Anna

  • Currently, Ph. D. student in Moffitt Cancer Center (FL, USA).
  • M.S. in Mathematical Sciences, KAIST, Korea
  • Research topic: Detecting Causality in Oscillating Systems

Undergraduate students

Seho Park

  • Currently, Math Grad Student, U of Wisconsin, Madison (2023. 9~)
  • B.S. in Mathematical Sciences, KAIST, Korea
    1. Jaehyoung Hong, Su Jung Choi, Se Ho Park, Hyukpyo Hong, Victoria Booth, Eun Yeon Joo, and Jae Kyoung Kim, Personalized sleep-wake patterns aligned with circadian rhythm relieve daytime sleepiness, iScience (2021)
    2. Se Ho Park, Seokmin Ha, Jae Kyoung Kim, A general model-based causal inference overcomes the curse of synchrony and indirect effect, Nature Communications (2023)
    3. Yun Min SongႵ, Su Jung ChoiႵ, Se Ho Park, Soo Jin Lee, Eun Yeon Joo*, Jae Kyoung Kim*, A real-time, personalized sleep intervention using mathematical modelling and wearable devices, SLEEP, 2023

Seokmin Ha

  • Currently, Math Grad Student, MIT, Madison (2023. 9~)
  • B.S. in Mathematical Sciences, KAIST, Korea
    1. Joohee Lee†, Seokmin Ha†, Oli Ahmed, Inn-Kyu Cho, Dongin Lee, Kyumin Kim, Solbi Kang, Sangha Lee, Sooyeon Suh*, Seockhoon Chung*, Jae Kyoung Kim, Validation of a Korean version of the Metacognitions Questionnaire-Insomnia (MCQ-I) and development of shortened versions of the rating scale: a random forest approach, Sleep Medicine (2022)
    2. Seokmin Ha†, Su Jung Choi†, Sujin Lee, Reinatt Hansel Wijaya, Jee Hyun Kim, Eun Yeon Joo*, Jae Kyoung Kim*, A machine learning-based simple questionnaire for predicting the risk of sleep disorders , JMIR (2023)
    3. Se Ho Park, Seokmin Ha, Jae Kyoung Kim, A general model-based causal inference overcomes the curse of synchrony and indirect effect, Nature Communications (2023)
    4. Song Yi Jeong†, Dae Wook Kim†, Seokmin Ha†, Gyeongik Ahn, Gyeong-Im Shin, Cam Chau Nguyen, Joon-Yung Cha, Jae Kyoung Kim*, Woe-Yeon Kim*, Unraveling strong circadian rhythms: synergy in protein degradation and synthesis (Submitted)

Minki Lee

  • Currently, Math Grad Student, U of Michgian, Ann Arbor
  • B.S. in Mathematical Sciences, U of Michgian, Ann Arbor
    1. . Minki P. Lee†, Kien Hoang†, Sungkyu Park, Yun Min Song, Eun Yeon Joo, Won Chang*, Jee Hyun Kim*, Jae Kyoung Kim*, Imputing Missing Sleep Data from Wearables with Neural Networks in Real-World Settings, Sleep (2023)

 

Kien Hoang

  • Currently, Artificial Intelligence & Advanced Visual Computing at École Polytechnique
  • B.S. in Computer Sciences, KAIST

    1. Minki P. Lee†, Kien Hoang†, Sungkyu Park, Yun Min Song, Eun Yeon Joo, Won Chang*, Jee Hyun Kim*, Jae Kyoung Kim*, Imputing Missing Sleep Data from Wearables with Neural Networks in Real-World Settings, Sleep (2023)

Seokhwan Moon

  • Currently, PhD. student in Department of Mathematics, U Winsconsin Madison 
  • Undergraduate in Department of Mathematics, POSTEC, Korea
  • Research topic: Control of Stochastic Biochemical Reaction Networks
  • Hyukpyo Hong†, Seokhwan Moon†, Yuji Hirono, Jae Kyoung Kim Topological Criterion for Robust Perfect Adaptation of Reaction Fluxes in Biological Network, iScience (2025)
  • Lim D†, Moon S†, Song YM, Kim J, Kim K, Cho B-K, Kim J*, Kim JK* Toward Single-Cell Control: Noise-Robust Perfect Adaptation in Biomolecular System . Nature Communications (2025)  

 

A video introducing research life in our lab

     

Avaiable Positions

Postdocs

IBS Biomedical Mathematics Group Postdoc

We have several postdoc posotions for IBS Biomedical Matheamtics Group (https://www.ibs.re.kr/bimag/), which consists of intracellular, intercelluar and systematic dynamics teams. Please visist the website for the details.

Samsung STF Postdoc

We have a postdoctoral fellow position for a Samsung STF-funded project: Inference of dynamic networks from timeseries big data in biological systems. We aim develop methods infering the structure of network and time delay distribution in network interactions from timeseries data.

Data analysis experience (e.g. Bayesian inference) is recommended, but not required. For inquiries, please contact Prof. Jae Kyoung Kim via email at jaekkim@kaist.ac.kr. Applications, including a full CV, a cover letter explaining suitability for the position, and the names and addresses of two referees should be sent to Prof. Kim.

BK21 Postdoc positions are available in Dept. of Math, KAIST, every semseter (June or Dec)

http://mathsci.kaist.ac.kr/home/

Graduarte Students

Our lab does not hire graduate students directly according to the math department policy. The admission process of the math department is as follows.

Step 1. Getting an admission from Dept of Math, KAIST (written exam + interview)

Step 2. Taking a semster course work.

Step 3. Deciding a reserach advisor after a semester.

For those who have interest in Math Biol Lab, please come to our Journal club seminar, where we study a paper together per week. https://www.ibs.re.kr/bimag/events/category/seminar/journal-club/ For those who have interest in, please let me know.

Undergradatue Students

Each year, one or two undergraduate students have worked in Math Bio lab. Taking at least one of following courses is recommended before asking the independent study or URP study:

Method of Applied Mathematics, Introduction for Mathematical Biology, ODE & Nonlinear Dynamics or any of my class.

You can find the application form in https://www.ibs.re.kr/bimag/job-application/internship/

Previous URP students in KAIST Math Biol Lab:

2022 Seho Park, Development of inference method for dynamic networks (2022 S URP Best Award/최우수상)

2021 Seokmin Ha, Analysis of Plant Circadian Clock Considering Post Translational Regulation (2021 W URP Best Award/최우수상)

2021 Eun Han Goo, Development of a mathematical model for predicting accurate hepatic clearance of drug

2019 Minyoo Kim, The Total Quasi-Steady-State Approximation for a Competitive System (2019 KSIAM Poster award)

2017 Oleg Magnes, Revealing new components of circadian clock using machine learning

2016 Seokjoo Choe, The effect of non-specific binding of transcription factor on circadian rhythms