Asim K Bera (A K Bera, Asim Bera)

Publication Activity (10 Years)

Years Active: 2021-2024
Publications (10 Years): 74

Top Topics

Binding Protein

Top Venues

Science (New York, N.Y.)

Nature chemical biology

Research square

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

Publications

Timothy F Huddy, Yang Hsia, Ryan D Kibler, Jinwei Xu, Neville P Bethel, Deepesh Nagarajan, Rachel Redler, Philip J Y Leung, Connor Weidle, Alexis Courbet, Erin C Yang, Asim K Bera, Nicolas Coudray, S John Calise, Fatima A Davila-Hernandez, Hannah L Han, Kenneth D Carr, Zhe Li, Ryan McHugh, Gabriella Reggiano, Alex Kang, Banumathi Sankaran, Miles S Dickinson, Brian Coventry, T J Brunette, Yulai Liu, Justas Dauparas, Andrew J Borst, Damian C Ekiert, Justin M Kollman, Gira Bhabha, Julien S Baker
Blueprinting extendable nanomaterials with standardized protein blocks. Nature (2024)
Danny D Sahtoe, Ewa A Andrzejewska, Hannah L Han, Enrico Rennella, Matthias M Schneider, Georg Meisl, Margaret Ahlrichs, Justin Decarreau, Hannah Nguyen, Alex Kang, Paul Levine, Mila Lamb, Xinting Li, Asim K Bera, Lewis E Kay, Tuomas P J Knowles, Julien S Baker
Design of amyloidogenic peptide traps. Nature chemical biology (2024)
Susana Vázquez Torres, Melisa Benard Valle, Stephen P Mackessy, Stefanie K Menzies, Nicholas R Casewell, Shirin Ahmadi, Nick J Burlet, Edin Muratspahić, Isaac Sappington, Max D Overath, Esperanza Rivera-de-Torre, Jann Ledergerber, Andreas Hougaard Laustsen, Kim Boddum, Asim K Bera, Alex Kang, Evans Brackenbrough, Iara A Cardoso, Edouard P Crittenden, Rebecca J Edge, Justin Decarreau, Robert J Ragotte, Arvind S Pillai, Mohamad Abedi, Hannah L Han, Stacey R Gerben, Analisa Murray, Rebecca Skotheim, Lynda Stuart, Lance J Stewart, Thomas J A Fryer, Timothy Patrick Jenkins, Julien S Baker
De novo designed proteins neutralize lethal snake venom toxins. Research square (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)
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)
Samuel Berhanu, Sagardip Majumder, Thomas Müntener, James Whitehouse, Carolin Berner, Asim K Bera, Alex Kang, Binyong Liang, G Nasir Khan, Banumathi Sankaran, Lukas K Tamm, David J Brockwell, Sebastian Hiller, Sheena E Radford, Julien S Baker, Anastassia Andreevna Vorobieva
Sculpting conducting nanopore size and shape through de novo protein design. Science (New York, N.Y.) 385 (6706) (2024)
Danny D Sahtoe, Ewa A Andrzejewska, Hannah L Han, Enrico Rennella, Matthias M Schneider, Georg Meisl, Margaret Ahlrichs, Justin Decarreau, Hannah Nguyen, Alex Kang, Paul Levine, Mila Lamb, Xinting Li, Asim K Bera, Lewis E Kay, Tuomas P J Knowles, Julien S Baker
Design of amyloidogenic peptide traps. Nature chemical biology 20 (8) (2024)
Nathan M Ennist, Shunzhi Wang, Madison A Kennedy, Mariano Curti, George A Sutherland, Cvetelin Vasilev, Rachel L Redler, Valentin Maffeis, Saeed Shareef, Anthony V Sica, Ash Sueh Hua, Arundhati P Deshmukh, Adam P Moyer, Derrick R Hicks, Avi Z Swartz, Ralph A Cacho, Nathan Novy, Asim K Bera, Alex Kang, Banumathi Sankaran, Matthew P Johnson, Amala Phadkule, Mike Reppert, Damian C Ekiert, Gira Bhabha, Lance J Stewart, Justin R Caram, Barry L Stoddard, Elisabet Romero, Christopher Neil Hunter, Julien S Baker
De novo design of proteins housing excitonically coupled chlorophyll special pairs. Nature chemical biology (2024)
