Gyu Rie Lee

Publication Activity (10 Years)

Years Active: 2021-2024
Publications (10 Years): 28

Top Topics

Convolutional Neural Network

Structural Basis

Capillary Electrophoresis

Top Venues

Science (New York, N.Y.)

Journal of chemical theory and computation

bioRxiv : the preprint server for biology

This page only lists publications with an associated author ORCID identifier.

Publications

Linna An, Meerit Y Said, Long Tran, Sagardip Majumder, Inna Goreshnik, Gyu Rie Lee, David C Juergens, Justas Dauparas, Ivan Anishchenko, Brian Coventry, Asim K Bera, Alex Kang, Paul M Levine, Valentina Alvarez, Arvind S Pillai, Christoffer H Norn, David Feldman, Dmitri Zorine, Derrick R Hicks, Xinting Li, Mariana Garcia Sanchez, Dionne K Vafeados, Patrick J Salveson, Anastassia Andreevna Vorobieva, Julien S Baker
Binding and sensing diverse small molecules using shape-complementary pseudocycles. Science (New York, N.Y.) 385 (6706) (2024)
Linna An, Meerit Y Said, Long Tran, Sagardip Majumder, Inna Goreshnik, Gyu Rie Lee, David C Juergens, Justas Dauparas, Ivan Anishchenko, Brian Coventry, Asim K Bera, Alex Kang, Paul M Levine, Valentina Alvarez, Arvind S Pillai, Christoffer H Norn, David Feldman, Dmitri Zorine, Derrick R Hicks, Xinting Li, Mariana Garcia Sanchez, Dionne K Vafeados, Patrick J Salveson, Anastassia Andreevna Vorobieva, Julien S Baker
Binding and sensing diverse small molecules using shape-complementary pseudocycles. Science (New York, N.Y.) 385 (6706) (2024)
Sanaa Mansoor, Minkyung Baek, Hahnbeom Park, Gyu Rie Lee, David Baker
Protein Ensemble Generation Through Variational Autoencoder Latent Space Sampling. Journal of chemical theory and computation 20 (7) (2024)
Rohith Krishna, Jue Wang, Woody Ahern, Pascal Sturmfels, Preetham Venkatesh, Indrek Kalvet, Gyu Rie Lee, Felix S Morey-Burrows, Ivan Anishchenko, Ian R Humphreys, Ryan McHugh, Dionne K Vafeados, Xinting Li, George A Sutherland, Andrew Hitchcock, Christopher Neil Hunter, Alex Kang, Evans Brackenbrough, Asim K Bera, Minkyung Baek, Frank Dimaio, Julien S Baker
Generalized biomolecular modeling and design with RoseTTAFold All-Atom. Science (New York, N.Y.) 384 (6693) (2024)
Sanaa Mansoor, Minkyung Baek, Hahnbeom Park, Gyu Rie Lee, David Baker
Protein Ensemble Generation Through Variational Autoencoder Latent Space Sampling. Journal of chemical theory and computation (2024)
Sanaa Mansoor, Minkyung Baek, Hahnbeom Park, Gyu Rie Lee, David Baker
Protein Ensemble Generation Through Variational Autoencoder Latent Space Sampling. Journal of chemical theory and computation 20 (7) (2024)
Sanaa Mansoor, Minkyung Baek, Hahnbeom Park, Gyu Rie Lee, David Baker
Protein Ensemble Generation Through Variational Autoencoder Latent Space Sampling. Journal of chemical theory and computation 20 (7) (2024)
Rohith Krishna, Jue Wang, Woody Ahern, Pascal Sturmfels, Preetham Venkatesh, Indrek Kalvet, Gyu Rie Lee, Felix S Morey-Burrows, Ivan Anishchenko, Ian R Humphreys, Ryan McHugh, Dionne K Vafeados, Xinting Li, George A Sutherland, Andrew Hitchcock, Christopher Neil Hunter, Alex Kang, Evans Brackenbrough, Asim K Bera, Minkyung Baek, Frank Dimaio, Julien S Baker
Generalized biomolecular modeling and design with RoseTTAFold All-Atom. Science (New York, N.Y.) (2024)
