M
Matthew J. O’Meara
Researcher at University of Michigan
Publications - 44
Citations - 6795
Matthew J. O’Meara is an academic researcher from University of Michigan. The author has contributed to research in topics: Biology & Medicine. The author has an hindex of 16, co-authored 31 publications receiving 4054 citations. Previous affiliations of Matthew J. O’Meara include University of North Carolina at Chapel Hill & University of Illinois at Chicago.
Papers
More filters
Journal ArticleDOI
A SARS-CoV-2 protein interaction map reveals targets for drug repurposing.
David E. Gordon,Gwendolyn M. Jang,Mehdi Bouhaddou,Jiewei Xu,Kirsten Obernier,Kris M. White,Matthew J. O’Meara,Veronica V. Rezelj,Jeffrey Z. Guo,Danielle L. Swaney,Tia A. Tummino,Ruth Hüttenhain,Robyn M. Kaake,Alicia L. Richards,Beril Tutuncuoglu,Helene Foussard,Jyoti Batra,Kelsey M. Haas,Maya Modak,Minkyu Kim,Paige Haas,Benjamin J. Polacco,Hannes Braberg,Jacqueline M. Fabius,Manon Eckhardt,Margaret Soucheray,Melanie J. Bennett,Merve Cakir,Michael McGregor,Qiongyu Li,Bjoern Meyer,Ferdinand Roesch,Thomas Vallet,Alice Mac Kain,Lisa Miorin,Elena Moreno,Zun Zar Chi Naing,Yuan Zhou,Shiming Peng,Ying Shi,Ziyang Zhang,Wenqi Shen,Ilsa T Kirby,James E. Melnyk,John S. Chorba,Kevin Lou,Shizhong Dai,Inigo Barrio-Hernandez,Danish Memon,Claudia Hernandez-Armenta,Jiankun Lyu,Christopher J.P. Mathy,Tina Perica,Kala Bharath Pilla,Sai J. Ganesan,Daniel J. Saltzberg,Rakesh Ramachandran,Xi Liu,Sara Brin Rosenthal,Lorenzo Calviello,Srivats Venkataramanan,Jose Liboy-Lugo,Yizhu Lin,Xi Ping Huang,Yongfeng Liu,Stephanie A. Wankowicz,Markus Bohn,Maliheh Safari,Fatima S. Ugur,Cassandra Koh,Nastaran Sadat Savar,Quang Dinh Tran,Djoshkun Shengjuler,Sabrina J. Fletcher,Michael C. O’Neal,Yiming Cai,Jason C.J. Chang,David J. Broadhurst,Saker Klippsten,Phillip P. Sharp,Nicole A. Wenzell,Duygu Kuzuoğlu-Öztürk,Hao-Yuan Wang,Raphael Trenker,Janet M. Young,Devin A. Cavero,Devin A. Cavero,Joseph Hiatt,Joseph Hiatt,Theodore L. Roth,Ujjwal Rathore,Ujjwal Rathore,Advait Subramanian,Julia Noack,Mathieu Hubert,Robert M. Stroud,Alan D. Frankel,Oren S. Rosenberg,Kliment A. Verba,David A. Agard,Melanie Ott,Michael Emerman,Natalia Jura,Mark von Zastrow,Eric Verdin,Eric Verdin,Alan Ashworth,Olivier Schwartz,Christophe d'Enfert,Shaeri Mukherjee,Matthew P. Jacobson,Harmit S. Malik,Danica Galonić Fujimori,Trey Ideker,Charles S. Craik,Stephen N. Floor,James S. Fraser,John D. Gross,Andrej Sali,Bryan L. Roth,Davide Ruggero,Jack Taunton,Tanja Kortemme,Pedro Beltrao,Marco Vignuzzi,Adolfo García-Sastre,Kevan M. Shokat,Brian K. Shoichet,Nevan J. Krogan +128 more
TL;DR: A human–SARS-CoV-2 protein interaction map highlights cellular processes that are hijacked by the virus and that can be targeted by existing drugs, including inhibitors of mRNA translation and predicted regulators of the sigma receptors.