Timothy F Huddy, Yang Hsia, Ryan D Kibler, Jinwei Xu, Neville P Bethel, Deepesh Nagarajan, Rachel Redler, Philip J Y Leung, Connor Weidle, Alexis Courbet, Erin C Yang, Asim K Bera, Nicolas Coudray, S John Calise, Fatima A Davila-Hernandez, Hannah L Han, Kenneth D Carr, Zhe Li, Ryan McHugh, Gabriella Reggiano, Alex Kang, Banumathi Sankaran, Miles S Dickinson, Brian Coventry, T J Brunette, Yulai Liu, Justas Dauparas, Andrew J Borst, Damian C Ekiert, Justin M Kollman, Gira Bhabha, Julien S Baker
Blueprinting extendable nanomaterials with standardized protein blocks. Nature 627 (8005) (2024)
Timothy F Huddy, Yang Hsia, Ryan D Kibler, Jinwei Xu, Neville P Bethel, Deepesh Nagarajan, Rachel Redler, Philip J Y Leung, Connor Weidle, Alexis Courbet, Erin C Yang, Asim K Bera, Nicolas Coudray, S John Calise, Fatima A Davila-Hernandez, Hannah L Han, Kenneth D Carr, Zhe Li, Ryan McHugh, Gabriella Reggiano, Alex Kang, Banumathi Sankaran, Miles S Dickinson, Brian Coventry, T J Brunette, Yulai Liu, Justas Dauparas, Andrew J Borst, Damian C Ekiert, Justin M Kollman, Gira Bhabha, Julien S Baker
Blueprinting extendable nanomaterials with standardized protein blocks. Nature 627 (8005) (2024)
Danny D Sahtoe, Ewa A Andrzejewska, Hannah L Han, Enrico Rennella, Matthias M Schneider, Georg Meisl, Margaret Ahlrichs, Justin Decarreau, Hannah Nguyen, Alex Kang, Paul Levine, Mila Lamb, Xinting Li, Asim K Bera, Lewis E Kay, Tuomas P J Knowles, Julien S Baker
Design of amyloidogenic peptide traps. Nature chemical biology 20 (8) (2024)
Susana Vázquez Torres, Melisa Benard Valle, Stephen P Mackessy, Stefanie K Menzies, Nicholas R Casewell, Shirin Ahmadi, Nick J Burlet, Edin Muratspahić, Isaac Sappington, Max D Overath, Esperanza Rivera-de-Torre, Jann Ledergerber, Andreas Hougaard Laustsen, Kim Boddum, Asim K Bera, Alex Kang, Evans Brackenbrough, Iara A Cardoso, Edouard P Crittenden, Rebecca J Edge, Justin Decarreau, Robert J Ragotte, Arvind S Pillai, Mohamad Abedi, Hannah L Han, Stacey R Gerben, Analisa Murray, Rebecca Skotheim, Lynda Stuart, Lance J Stewart, Thomas J A Fryer, Timothy Patrick Jenkins, Julien S Baker
De novo designed proteins neutralize lethal snake venom toxins. Research square (2024)
David Edwin Kim, Joseph L Watson, David C Juergens, Sagardip Majumder, Stacey R Gerben, Alex Kang, Asim K Bera, Xinting Li, Julien S Baker
Parametrically guided design of beta barrels and transmembrane nanopores using deep learning. bioRxiv : the preprint server for biology (2024)
Nathan M Ennist, Shunzhi Wang, Madison A Kennedy, Mariano Curti, George A Sutherland, Cvetelin Vasilev, Rachel L Redler, Valentin Maffeis, Saeed Shareef, Anthony V Sica, Ash Sueh Hua, Arundhati P Deshmukh, Adam P Moyer, Derrick R Hicks, Avi Z Swartz, Ralph A Cacho, Nathan Novy, Asim K Bera, Alex Kang, Banumathi Sankaran, Matthew P Johnson, Amala Phadkule, Mike Reppert, Damian C Ekiert, Gira Bhabha, Lance J Stewart, Justin R Caram, Barry L Stoddard, Elisabet Romero, Christopher Neil Hunter, Julien S Baker
De novo design of proteins housing excitonically coupled chlorophyll special pairs. Nature chemical biology 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)
Timothy F Huddy, Yang Hsia, Ryan D Kibler, Jinwei Xu, Neville P Bethel, Deepesh Nagarajan, Rachel Redler, Philip J Y Leung, Connor Weidle, Alexis Courbet, Erin C Yang, Asim K Bera, Nicolas Coudray, S John Calise, Fatima A Davila-Hernandez, Hannah L Han, Kenneth D Carr, Zhe Li, Ryan McHugh, Gabriella Reggiano, Alex Kang, Banumathi Sankaran, Miles S Dickinson, Brian Coventry, T J Brunette, Yulai Liu, Justas Dauparas, Andrew J Borst, Damian C Ekiert, Justin M Kollman, Gira Bhabha, Julien S Baker