Rohith Krishna, Jue Wang, Woody Ahern, Pascal Sturmfels, Preetham Venkatesh, Indrek Kalvet, Gyu Rie Lee, Felix S Morey-Burrows, Ivan Anishchenko, Ian R Humphreys, Ryan McHugh, Dionne K Vafeados, Xinting Li, George A Sutherland, Andrew Hitchcock, Christopher Neil Hunter, Alex Kang, Evans Brackenbrough, Asim K Bera, Minkyung Baek, Frank Dimaio, Julien S Baker
Generalized biomolecular modeling and design with RoseTTAFold All-Atom. Science (New York, N.Y.) 384 (6693) (2024)
Sanaa Mansoor, Minkyung Baek, Hahnbeom Park, Gyu Rie Lee, David Baker
Protein Ensemble Generation Through Variational Autoencoder Latent Space Sampling. Journal of chemical theory and computation 20 (7) (2024)
Rohith Krishna, Jue Wang, Woody Ahern, Pascal Sturmfels, Preetham Venkatesh, Indrek Kalvet, Gyu Rie Lee, Felix S Morey-Burrows, Ivan Anishchenko, Ian R Humphreys, Ryan McHugh, Dionne K Vafeados, Xinting Li, George A Sutherland, Andrew Hitchcock, Christopher Neil Hunter, Alex Kang, Evans Brackenbrough, Asim K Bera, Minkyung Baek, Frank Dimaio, Julien S Baker
Generalized biomolecular modeling and design with RoseTTAFold All-Atom. Science (New York, N.Y.) 384 (6693) (2024)
Andy Hsien-Wei Yeh, Christoffer H Norn, Yakov Kipnis, Doug K Tischer, Samuel J Pellock, Declan Evans, Pengchen Ma, Gyu Rie Lee, Jason Z Zhang, David Baker, Brian Coventry, Longxing Cao, Justas Dauparas, Samer Halabiya, Michelle DeWitt, Lauren Carter, Kendall N Houk, Julien S Baker
De novo design of luciferases using deep learning. Nature 614 (7949) (2023)
Andy Hsien-Wei Yeh, Christoffer H Norn, Yakov Kipnis, Doug K Tischer, Samuel J Pellock, Declan Evans, Pengchen Ma, Gyu Rie Lee, Jason Z Zhang, David Baker, Brian Coventry, Longxing Cao, Justas Dauparas, Samer Halabiya, Michelle DeWitt, Lauren Carter, Kendall N Houk, Julien S Baker
De novo design of luciferases using deep learning. Nature 614 (7949) (2023)
Andy Hsien-Wei Yeh, Christoffer H Norn, Yakov Kipnis, Doug K Tischer, Samuel J Pellock, Declan Evans, Pengchen Ma, Gyu Rie Lee, Jason Z Zhang, David Baker, Brian Coventry, Longxing Cao, Justas Dauparas, Samer Halabiya, Michelle DeWitt, Lauren Carter, Kendall N Houk, Julien S Baker
De novo design of luciferases using deep learning. Nature 614 (7949) (2023)
Andy Hsien-Wei Yeh, Christoffer H Norn, Yakov Kipnis, Doug K Tischer, Samuel J Pellock, Declan Evans, Pengchen Ma, Gyu Rie Lee, Jason Z Zhang, David Baker, Brian Coventry, Longxing Cao, Justas Dauparas, Samer Halabiya, Michelle DeWitt, Lauren Carter, Kendall N Houk, Julien S Baker
De novo design of luciferases using deep learning. Nature 614 (7949) (2023)
Susana Vázquez Torres, Philip J Y Leung, Preetham Venkatesh, Isaac D Lutz, Fabian Hink, Huu-Hien Huynh, Jessica Becker, Andy Hsien-Wei Yeh, David C Juergens, Nathaniel R Bennett, Andrew N Hoofnagle, Eric Huang, Michael J MacCoss, Marc Expòsit, Gyu Rie Lee, Asim K Bera, Alex Kang, Joshmyn De La Cruz, Paul M Levine, Xinting Li, Mila Lamb, Stacey R Gerben, Analisa Murray, Piper Heine, Elif Nihal Korkmaz, Jeff Nivala, Lance Stewart, Joseph L Watson, Joseph M Rogers, Julien S Baker
De novo design of high-affinity binders of bioactive helical peptides. Nature (2023)