Journal ArticleDOI
The Rosetta All-Atom Energy Function for Macromolecular Modeling and Design.
Rebecca F. Alford,Andrew Leaver-Fay,Jeliazko R. Jeliazkov,Matthew J. O’Meara,Frank DiMaio,Hahnbeom Park,Maxim V. Shapovalov,P. Douglas Renfrew,Vikram Khipple Mulligan,Kalli Kappel,Jason W. Labonte,Michael S. Pacella,Richard Bonneau,Philip Bradley,Roland L. Dunbrack,Rhiju Das,David Baker,Brian Kuhlman,Tanja Kortemme,Jeffrey J. Gray +19 more
TL;DR: This paper describes the mathematical models and physical concepts that underlie the latest Rosetta energy function, called the Rosetta Energy Function 2015 (REF15), and explains how to use Rosetta energies to identify and analyze the features of biomolecular models.
Journal ArticleDOI
Ultra-large library docking for discovering new chemotypes
Jiankun Lyu,Sheng Wang,Trent E. Balius,Isha Singh,Anat Levit,Yurii S. Moroz,Matthew J. O’Meara,Tao Che,Enkhjargal Algaa,Kateryna A. Tolmachova,Andrey A. Tolmachev,Brian K. Shoichet,Bryan L. Roth,John J. Irwin +13 more
TL;DR: Using a make-on-demand library that contains hundreds-of-millions of molecules, structure-based docking was used to identify compounds that, after synthesis and testing, are shown to interact with AmpC β-lactamase and the D4 dopamine receptor with high affinity.
Journal ArticleDOI
Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms.
David E. Gordon,Joseph Hiatt,Mehdi Bouhaddou,Veronica V. Rezelj,Svenja Ulferts,Hannes Braberg,Alexander S. Jureka,Kirsten Obernier,Jeffrey Z. Guo,Jyoti Batra,Robyn M. Kaake,Andrew R. Weckstein,Tristan W. Owens,Meghna Gupta,Sergei Pourmal,Erron W. Titus,Merve Cakir,Margaret Soucheray,Michael J. McGregor,Zeynep Cakir,Gwendolyn M. Jang,Matthew J. O’Meara,Tia A. Tummino,Ziyang Zhang,Helene Foussard,Ajda Rojc,Yuan Zhou,Dmitry Kuchenov,Ruth Hüttenhain,Jiewei Xu,Manon Eckhardt,Danielle L. Swaney,Jacqueline M. Fabius,Manisha Ummadi,Beril Tutuncuoglu,Ujjwal Rathore,Maya Modak,Paige Haas,Kelsey M. Haas,Zun Zar Chi Naing,Ernst H. Pulido,Ying Shi,Inigo Barrio-Hernandez,Danish Memon,Eirini Petsalaki,Alistair Dunham,Miguel Correa Marrero,David F. Burke,Cassandra Koh,Thomas Vallet,Jesus A. Silvas,Caleigh M. Azumaya,Christian B. Billesbølle,Axel F. Brilot,Melody G. Campbell,Melody G. Campbell,Amy Diallo,Miles Sasha Dickinson,Devan Diwanji,Nadia Herrera,Nick Hoppe,Huong T. Kratochvil,Yanxin Liu,Gregory E. Merz,Michelle Moritz,Henry C. Nguyen,Carlos Nowotny,Cristina Puchades,Alexandrea N. Rizo,Ursula Schulze-Gahmen,Amber M. Smith,Ming Sun,Iris D. Young,Jianhua Zhao,Daniel Asarnow,Justin T Biel,Alisa Bowen,Julian R. Braxton,Jen Chen,Cynthia M. Chio,Un Seng Chio,Ishan Deshpande,Loan Doan,Bryan Faust,Sebastian Flores,Mingliang Jin,Kate Kim,Victor L Lam,Fei Li,Junrui Li,Y. Li,Yang Li,Xi Liu,Megan Lo,Kyle E. Lopez,Arthur Alves de Melo,Frank