Collaborators

Mathematics

Krešimir Josić

Department of Mathematics, U of Houston, USA

Collaborative works
Long-range temporal coordination of gene expression in spatially extended synthetic microbial consortia, Nature Chem Biol (2019)
Bayesian inference of distributed time delay in transcriptional and translational regulation, Bioinformatics (2019)
The relationship between deterministic and stochastic quasi-steady-state approximation, BMC Syst Biol (2015)
Emergent genetic oscillations in a synthetic microbial consortium, Science (2015)
The Validity of Quasi-Steady-State Approximations in Discrete Stochastic Simulations, Biophy J (2014)
Molecular mechanisms that regulate the coupled period of the mammalian circadian clock, Biophy J (2014)

John Tyson

Department of Biological Sciences, Virginia Tech, USA

Collaborative works
A systems- driven experimental approach reveals the complex regulatory distribution of p53 by circadian factors, PNAS (2016)
Misuse of the Michaelis-Menten rate law for protein-interaction networks and its remedy, PLoS Comput Biol (2020)


Sookkyung Lim

Mathematical Sciences, University of Cincinnati, USA

Collaborative works
Modeling reveals a key mechanism for light-dependent phase shifts of Neurospora circadian rhythms, Biophy J (2018)

Boseung Choi

Department of National Statistics, Korea University Sejong, Republic of Korea

Collaborative works
Bayesian inference of distributed time delay in transcriptional and translational regulation, Bioinformatics (2019)
Beyond Michaelis-Menten: Accurate and efficient estimation of enzyme kinetic parameters, Scientific Report (2017)

Grzegorz Rempala

Division of Biostatistics and Mathematical Biosciences Institute, The Ohio State University, USA

Collaborative works
Reduction for stochastic reaction network with multi-scale conservation, SIAM Multiscale Model Simul (2017)
Beyond Michaelis-Menten: Accurate and efficient estimation of enzyme kinetic parameters, Scientific Report (2017)

Eduardo D. Sontag

Departments of Electrical and Computer Engineering and of Bioengineering, Northeastern University, USA

Collaborative works
Derivation of stationary distributions of biochemical reaction networks via structure transformation , Communication BIol (2021)
Reduction of Multiscale Stochastic Biochemical Reaction Networks using Exact Moment Derivation, PLoS Comput Biol (2017)

Victoria Booth

Department of Mathematics, U of Michigan, USA

Collaborative works
Personalized sleep-wake patterns aligned with circadian rhythm relieve daytime sleepiness (Submitted)

Daniel Forger

Department of Mathematics, U of Michigan, USA

Collaborative works
A Period2 Phosphoswitch Regulates and Compensates Circadian Period, Molecular Cell (2015)
Modeling and Validating Chronic Pharmacological Manipulation of Circadian Rhythms, CPT:PSP (2013)
A Mechanism for Robust Circadian Timekeeping via stoichiometric balance, Mol Syst Biol (2012)
On the Existence and Uniqueness of Biological Clock Models Matching Experimental Data, SIAM J APPL MATH (2012)

Jonathan Tyler

Department of Mathematics, U of Michigan, USA

Collaborative works
Inferring causality in biological oscillators (Submitted)

Jinsu Kim

Department of Mathematics, University of California, Irvine, USA

Collaborative works
Derivation of stationary distributions of biochemical reaction networks via structure transformation Communication BIol (2021)

Eder Zavala

Institute of Metabolism and Systems Research MRC Skills Development Fellow, University of Birmingham

Collaborative works
Wearable technology and systems modeling for personalized chronotherapy, Curr. Opin. Syst. Biol. (2020)

Biology

Choogon Lee

Dept. of Biomedical Sciences & Neuroscience, Florida State U., USA

Collaborative works
Wake-sleep cycles are severely disrupted by diseases affecting cytoplasmic homeostasis, PNAS (2020)
Stability of the circadian system requires a robust degradation of PERIOD, Current Biol (2017)
A tunable artificial circadian clock in clock-defective mice, Nature Commun (2015)

David Virshup

Programme in Cancer and Stem Cell Biology, Duke-NUS Medical School, Singapore

Collaborative works
Mutation of a PER2 phosphodegron perturbs the circadian phosphoswitch, PNAS (2020)
CK1 protein kinases prime the PER2 circadian phosphoswitch, PNAS (2018)
A Period2 Phosphoswitch Regulates and Temperature Compensates Circadian Period, Molecular Cell (2015)

Carla Finkielstein

Department of Biological Sciences, Virginia Tech, USA

Collaborative works
A systems biology approach identifies hidden regulatory connections between the circadian and cell-cycle checkpoints, Front Physiol (2020)
Distinct control of PERIOD2 degradation and circadian rhythms by the oncoprotein MDM2, Science Signal (2018)
A systems- driven experimental approach reveals the complex regulatory distribution of p53 by circadian factors, PNAS (2016)