Susana Vázquez Torres, Philip J Y Leung, Preetham Venkatesh, Isaac D Lutz, Fabian Hink, Huu-Hien Huynh, Jessica Becker, Andy Hsien-Wei Yeh, David C Juergens, Nathaniel R Bennett, Andrew N Hoofnagle, Eric Huang, Michael J MacCoss, Marc Expòsit, Gyu Rie Lee, Asim K Bera, Alex Kang, Joshmyn De La Cruz, Paul M Levine, Xinting Li, Mila Lamb, Stacey R Gerben, Analisa Murray, Piper Heine, Elif Nihal Korkmaz, Jeff Nivala, Lance Stewart, Joseph L Watson, Joseph M Rogers, Julien S Baker
De novo design of high-affinity binders of bioactive helical peptides. Nature 626 (7998) (2023)
Susana Vázquez Torres, Philip J Y Leung, Preetham Venkatesh, Isaac D Lutz, Fabian Hink, Huu-Hien Huynh, Jessica Becker, Andy Hsien-Wei Yeh, David C Juergens, Nathaniel R Bennett, Andrew N Hoofnagle, Eric Huang, Michael J MacCoss, Marc Expòsit, Gyu Rie Lee, Asim K Bera, Alex Kang, Joshmyn De La Cruz, Paul M Levine, Xinting Li, Mila Lamb, Stacey R Gerben, Analisa Murray, Piper Heine, Elif Nihal Korkmaz, Jeff Nivala, Lance Stewart, Joseph L Watson, Joseph M Rogers, Julien S Baker
De novo design of high-affinity binders of bioactive helical peptides. Nature 626 (7998) (2023)
Susana Vázquez Torres, Philip J Y Leung, Preetham Venkatesh, Isaac D Lutz, Fabian Hink, Huu-Hien Huynh, Jessica Becker, Andy Hsien-Wei Yeh, David C Juergens, Nathaniel R Bennett, Andrew N Hoofnagle, Eric Huang, Michael J MacCoss, Marc Expòsit, Gyu Rie Lee, Asim K Bera, Alex Kang, Joshmyn De La Cruz, Paul M Levine, Xinting Li, Mila Lamb, Stacey R Gerben, Analisa Murray, Piper Heine, Elif Nihal Korkmaz, Jeff Nivala, Lance Stewart, Joseph L Watson, Joseph M Rogers, Julien S Baker
De novo design of high-affinity binders of bioactive helical peptides. Nature (2023)
Susana Vázquez Torres, Philip J Y Leung, Preetham Venkatesh, Isaac D Lutz, Fabian Hink, Huu-Hien Huynh, Jessica Becker, Andy Hsien-Wei Yeh, David C Juergens, Nathaniel R Bennett, Andrew N Hoofnagle, Eric Huang, Michael J MacCoss, Marc Expòsit, Gyu Rie Lee, Asim K Bera, Alex Kang, Joshmyn De La Cruz, Paul M Levine, Xinting Li, Mila Lamb, Stacey R Gerben, Analisa Murray, Piper Heine, Elif Nihal Korkmaz, Jeff Nivala, Lance Stewart, Joseph L Watson, Joseph M Rogers, Julien S Baker
De novo design of high-affinity binders of bioactive helical peptides. Nature 626 (7998) (2023)
Andy Hsien-Wei Yeh, Christoffer H Norn, Yakov Kipnis, Doug K Tischer, Samuel J Pellock, Declan Evans, Pengchen Ma, Gyu Rie Lee, Jason Z Zhang, David Baker, Brian Coventry, Longxing Cao, Justas Dauparas, Samer Halabiya, Michelle DeWitt, Lauren Carter, Kendall N Houk, Julien S Baker
De novo design of luciferases using deep learning. Nature 614 (7949) (2023)
Andy Hsien-Wei Yeh, Christoffer H Norn, Yakov Kipnis, Doug K Tischer, Samuel J Pellock, Declan Evans, Pengchen Ma, Gyu Rie Lee, Jason Z Zhang, David Baker, Brian Coventry, Longxing Cao, Justas Dauparas, Samer Halabiya, Michelle DeWitt, Lauren Carter, Kendall N Houk, Julien S Baker
De novo design of luciferases using deep learning. Nature 614 (7949) (2023)