R. Moss,Phuong Nguyen,Joana Paulino,Komal Ishwar Pawar,Jessica K. Peters,Thomas H. Pospiech,Maliheh Safari,Smriti Sangwan,Kaitlin Schaefer,Paul V. Thomas,Aye C. Thwin,Raphael Trenker,Eric Tse,Tsz Kin Martin Tsui,Feng Wang,Natalie Whitis,Zanlin Yu,Kaihua Zhang,Yang Zhang,Fengbo Zhou,Daniel J. Saltzberg,Anthony J. Hodder,Amber S. M. Shun-Shion,Daniel M. Williams,Kris M. White,Romel Rosales,Thomas Kehrer,Lisa Miorin,Elena Moreno,Arvind H. Patel,Suzannah J. Rihn,Mir M. Khalid,Albert Vallejo-Gracia,Parinaz Fozouni,Parinaz Fozouni,Camille R. Simoneau,Camille R. Simoneau,Theodore L. Roth,David Wu,Mohd Anisul Karim,Maya Ghoussaini,Ian Dunham,Francesco Berardi,Sebastian Weigang,Maxime Chazal,Jisoo Park,James Logue,Marisa McGrath,Stuart Weston,Robert Haupt,C. James Hastie,Matthew Elliott,Fiona Brown,Kerry A. Burness,Elaine Reid,Mark Dorward,Clare Johnson,Stuart G. Wilkinson,Anna Geyer,Daniel M. Giesel,Carla Baillie,Samantha Raggett,Hannah Leech,Rachel Toth,Nicola Goodman,Kathleen C. Keough,Abigail L. Lind,Reyna J. Klesh,Kafi R. Hemphill,Jared Carlson-Stevermer,Jennifer Oki,Kevin Holden,Travis J. Maures,Katherine S. Pollard,Katherine S. Pollard,Andrej Sali,David A. Agard,Yifan Cheng,James S. Fraser,Adam Frost,Natalia Jura,Tanja Kortemme,Aashish Manglik,Daniel R. Southworth,Robert M. Stroud,Dario R. Alessi,Paul Davies,Matthew B. Frieman,Trey Ideker,Carmen Abate,Nolwenn Jouvenet,Nolwenn Jouvenet,Georg Kochs,Brian K. Shoichet,Melanie Ott,Melanie Ott,Massimo Palmarini,Kevan M. Shokat,Adolfo García-Sastre,Jeremy A. Rassen,Robert Grosse,Oren S. Rosenberg,Kliment A. Verba,Christopher F. Basler,Marco Vignuzzi,Andrew A. Peden,Pedro Beltrao,Nevan J. Krogan +203 more
TL;DR: The authors identified shared biology and host-directed drug targets to prioritize therapeutics with potential for rapid deployment against current and future coronavirus outbreaks, and found that individuals with genotypes corresponding to higher soluble IL17RA levels in plasma are at decreased risk of COVID-19 hospitalization.
Posted ContentDOI
The Rosetta all-atom energy function for macromolecular modeling and design
Rebecca F. Alford,Andrew Leaver-Fay,Jeliazko R. Jeliazkov,Matthew J. O’Meara,Frank DiMaio,Hahnbeom Park,Maxim V. Shapovalov,P. Douglas Renfrew,Vikram Khipple Mulligan,Kalli Kappel,Jason W. Labonte,Michael S. Pacella,Richard Bonneau,Philip Bradley,Roland L. Dunbrack,Rhiju Das,David Baker,Brian Kuhlman,Tanja Kortemme,Jeffrey J. Gray +19 more
TL;DR: The mathematical models and physical concepts that underlie the latest Rosetta energy function, beta_nov15, and the latest advances in the energy function that extend capabilities from soluble proteins to also include membrane proteins, peptides containing non-canonical amino acids, carbohydrates, nucleic acids, and other macromolecules are discussed.