Blueprinting extendable nanomaterials with standardized protein blocks. Nature 627 (8005) (2024)
Nathan M Ennist, Shunzhi Wang, Madison A Kennedy, Mariano Curti, George A Sutherland, Cvetelin Vasilev, Rachel L Redler, Valentin Maffeis, Saeed Shareef, Anthony V Sica, Ash Sueh Hua, Arundhati P Deshmukh, Adam P Moyer, Derrick R Hicks, Avi Z Swartz, Ralph A Cacho, Nathan Novy, Asim K Bera, Alex Kang, Banumathi Sankaran, Matthew P Johnson, Amala Phadkule, Mike Reppert, Damian C Ekiert, Gira Bhabha, Lance J Stewart, Justin R Caram, Barry L Stoddard, Elisabet Romero, Christopher Neil Hunter, Julien S Baker
De novo design of proteins housing excitonically coupled chlorophyll special pairs. Nature chemical biology (2024)
Timothy F Huddy, Yang Hsia, Ryan D Kibler, Jinwei Xu, Neville P Bethel, Deepesh Nagarajan, Rachel Redler, Philip J Y Leung, Connor Weidle, Alexis Courbet, Erin C Yang, Asim K Bera, Nicolas Coudray, S John Calise, Fatima A Davila-Hernandez, Hannah L Han, Kenneth D Carr, Zhe Li, Ryan McHugh, Gabriella Reggiano, Alex Kang, Banumathi Sankaran, Miles S Dickinson, Brian Coventry, T J Brunette, Yulai Liu, Justas Dauparas, Andrew J Borst, Damian C Ekiert, Justin M Kollman, Gira Bhabha, Julien S Baker
Blueprinting extendable nanomaterials with standardized protein blocks. Nature 627 (8005) (2024)
Timothy F Huddy, Yang Hsia, Ryan D Kibler, Jinwei Xu, Neville P Bethel, Deepesh Nagarajan, Rachel Redler, Philip J Y Leung, Connor Weidle, Alexis Courbet, Erin C Yang, Asim K Bera, Nicolas Coudray, S John Calise, Fatima A Davila-Hernandez, Hannah L Han, Kenneth D Carr, Zhe Li, Ryan McHugh, Gabriella Reggiano, Alex Kang, Banumathi Sankaran, Miles S Dickinson, Brian Coventry, T J Brunette, Yulai Liu, Justas Dauparas, Andrew J Borst, Damian C Ekiert, Justin M Kollman, Gira Bhabha, Julien S Baker
Blueprinting extendable nanomaterials with standardized protein blocks. Nature (2024)
Timothy F Huddy, Yang Hsia, Ryan D Kibler, Jinwei Xu, Neville P Bethel, Deepesh Nagarajan, Rachel Redler, Philip J Y Leung, Connor Weidle, Alexis Courbet, Erin C Yang, Asim K Bera, Nicolas Coudray, S John Calise, Fatima A Davila-Hernandez, Hannah L Han, Kenneth D Carr, Zhe Li, Ryan McHugh, Gabriella Reggiano, Alex Kang, Banumathi Sankaran, Miles S Dickinson, Brian Coventry, T J Brunette, Yulai Liu, Justas Dauparas, Andrew J Borst, Damian C Ekiert, Justin M Kollman, Gira Bhabha, Julien S Baker
Blueprinting extendable nanomaterials with standardized protein blocks. Nature 627 (8005) (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)
Julien S Baker, Susana Vazquez Torres, Melisa Benard Valle, Stephen P Mackessy, Stefanie K Menzies, Nicholas R Casewell, Shirin Ahmadi, Nick J Burlet, Edin Muratspahić, Isaac Sappington, Max Overath, Esperanza Rivera-de-Torre, Jann Ledergerber, Andreas Hougaard Laustsen, Kim Boddum, Asim K Bera, Alex Kang, Evans Brackenbrough, Iara Cardoso, Edouard Crittenden, Rebecca Edge, Justin Decarreau, Robert Ragotte, Arvind S Pillai, Mohamad Abedi, Hannah L Han, Stacey R Gerben, Analisa Murray, Rebecca Skotheim, Lynda Stuart, Lance J Stewart, Thomas Fryer, Timothy Patrick Jenkins
De novo designed proteins neutralize lethal snake venom toxins. Research square (2024)
