Seoul National University Biological Sciences Website

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Laboratory of Computational Structural and Systems Biology

Yunji Kim, Minkyung Baek* (2026). De novo epitope-specific antibody design via time-dependent guidance. Bioinformatics, 42(Supplement_2), btag455.

Seung-Hwan Lee#, Yeajin Kim#, Gyuhee Kim, Mangyu Choe, Soung-Hun Roh, Minkyung Baek*, Yeong-Jae Seok*. (2026). CRP-dependent DNA anchoring and membrane sequestration define a dual mechanism for MtlR-mediated regulation. Nucleic Acids Research, 54(14), gkag751.

#co-first authors, *co-corresponding authors

Jing Zhang, Ian R Humphreys, Jimin Pei, Jinuk Kim, Chulwon Choi, Rongqing Yuan, Jesse Durham, Siqi Liu, Hee-Jung Choi, Minkyung Baek, David Baker, Qian Cong (2025). Predicting protein-protein interactions in the human proteome. Science, 390(6771), eadt1630.

Han-Byul Kim, Sangjin Yoo, Hoyun Kwak, Shi-Xun Ma, Ryunhee Kim, Minhyeok Lee, Nui Ha, Soonil Pyo, Soon-Gu Kwon, Eun-Ho Cho, Sang-Myeong Lee, Juwon Jang, Won Kyum Kim, Hae-Chul Park, Minkyung Baek, Yosub Park, Ji-Young Park, Jin-Woo Park, Sun Wook Hwang, Jong-Ik Hwang, Jae Young Seong (2025). Inhibition of FAM19A5 reverses synaptic loss and cognitive decline in mouse models of Alzheimer’s disease. Alzheimer's Research & Therapy, 17(1), 168.

Meghana Kshirsagar*, Artur Meller, Ian R. Humphreys, Samuel Sledzieski, Yixi Xu, Rahul Dodhia, Eric Horvitz, Bonnie Berger, Gregory R. Bowman, Juan Lavista Ferres, David Baker, Minkyung Baek* (2025). Rapid and accurate prediction of protein homo-oligomer symmetry using Seq2Symm. Nature Communications, (), .

*Co-corresponding authors

Sanggeun Park#, Sojung Myung#, Minkyung Baek* (2025). Advancing protein structure prediction beyond AlphaFold2. Current Opinion in Structural Biology, 90(), 102985.

#co-first authors

Min Su Yoon#, Byunghyun Bae#, Kunhee Kim#, Hahnbeom Park*, Minkyung Baek* (2025). Deep learning methods for proteome-scale interaction prediction. Current Opinion in Structural Biology, 90(), 102981.

#co-first authors, *co-corresponding authors

Ian R. Humphreys#, Jing Zhang#, Minkyung Baek#,*, Yaxi Wang#, Aditya Krishnakumar, Jimin Pei, Ivan Anishchenko, Catherine A. Tower, Blake A. Jackson, Thulasi Warrier, Deborah T. Hung, S. Brook Peterson, Joseph D. Mougous, Qian Cong*, David Baker* (2024). Protein interactions in human pathogens revealed through deep learning. Nature Microbiology, 9(), 2642–2652.

#co-first authors, *co-corresponding authors

Minkyung Baek, Ryan McHugh, Ivan Anishchenko, Hanlun Jiang, David Baker, Frank DiMaio (2024). Accurate prediction of protein–nucleic acid complexes using RoseTTAFoldNA. Nature Methods, 21(1), 117-121.

Joseph L Watson, David Juergens, Nathaniel R Bennett, Brian L Trippe, Jason Yim, Helen E Eisenach, Woody Ahern, Andrew J Borst, Robert J Ragotte, Lukas F Milles, Basile IM Wicky, Nikita Hanikel, Samuel J Pellock, Alexis Courbet, William Sheffler, Jue Wang, Preetham Venkatesh, Isaac Sappington, Susana Vázquez Torres, Anna Lauko, Valentin De Bortoli, Emile Mathieu, Sergey Ovchinnikov, Regina Barzilay, Tommi S Jaakkola, Frank DiMaio,Minkyung Baek, David Baker (2023). De novo design of protein structure and function with RFdiffusion. Nature, 620(7976), 1089–1100.

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