Christian I. Hong

Pharmacology and Systems Physiology, U of Cincinnati, USA

Collaborative works
Modeling reveals a key mechanism for light-dependent phase shifts of Neurospora circadian rhythms, Biophy J (2018)

Matthew Bennett

Department of Biosciences, Rice University, USA

Collaborative works
Long-range temporal coordination of gene expression in spatially extended synthetic microbial consortia, Nature Chem Biol (2019)
The relationship between deterministic and stochastic quasi-steady-state approximation, BMC Syst Biol (2015)
Emergent genetic oscillations in a synthetic microbial consortium, Science (2015)
The validity of quasi-steady-state approximations in discrete stochastic simulations, Biophy J (2014)
Molecular mechanisms that regulate the coupled period of the mammalian circadian clock, Biophy J (2014)

Dae-Jin Yun

Department of Biomedical Science & Engineering, Konkuk University, Republic of Korea

Collaborative works
Rheostatic control of ABA signaling through HOS15-mediated OST1 degradation, Molecular Plant (2019)

Woe Yeon Kim

Plant Molecular Biology and Biotechnology Research Center, Gyeongsang National University, Republic of Korea

Collaborative works
Rheostatic control of ABA signaling through HOS15-mediated OST1 degradation, Molecular Plant (2019)

Eun Young Kim

Department of Biomedical Sciences, Ajou University Graduate School of Medicine, Republic of Korea

Collaborative works
Model-driven experimental approach reveals the molecular differences in pacemaker neurons in Drosophila circadian clock (Submitted)

Sara Aton

Department of Molecular, Cellular, and Developmental Biology, U of Michigan

Collaborative works
Possible “non-clock” functions of circadian clock genes – Potential roles in sleep, stress, and memory, Biochemical Pharmacology (2021)

Matias D. Zurbriggen

Institute of Synthetic Biology and CEPLAS, Heinrich Heine University Düsseldorf, Germany

Collaborative works
Possible “non-clock” functions of circadian clock genes – Potential roles in sleep, stress, and memory, Biochemical Pharmacology (2021)

Robbert Havekes

Department of Biology, University of Pennsylvania, USA
Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, The Netherlands

Collaborative works
Possible “non-clock” functions of circadian clock genes – Potential roles in sleep, stress, and memory, Biochemical Pharmacology (2021)

Yoshitaka Fukada

Department of Biophysics and Biochemistry (UG), Department of Biological Sciences (GR), Graduate School of Science, University of Tokyo, Japan

Rhythmic transcription of Bmal1 stabilizes the circadian timekeeping system in mammals (To be submitted)
Mutation of a PER2 phosphodegron perturbs the circadian phosphoswitch, PNAS (2020)

Medicine

Eun Yeon Joo

Department of Neurology, Neuroscience Center, Samsung Medical Center, Republic of Korea

Collaborative works
Personalized sleep-wake patterns aligned with circadian rhythm relieve daytime sleepiness (Submitted)

Jeong Whun Kim

Department of Otorhinolaryngology, Seoul National University Bundang Hospital, Republic of Korea

Collaborative works
Combined unsupervised-supervised machine learning for phenotyping complex diseases with its application to obstructive sleep apnea, Scientific Reports (2021)

Young Il Koh

Department of Internal Medicine, Seoul National University Hospital, Republic of Korea

Collaborative works
Cancer chronotherapy

Pharmacology

Cheng Chang

Clinical Pharmacology, Pfizer Global Product Development, Pfizer Inc, USA

Collaborative works
Systems approach reveals photosensitivity and PER2 level as determinants of clock modulator efficacy, Mol Syst Biol (2019)
Modeling and Validating Chronic Pharmacological Manipulation of Circadian Rhythms, CPT:PSP (2013)

Francois Gaudreault

Clinical Pharmacology and Pharmacometrics, Biogen Inc, USA

Collaborative works
Systems approach reveals photosensitivity and PER2 level as determinants of clock modulator efficacy, Mol Syst Biol (2019)

Hwi‐yeol Yun

College of Pharmacy, Chungnam National University, Republic of Korea

Collaborative works
Beyond the Michaelis-Menten: Prediction of in vivo clearance for drugs with low KM, Clin Transl Sci (2020)

Sang Kyum Kim

College of Pharmacy, Chungnam National University, Republic of Korea

Collaborative works
Beyond the Michaelis-Menten: Prediction of in vivo clearance for drugs with low KM, Clin Transl Sci (2020)

Jungwoo Chae

College of Pharmacy, Chungnam National University, Republic of Korea

Collaborative works
Investigation of CYP enzyme induction with tQSSA