Timothy F Huddy, Yang Hsia, Ryan D Kibler, Jinwei Xu, Neville P Bethel, Deepesh Nagarajan, Rachel Redler, Philip J Y Leung, Connor Weidle, Alexis Courbet, Erin C Yang, Asim K Bera, Nicolas Coudray, S John Calise, Fatima A Davila-Hernandez, Hannah L Han, Kenneth D Carr, Zhe Li, Ryan McHugh, Gabriella Reggiano, Alex Kang, Banumathi Sankaran, Miles S Dickinson, Brian Coventry, T J Brunette, Yulai Liu, Justas Dauparas, Andrew J Borst, Damian C Ekiert, Justin M Kollman, Gira Bhabha, Julien S Baker
Blueprinting extendable nanomaterials with standardized protein blocks. Nature 627 (8005) (2024)
Samuel Berhanu, Sagardip Majumder, Thomas Müntener, James Whitehouse, Carolin Berner, Asim K Bera, Alex Kang, Binyong Liang, G Nasir Khan, Banumathi Sankaran, Lukas K Tamm, David J Brockwell, Sebastian Hiller, Sheena E Radford, Julien S Baker, Anastassia Andreevna Vorobieva
Sculpting conducting nanopore size and shape through de novo protein design. Science (New York, N.Y.) 385 (6706) (2024)
Timothy F Huddy, Yang Hsia, Ryan D Kibler, Jinwei Xu, Neville P Bethel, Deepesh Nagarajan, Rachel Redler, Philip J Y Leung, Connor Weidle, Alexis Courbet, Erin C Yang, Asim K Bera, Nicolas Coudray, S John Calise, Fatima A Davila-Hernandez, Hannah L Han, Kenneth D Carr, Zhe Li, Ryan McHugh, Gabriella Reggiano, Alex Kang, Banumathi Sankaran, Miles S Dickinson, Brian Coventry, T J Brunette, Yulai Liu, Justas Dauparas, Andrew J Borst, Damian C Ekiert, Justin M Kollman, Gira Bhabha, Julien S Baker
Blueprinting extendable nanomaterials with standardized protein blocks. Nature 627 (8005) (2024)
David Edwin Kim, Joseph L Watson, David C Juergens, Sagardip Majumder, Stacey R Gerben, Alex Kang, Asim K Bera, Xinting Li, Julien S Baker
Parametrically guided design of beta barrels and transmembrane nanopores using deep learning. bioRxiv : the preprint server for biology (2024)
Timothy F Huddy, Yang Hsia, Ryan D Kibler, Jinwei Xu, Neville P Bethel, Deepesh Nagarajan, Rachel Redler, Philip J Y Leung, Connor Weidle, Alexis Courbet, Erin C Yang, Asim K Bera, Nicolas Coudray, S John Calise, Fatima A Davila-Hernandez, Hannah L Han, Kenneth D Carr, Zhe Li, Ryan McHugh, Gabriella Reggiano, Alex Kang, Banumathi Sankaran, Miles S Dickinson, Brian Coventry, T J Brunette, Yulai Liu, Justas Dauparas, Andrew J Borst, Damian C Ekiert, Justin M Kollman, Gira Bhabha, Julien S Baker
Blueprinting extendable nanomaterials with standardized protein blocks. Nature 627 (8005) (2024)
Patrick J Salveson, Adam P Moyer, Meerit Y Said, Gizem Gӧkçe, Xinting Li, Alex Kang, Hannah Nguyen, Asim K Bera, Paul M Levine, Gaurav Bhardwaj, Julien S Baker
Expansive discovery of chemically diverse structured macrocyclic oligoamides. Science (New York, N.Y.) 384 (6694) (2024)
Patrick J Salveson, Adam P Moyer, Meerit Y Said, Gizem Gӧkçe, Xinting Li, Alex Kang, Hannah Nguyen, Asim K Bera, Paul M Levine, Gaurav Bhardwaj, Julien S Baker
Expansive discovery of chemically diverse structured macrocyclic oligoamides. Science (New York, N.Y.) 384 (6694) (2024)
Nathan M Ennist, Shunzhi Wang, Madison A Kennedy, Mariano Curti, George A Sutherland, Cvetelin Vasilev, Rachel L Redler, Valentin Maffeis, Saeed Shareef, Anthony V Sica, Ash Sueh Hua, Arundhati P Deshmukh, Adam P Moyer, Derrick R Hicks, Avi Z Swartz, Ralph A Cacho, Nathan Novy, Asim K Bera, Alex Kang, Banumathi Sankaran, Matthew P Johnson, Amala Phadkule, Mike Reppert, Damian C Ekiert, Gira Bhabha, Lance J Stewart, Justin R Caram, Barry L Stoddard, Elisabet Romero, Christopher Neil Hunter, Julien S Baker
