David Baker (Ivan Anishchenko, I Anishchenko, Ivan Anischenko)

ORCID

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 24

Top Venues

Nature

Science (New York, N.Y.)

Proceedings of the National Academy of Sciences of the United States of America

Proteins

University of Kansas (PHD)

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

Education History

University of Kansas Jan 10 2012 - May 31 2016

United States

PHD :: Computational Biology

Belarusian State University Sep 01 2005 - May 31 2010

Belarus

BSC :: Physics

Publications

Anna Lauko, Samuel J Pellock, Ivan Anischanka, Kiera H Sumida, David C Juergens, Woody Ahern, Alex Shida, Andrew C Hunt, Indrek Kalvet, Christoffer H Norn, Ian R Humphreys, Cooper S Jamieson, Alex Kang, Evans Brackenbrough, Asim K Bera, Banumathi Sankaran, K N Houk, David Baker
Computational design of serine hydrolases. bioRxiv : the preprint server for biology (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)
Minkyung Baek, Ryan McHugh, David Baker, Hanlun Jiang, Julien S Baker, Frank Dimaio
Accurate prediction of protein-nucleic acid complexes using RoseTTAFoldNA. Nature methods (2023)
Gyu Rie Lee, Samuel J Pellock, Christoffer Norn, Doug Tischer, Justas Dauparas, David Baker, Jaron A M Mercer, Alex Kang, Asim Bera, Hannah Nguyen, Inna Goreshnik, Dionne Vafeados, Nicole Roullier, Hannah L Han, Brian Coventry, Hugh K Haddox, David R Liu, Andy Hsien-Wei Yeh, David Baker
Small-molecule binding and sensing with a designed protein family. bioRxiv : the preprint server for biology (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)
Jue Wang, Sidney Lisanza, David C Juergens, Doug K Tischer, Joseph L Watson, Karla M Castro, Robert J Ragotte, Amijai Saragovi, Lukas F Milles, Minkyung Baek, David Baker, Wei Yang, Derrick R Hicks, Marc Expòsit, Thomas Schlichthaerle, Jung-Ho Chun, Justas Dauparas, Nathaniel R Bennett, Basile I M Wicky, Andrew Muenks, Frank Dimaio, Bruno E Correia, Sergey Ovchinnikov, Julien S Baker
Scaffolding protein functional sites using deep learning. Science (New York, N.Y.) 377 (6604) (2022)
Justas Dauparas, David Baker, Nathaniel R Bennett, Hua Bai, Robert J Ragotte, Lukas F Milles, Basile I M Wicky, Alexis Courbet, Robbert J de Haas, Neville P Bethel, P J Y Leung, Timothy F Huddy, S Pellock, Doug K Tischer, F Chan, B Koepnick, Hannah Nguyen, Alex Kang, Banumathi Sankaran, Asim K Bera, Neil P King, Julien S Baker
Robust deep learning-based protein sequence design using ProteinMPNN. Science (New York, N.Y.) 378 (6615) (2022)
David Baker, Samuel J Pellock, Tamuka M Chidyausiku, Theresa A Ramelot, Sergey Ovchinnikov, Jingzhou Hao, Khushboo Bafna, Christoffer H Norn, Alex Kang, Asim K Bera, Frank DiMaio, Lauren Carter, Cameron M Chow, Gaetano T Montelione, Julien S Baker
De novo protein design by deep network hallucination. Nature (2021)
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)
David Baker, Minkyung Baek, Hahnbeom Park, Naozumi Hiranuma, David E Kim, Justas Dauparas, Sanaa Mansoor, Ian R Humphreys, David Baker
Protein tertiary structure prediction and refinement using deep learning and Rosetta in CASP14. Proteins 89 (12) (2021)
Ian R Humphreys, Jimin Pei, Minkyung Baek, Aditya Krishnakumar, David Baker, Sergey Ovchinnikov, Jing Zhang, Travis J Ness, Sudeep Banjade, Saket Rahul Bagde, Viktoriya G Stancheva, Xiao-Han Li, Kaixian Liu, Zhi Zheng, Daniel J Barrero, Upasana Roy, Jochen Kuper, Israel S Fernández, Barnabas Szakal, Dana Branzei, Josep Rizo, Caroline Kisker, Eric C Greene, Sue Biggins, Scott Keeney, Elizabeth A Miller, J Christopher Fromme, Tamara L Hendrickson, Nick V Grishin, Julien S Baker
Computed structures of core eukaryotic protein complexes. Science (New York, N.Y.) 374 (6573) (2021)
Zongyang Du, Hong Su, Wenkai Wang, Lisha Ye, Hong Wei, Zhenling Peng, David Baker, David Baker, Jianyi Yang
The trRosetta server for fast and accurate protein structure prediction. Nature protocols 16 (12) (2021)
Naozumi Hiranuma, Hahnbeom Park, Minkyung Baek, David Baker, Justas Dauparas, Julien S Baker
Improved protein structure refinement guided by deep learning based accuracy estimation. Nature communications 12 (1) (2021)
Christoffer H Norn, Basile I M Wicky, David Juergens, Sirui Liu, David Kim, Doug Tischer, Brian Koepnick, David Baker, null null, Julien S Baker, Sergey Ovchinnikov
Protein sequence design by conformational landscape optimization. Proceedings of the National Academy of Sciences of the United States of America 118 (11) (2021)
Jianyi Yang, David Baker, Hahnbeom Park, Zhenling Peng, Sergey Ovchinnikov, Julien S Baker
Improved protein structure prediction using predicted interresidue orientations. Proceedings of the National Academy of Sciences of the United States of America 117 (3) (2020)
Hersh K Bhargava, Keisuke Tabata, Jordan M Byck, Maho Hamasaki, Daniel P Farrell, David Baker, Frank DiMaio, Young Jun Im, Tamotsu Yoshimori, James H Hurley
Structural basis for autophagy inhibition by the human Rubicon-Rab7 complex. Proceedings of the National Academy of Sciences of the United States of America 117 (29) (2020)
Nick V Grishin, David Baker, Sergey Ovchinnikov, Julien S Baker
Protein interaction networks revealed by proteome coevolution. Science (New York, N.Y.) 365 (6449) (2019)
Anna Hadarovich, David Baker, Alexander V Tuzikov, Petras J Kundrotas, Ilya A Vakser
Gene ontology improves template selection in comparative protein docking. Proteins 87 (3) (2018)
David Baker, Sergey Ovchinnikov, Hetunandan Kamisetty, David Baker
Origins of coevolution between residues distant in protein 3D structures. Proceedings of the National Academy of Sciences of the United States of America 114 (34) (2017)
Petras J Kundrotas, David Baker, Varsha D Badal, Madhurima Das, Taras Dauzhenka, Ilya A Vakser
Modeling CAPRI targets 110-120 by template-based and free docking using contact potential and combined scoring function. Proteins (2017)

David Baker.css-eqlu8i{font-size:small;padding-left:4px;} (Ivan Anishchenko, I Anishchenko, Ivan Anischenko)

Publication Activity (10 Years)

Top Topics

Top Venues

David Baker (Ivan Anishchenko, I Anishchenko, Ivan Anischenko)