Susana Vázquez Torres, Philip J Y Leung, Preetham Venkatesh, Isaac D Lutz, Fabian Hink, Huu-Hien Huynh, Jessica Becker, Andy Hsien-Wei Yeh, David C Juergens, Nathaniel R Bennett, Andrew N Hoofnagle, Eric Huang, Michael J MacCoss, Marc Expòsit, Gyu Rie Lee, Asim K Bera, Alex Kang, Joshmyn De La Cruz, Paul M Levine, Xinting Li, Mila Lamb, Stacey R Gerben, Analisa Murray, Piper Heine, Elif Nihal Korkmaz, Jeff Nivala, Lance Stewart, Joseph L Watson, Joseph M Rogers, Julien S Baker
De novo design of high-affinity binders of bioactive helical peptides. Nature 626 (7998) (2023)
Cameron J Glasscock, Robert Pecoraro, Ryan McHugh, Lindsey A Doyle, Wei Chen, Olivier Boivin, Beau Lonnquist, Emily Na, Yuliya Politanska, Hugh K Haddox, David Cox, Christoffer H Norn, Brian Coventry, Inna Goreshnik, Dionne K Vafeados, Gyu Rie Lee, Raluca Gordân, Barry L Stoddard, Frank DiMaio, David Baker
Computational design of sequence-specific DNA-binding proteins. bioRxiv : the preprint server for biology (2023)
Susana Vázquez Torres, Philip J Y Leung, Preetham Venkatesh, Isaac D Lutz, Fabian Hink, Huu-Hien Huynh, Jessica Becker, Andy Hsien-Wei Yeh, David C Juergens, Nathaniel R Bennett, Andrew N Hoofnagle, Eric Huang, Michael J MacCoss, Marc Expòsit, Gyu Rie Lee, Asim K Bera, Alex Kang, Joshmyn De La Cruz, Paul M Levine, Xinting Li, Mila Lamb, Stacey R Gerben, Analisa Murray, Piper Heine, Elif Nihal Korkmaz, Jeff Nivala, Lance Stewart, Joseph L Watson, Joseph M Rogers, Julien S Baker
De novo design of high-affinity binders of bioactive helical peptides. Nature 626 (7998) (2023)
Susana Vázquez Torres, Philip J Y Leung, Preetham Venkatesh, Isaac D Lutz, Fabian Hink, Huu-Hien Huynh, Jessica Becker, Andy Hsien-Wei Yeh, David C Juergens, Nathaniel R Bennett, Andrew N Hoofnagle, Eric Huang, Michael J MacCoss, Marc Expòsit, Gyu Rie Lee, Asim K Bera, Alex Kang, Joshmyn De La Cruz, Paul M Levine, Xinting Li, Mila Lamb, Stacey R Gerben, Analisa Murray, Piper Heine, Elif Nihal Korkmaz, Jeff Nivala, Lance Stewart, Joseph L Watson, Joseph M Rogers, Julien S Baker
De novo design of high-affinity binders of bioactive helical peptides. Nature 626 (7998) (2023)
Susana Vázquez Torres, Philip J Y Leung, Preetham Venkatesh, Isaac D Lutz, Fabian Hink, Huu-Hien Huynh, Jessica Becker, Andy Hsien-Wei Yeh, David C Juergens, Nathaniel R Bennett, Andrew N Hoofnagle, Eric Huang, Michael J MacCoss, Marc Expòsit, Gyu Rie Lee, Asim K Bera, Alex Kang, Joshmyn De La Cruz, Paul M Levine, Xinting Li, Mila Lamb, Stacey R Gerben, Analisa Murray, Piper Heine, Elif Nihal Korkmaz, Jeff Nivala, Lance Stewart, Joseph L Watson, Joseph M Rogers, Julien S Baker
De novo design of high-affinity binders of bioactive helical peptides. Nature 626 (7998) (2023)
Minkyung Baek, Frank Dimaio, David Baker, Justas Dauparas, Sergey Ovchinnikov, Gyu Rie Lee, Jue Wang, Nick V Grishin, Lisa N Kinch, R Dustin Schaeffer, Claudia Millán, Hahnbeom Park, Carson Adams, Caleb R Glassman, Andy DeGiovanni, Jose Henrique Pereira, Andria V Rodrigues, Alberdina A van Dijk, Ana C Ebrecht, Diederik Johannes Opperman, Theo Sagmeister, Christoph Buhlheller, Tea Pavkov-Keller, Manoj K Rathinaswamy, Udit Dalwadi, Calvin K Yip, John E Burke, K Christopher Garcia, Nick V Grishin, Paul D Adams, Randy J Read, Julien S Baker
Accurate prediction of protein structures and interactions using a three-track neural network. Science (New York, N.Y.) 373 (6557) (2021)