De novo design of proteins housing excitonically coupled chlorophyll special pairs. Nature chemical biology 20 (7) (2024)
Patrick J Salveson, Adam P Moyer, Meerit Y Said, Gizem Gӧkçe, Xinting Li, Alex Kang, Hannah Nguyen, Asim K Bera, Paul M Levine, Gaurav Bhardwaj, Julien S Baker
Expansive discovery of chemically diverse structured macrocyclic oligoamides. Science (New York, N.Y.) 384 (6694) (2024)
Nathan M Ennist, Shunzhi Wang, Madison A Kennedy, Mariano Curti, George A Sutherland, Cvetelin Vasilev, Rachel L Redler, Valentin Maffeis, Saeed Shareef, Anthony V Sica, Ash Sueh Hua, Arundhati P Deshmukh, Adam P Moyer, Derrick R Hicks, Avi Z Swartz, Ralph A Cacho, Nathan Novy, Asim K Bera, Alex Kang, Banumathi Sankaran, Matthew P Johnson, Amala Phadkule, Mike Reppert, Damian C Ekiert, Gira Bhabha, Lance J Stewart, Justin R Caram, Barry L Stoddard, Elisabet Romero, Christopher Neil Hunter, Julien S Baker
De novo design of proteins housing excitonically coupled chlorophyll special pairs. Nature chemical biology 20 (7) (2024)
David Edwin Kim, Joseph L Watson, David C Juergens, Sagardip Majumder, Stacey R Gerben, Alex Kang, Asim K Bera, Xinting Li, Julien S Baker
Parametrically guided design of beta barrels and transmembrane nanopores using deep learning. bioRxiv : the preprint server for biology (2024)
Timothy F Huddy, Yang Hsia, Ryan D Kibler, Jinwei Xu, Neville P Bethel, Deepesh Nagarajan, Rachel Redler, Philip J Y Leung, Connor Weidle, Alexis Courbet, Erin C Yang, Asim K Bera, Nicolas Coudray, S John Calise, Fatima A Davila-Hernandez, Hannah L Han, Kenneth D Carr, Zhe Li, Ryan McHugh, Gabriella Reggiano, Alex Kang, Banumathi Sankaran, Miles S Dickinson, Brian Coventry, T J Brunette, Yulai Liu, Justas Dauparas, Andrew J Borst, Damian C Ekiert, Justin M Kollman, Gira Bhabha, Julien S Baker
Blueprinting extendable nanomaterials with standardized protein blocks. Nature 627 (8005) (2024)
Danny D Sahtoe, Ewa A Andrzejewska, Hannah L Han, Enrico Rennella, Matthias M Schneider, Georg Meisl, Margaret Ahlrichs, Justin Decarreau, Hannah Nguyen, Alex Kang, Paul Levine, Mila Lamb, Xinting Li, Asim K Bera, Lewis E Kay, Tuomas P J Knowles, Julien S Baker
Design of amyloidogenic peptide traps. Nature chemical biology 20 (8) (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)
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)
Nathan M Ennist, Shunzhi Wang, Madison A Kennedy, Mariano Curti, George A Sutherland, Cvetelin Vasilev, Rachel L Redler, Valentin Maffeis, Saeed Shareef, Anthony V Sica, Ash Sueh Hua, Arundhati P Deshmukh, Adam P Moyer, Derrick R Hicks, Avi Z Swartz, Ralph A Cacho, Nathan Novy, Asim K Bera, Alex Kang, Banumathi Sankaran, Matthew P Johnson, Amala Phadkule, Mike Reppert, Damian C Ekiert, Gira Bhabha, Lance J Stewart, Justin R Caram, Barry L Stoddard, Elisabet Romero, Christopher Neil Hunter, Julien S Baker
De novo design of proteins housing excitonically coupled chlorophyll special pairs. Nature chemical biology 20 (7) (2024)
David Edwin Kim, Davin R Jensen, David Feldman, Doug Tischer, Ayesha Saleem, Cameron M Chow, Xinting Li, Lauren Carter, Lukas F Milles, Hannah Nguyen, Alex Kang, Asim K Bera, Francis C Peterson, Brian F Volkman, Sergey Ovchinnikov, Julien S Baker
