Yoon Seok Kim

EPFL SV IBI-SV UPKIM
AI 2149 (Bâtiment AI)
Station 19
1015 Lausanne

EPFL SV IBI-SV UPKIM
AI 2149 (Bâtiment AI)
Station 19
1015 Lausanne

Yoon works at the intersection of protein engineering, structural biology, and neuroscience, with the goal of uncovering the molecular mechanisms that govern how cells and tissues interact with their extracellular environment. His research seeks to translate these mechanistic insights into new approaches for understanding and manipulating the brain, with particular interest in neurological diseases and brain cancers.

Prior to EPFL, Yoon completed his B.S. and M.S. in Biology at Stanford University, where he worked with  Thomas Südhof (Nobel Laureate in Physiology or Medicine, 2013) to study the biochemistry of synaptic proteins, including neuroligin-3 (NLGN3) and neurexins. He subsequently pursued a Ph.D. in Bioengineering at Stanford University, working with Brian Kobilka (Nobel Laureate in Chemistry, 2012) and Karl Deisseroth (Nobel Laureate in Physiology or Medicine, 2026). His doctoral research focused on the structural mechanisms of light-gated ion channels, or channelrhodopsins, and on translating these mechanistic principles into improved molecular tools for controlling and studying neural activity with light. In 2021, Yoon joined Michelle Monje’s laboratory at Stanford as a postdoctoral fellow to investigate the molecular basis of neuron–cancer interactions. His work uncovered how NLGN3, a postsynaptic structural protein turned glioma mitogen, engages tumor-cell surface machinery to promote cancer growth, revealing a previously unrecognized mechanosensitive signaling pathway that drives glioma proliferation.

Across these areas, Yoon's research has combined molecular mechanism with protein engineering to understand and manipulate biological signaling at the cell surface. His work has resulted in first-author publications in major journals such as  Cell, Nature, Science, Nature Neuroscience, and Neuron. Yoon has received numerous competitive fellowships and research awards, including the Kwanjeong International Fellowship, Walter V. and Idun Berry Postdoctoral Fellowship, Defeat DIPG ChadTough Fellowship, Defeat DIPG Young Investigator Award, and Horten Health Foundation Young Investigator Award.

Curriculum vitae

2025-present Assistant Professor of Life Science Engineering, EPFL
2021-2025 Postdoctoral Researcher in Neurology, Stanford University
  •     Advisor: Michelle Monje, MD., PhD

2014-2020 Ph.D. in Bioengineering, Stanford University
  •     Advisors: Karl Deisseroth, M.D., Ph.D., and Brian Kobilka, M.D.
2010-2012 Military Service, South Korean Army
2007-2014 Combined B.S. and M.S. in Biology, Stanford University

Selected publications

Neuroligin-3 interaction with CSPG4 regulates normal and malignant glial precursors through mechanotransduction

Kim YS*#, Gillespie SM*, Geraghty AC, Yalçın B, Ivec AE, Yang A, Mancusi R, Hysinger J, Reed J, Drexler R, Quezada M, Malacon K, Woo P, Byun YG, Mount C, Lam M, Pan Y, Zuchero JB, Trotter J, Monje M#
Published in Nature Neuroscience in 2025

Structural basis for ion selectivity in potassium-selective channelrhodopsins

Tajima S*, Kim YS*, Fukuda M, Jo YJ, Wang PY, Paggi JM, Inoue M, Byrne EFX, Kishi KE, Nakamura S, Ramakrishnan C, Takaramoto S, Nagata T, Konno M, Sugiura M, Katayama K, Matsui TE, Yamashita K, Kim S, Ikeda H, Kim J, Kandori H, Dror RO, Inoue K, Deisseroth K#, Kato HE#
Published in Cell in 2023

Structural basis for channel conduction in the pump-like channelrhodopsin ChRmine

Kishi KE*, Kim YS*, Fukuda M*, Inoue M*, Kusakizako T*, Wang PY*, Ramakrishnan C, Byrne EFX, Thadhani E, Paggi JM, Matsui TE, Yamashita K, Nagata T, Konno M, Quirin S, Lo M, Benster T, Uemura T, Liu K, Shibata M, Nomura N, Iwata S, Nureki O, Dror RO, Inoue K, Deisseroth K#, Kato HE#
Published in Cell in 2022

Comprehensive dual- and triple-feature intersectional single-vector delivery of diverse functional payloads to cells of behaving mammals

Fenno LE*, Ramakrishnan C*, Kim YS*, Evans KE, Lo M, Vesuna S, Inoue M, Cheung KYM, Yuen E, Pichamoorthy N, Hong A and Deisseroth K
Published in Neuron in 2020

Genetically-targeted Chemical Assembly of Functional Materials in Living Cells, Tissues and Animals

Liu J*, Kim YS*, Richardson C*, Tom A*, Ramakrishnan C, Birey F, Katsumata T, Chen S, Wang C, Wang X, Joubert L, Jiang Y, Wang H, Fenno LE, Tok JBH, Pasca SP, Bao Z# and Deisseroth K#
Published in Science in 2020

Cortical Layer-specific Critical Dynamics Triggering Perception

Marshel JH*, Kim YS*, Machado TA*, Quirin S*, Benson B, Kadmon J, Raja C, Chibukhchyan A, Ramakrishnan C, Inoue M, Shane JC, McKnight DJ, Yoshizawa S, Kato HE, Ganguli S and Deisseroth K
Published in Science in 2019

Crystal structure of the natural anion-conducting channelrhodopsin GtACR1

Kim YS*, Kato HE*#, Yamashita K, Ito S, Inoue K, Ramakrishnan C, Fenno LE, Evans KE, Paggi JM, Dror RO, Kandori H, Kobilka BK and Deisseroth K#
Published in Nature in 2018

Structural mechanisms of selectivity and gating in anion channelrhodopsins

Kato HE*#, Kim YS*, Paggi JM, Evans KE, Allen WE, Richardson C, Inoue K, Ito S, Ramakrishnan C, Fenno LE, Yamashita K, Hilger D, Lee SY, Berndt A, Shen K, Kandori H, Dror RO, Kobilka BK and Deisseroth K#
Published in Nature in 2018

Teaching & PhD

PhD Students

Zeynep Defne Lüleci

Courses

Biology and engineering of membrane signaling

BIO-314

This course introduces the basic biology of cell membranes and membrane proteins, and explains how they control communication between cells and their environment. Students will also learn how membrane proteins are studied and engineered in modern biology and bioengineering.