De novo design of small beta barrel proteins. Proceedings of the National Academy of Sciences of the United States of America 120 (11) (2023)
Robbert J de Haas, Natalie Brunette, Alex Goodson, Justas Dauparas, Sue Y Yi, Erin C Yang, Quinton Dowling, Hannah Nguyen, Alex Kang, Asim K Bera, Banumathi Sankaran, Renko de Vries, Julien S Baker, Neil P King
Rapid and automated design of two-component protein nanomaterials using ProteinMPNN. bioRxiv : the preprint server for biology (2023)
Quinton M Dowling, Hannah E Volkman, Elizabeth E Gray, Sergey Ovchinnikov, Stephanie Cambier, Asim K Bera, Banumathi Sankaran, Max R Johnson, Matthew J Bick, Alex Kang, Daniel B Stetson, Neil P King
Computational design of constitutively active cGAS. Nature structural & molecular biology (2023)
Nathan M Ennist, Shunzhi Wang, Madison Kennedy, Mariano Curti, George Sutherland, Cvetelin Vasilev, Rachel Redler, Valentin Maffeis, Saeed Shareef, Anthony Sica, Ash Hua, Arundhati Deshmukh, Adam Moyer, Derrick Hicks, Avi Swartz, Ralph Cacho, Nathan Novy, Asim K Bera, Alex Kang, Banumathi Sankaran, Matthew Johnson, Mike Reppert, Damian C Ekiert, Gira Bhabha, Lance J Stewart, Justin Caram, Barry L Stoddard, Elisabet Romero, Christopher Neil Hunter, Julien S Baker
De novo design of energy transfer proteins housing excitonically coupled chlorophyll special pairs. Research square (2023)
Quinton M Dowling, Hannah E Volkman, Elizabeth E Gray, Sergey Ovchinnikov, Stephanie Cambier, Asim K Bera, Banumathi Sankaran, Max R Johnson, Matthew J Bick, Alex Kang, Daniel B Stetson, Neil P King
Computational design of constitutively active cGAS. Nature structural & molecular biology 30 (1) (2023)
Zhe Li, Shunzhi Wang, Una Nattermann, Asim K Bera, Andrew J Borst, Muammer Y Yaman, Matthew J Bick, Erin C Yang, William Sheffler, Byeongdu Lee, Soenke Seifert, Greg L Hura, Hannah Nguyen, Alex Kang, Radhika Dalal, Joshua M Lubner, Yang Hsia, Hugh Haddox, Alexis Courbet, Quinton Dowling, Marcos C Miranda, Andrew Favor, Ali Etemadi, Natasha I Edman, Wei Yang, Connor Weidle, Banumathi Sankaran, Babak Negahdari, Michael B Ross, David S Ginger, Julien S Baker
Accurate computational design of three-dimensional protein crystals. Nature materials (2023)
David Edwin Kim, Davin R Jensen, David Feldman, Doug Tischer, Ayesha Saleem, Cameron M Chow, Xinting Li, Lauren Carter, Lukas F Milles, Hannah Nguyen, Alex Kang, Asim K Bera, Francis C Peterson, Brian F Volkman, Sergey Ovchinnikov, Julien S Baker
De novo design of small beta barrel proteins. Proceedings of the National Academy of Sciences of the United States of America 120 (11) (2023)
David Edwin Kim, Davin R Jensen, David Feldman, Doug Tischer, Ayesha Saleem, Cameron M Chow, Xinting Li, Lauren Carter, Lukas F Milles, Hannah Nguyen, Alex Kang, Asim K Bera, Francis C Peterson, Brian F Volkman, Sergey Ovchinnikov, Julien S Baker
De novo design of small beta barrel proteins. Proceedings of the National Academy of Sciences of the United States of America 120 (11) (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)
Nathan M Ennist, Shunzhi Wang, Madison Kennedy, Mariano Curti, George Sutherland, Cvetelin Vasilev, Rachel Redler, Valentin Maffeis, Saeed Shareef, Anthony Sica, Ash Hua, Arundhati Deshmukh, Adam Moyer, Derrick Hicks, Avi Swartz, Ralph Cacho, Nathan Novy, Asim K Bera, Alex Kang, Banumathi Sankaran, Matthew Johnson, Mike Reppert, Damian C Ekiert, Gira Bhabha, Lance J Stewart, Justin Caram, Barry L Stoddard, Elisabet Romero, Christopher Neil Hunter, Julien S Baker
De novo design of energy transfer proteins housing excitonically coupled chlorophyll special pairs. Research square (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)
Fatima A Davila-Hernandez, Biao Jin, Harley Pyles, Shuai Zhang, Zheming Wang, Timothy F Huddy, Asim K Bera, Alex Kang, Chun-Long Chen, James J De Yoreo, Julien S Baker
Directing polymorph specific calcium carbonate formation with de novo protein templates. Nature communications 14 (1) (2023)
Fatima A Davila-Hernandez, Biao Jin, Harley Pyles, Shuai Zhang, Zheming Wang, Timothy F Huddy, Asim K Bera, Alex Kang, Chun-Long Chen, James J De Yoreo, Julien S Baker
Directing polymorph specific calcium carbonate formation with de novo protein templates. Nature communications 14 (1) (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)
Quinton M Dowling, Hannah E Volkman, Elizabeth E Gray, Sergey Ovchinnikov, Stephanie Cambier, Asim K Bera, Banumathi Sankaran, Max R Johnson, Matthew J Bick, Alex Kang, Daniel B Stetson, Neil P King
Computational design of constitutively active cGAS. Nature structural & molecular biology 30 (1) (2023)
Quinton M Dowling, Hannah E Volkman, Elizabeth E Gray, Sergey Ovchinnikov, Stephanie Cambier, Asim K Bera, Banumathi Sankaran, Max R Johnson, Matthew J Bick, Alex Kang, Daniel B Stetson, Neil P King
Computational design of constitutively active cGAS. Nature structural & molecular biology 30 (1) (2023)
Neville P Bethel, Andrew J Borst, Fabio Parmeggiani, Matthew J Bick, T J Brunette, Hannah Nguyen, Alex Kang, Asim K Bera, Lauren Carter, Marcos C Miranda, Ryan D Kibler, Mila Lamb, Xinting Li, Banumathi Sankaran, Julien S Baker
Precisely patterned nanofibres made from extendable protein multiplexes. Nature chemistry (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)
Anindya Roy, Lei Shi, Ashley Chang, Xianchi Dong, Andres N Fernandez, John C Kraft, Jing Li, Viet Q Le, Rebecca Viazzo Winegar, Gerald Maxwell Cherf, Dean Slocum, Peter Daniel Poulson, Garrett E Casper, Mary L Vallecillo-Zúniga, Jonard Corpuz Valdoz, Marcos C Miranda, Hua Bai, Yakov Kipnis, Audrey Olshefsky, Tanu Priya, Lauren Carter, Rashmi Ravichandran, Cameron M Chow, Max R Johnson, Suna Cheng, McKaela Smith, Catherine Overed-Sayer, Donna K Finch, David Lowe, Asim K Bera, Gustavo Matute-Bello, Timothy P Birkland, Frank DiMaio, Ganesh Raghu, Jennifer R Cochran, Lance J Stewart, Melody G Campbell, Pam M Van Ry, Timothy A Springer, Julien S Baker
De novo design of highly selective miniprotein inhibitors of integrins αvβ6 and αvβ8. Nature communications 14 (1) (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)
Florian Praetorius, Philip J Y Leung, Maxx H Tessmer, Adam Broerman, Cullen Demakis, Acacia F Dishman, Arvind S Pillai, Abbas Idris, David C Juergens, Justas Dauparas, Xinting Li, Paul M Levine, Mila Lamb, Ryanne K Ballard, Stacey R Gerben, Hannah Nguyen, Alex Kang, Banumathi Sankaran, Asim K Bera, Brian F Volkman, Jeff Nivala, Stefan Stoll, Julien S Baker
Design of stimulus-responsive two-state hinge proteins. Science (New York, N.Y.) 381 (6659) (2023)
Nathan M Ennist, Shunzhi Wang, Madison Kennedy, Mariano Curti, George Sutherland, Cvetelin Vasilev, Rachel Redler, Valentin Maffeis, Saeed Shareef, Anthony Sica, Ash Hua, Arundhati Deshmukh, Adam Moyer, Derrick Hicks, Avi Swartz, Ralph Cacho, Nathan Novy, Asim K Bera, Alex Kang, Banumathi Sankaran, Matthew Johnson, Mike Reppert, Damian C Ekiert, Gira Bhabha, Lance J Stewart, Justin Caram, Barry L Stoddard, Elisabet Romero, Christopher Neil Hunter, Julien S Baker
De novo design of energy transfer proteins housing excitonically coupled chlorophyll special pairs. Research square (2023)
Quinton M Dowling, Hannah E Volkman, Elizabeth E Gray, Sergey Ovchinnikov, Stephanie Cambier, Asim K Bera, Banumathi Sankaran, Max R Johnson, Matthew J Bick, Alex Kang, Daniel B Stetson, Neil P King
Computational design of constitutively active cGAS. Nature structural & molecular biology 30 (1) (2023)
Fatima A Davila-Hernandez, Biao Jin, Harley Pyles, Shuai Zhang, Zheming Wang, Timothy F Huddy, Asim K Bera, Alex Kang, Chun-Long Chen, James J De Yoreo, Julien S Baker
Directing polymorph specific calcium carbonate formation with de novo protein templates. Nature communications 14 (1) (2023)
Linna An, Derrick R Hicks, Dmitri Zorine, Justas Dauparas, Basile I M Wicky, Lukas F Milles, Alexis Courbet, Asim K Bera, Hannah Nguyen, Alex Kang, Lauren Carter, Julien S Baker
Hallucination of closed repeat proteins containing central pockets. Nature structural & molecular 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)
Fatima A Davila-Hernandez, Biao Jin, Harley Pyles, Shuai Zhang, Zheming Wang, Timothy F Huddy, Asim K Bera, Alex Kang, Chun-Long Chen, James J De Yoreo, Julien S Baker
Directing polymorph specific calcium carbonate formation with de novo protein templates. Nature communications 14 (1) (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)
Danny D Sahtoe, Florian Praetorius, Alexis Courbet, Yang Hsia, Basile I M Wicky, Natasha I Edman, Lauren M Miller, Bart J R Timmermans, Justin Decarreau, Hana M Morris, Alex Kang, Asim K Bera, Julien S Baker
Reconfigurable asymmetric protein assemblies through implicit negative design. Science (New York, N.Y.) 375 (6578) (2022)
Basile I M Wicky, Lukas F Milles, Alexis Courbet, Robert J Ragotte, Justas Dauparas, E Kinfu, S Tipps, Ryan D Kibler, Minkyung Baek, Frank Dimaio, Xinting Li, Lauren Carter, Alex Kang, Hannah Nguyen, Asim K Bera, Julien S Baker
Hallucinating symmetric protein assemblies. Science (New York, N.Y.) 378 (6615) (2022)
Derrick R Hicks, Madison A Kennedy, Kirsten A Thompson, Michelle DeWitt, Brian Coventry, Alex Kang, Asim K Bera, T J Brunette, Banumathi Sankaran, Barry Stoddard, Julien S Baker
De novo design of protein homodimers containing tunable symmetric protein pockets. Proceedings of the National Academy of Sciences of the United States of America 119 (30) (2022)
Longxing Cao, Brian Coventry, Inna Goreshnik, Buwei Huang, William Sheffler, Joon Sung Park, Kevin M Jude, Iva Marković, Rameshwar U Kadam, Koen H G Verschueren, Kenneth Verstraete, Scott Thomas Russell Walsh, Nathaniel Bennett, Ashish Phal, Aerin Yang, Lisa Kozodoy, Michelle DeWitt, Lora K Picton, Lauren Miller, Eva-Maria Strauch, Nicholas D DeBouver, Allison Pires, Asim K Bera, Samer Halabiya, Bradley Hammerson, Wei Yang, Steffen Bernard, Lance J Stewart, Ian A Wilson, Hannele Ruohola-Baker, Joseph Schlessinger, Sangwon Lee, Savvas N Savvides, K Christopher Garcia, Julien S Baker
Design of protein-binding proteins from the target structure alone. Nature 605 (7910) (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)