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Large-scale application of free energy perturbation calculations for antibody design
Zhu, Fangqiang, Bourguet, Feliza A., Bennett, William F. D., Lau, Edmond Y., Arrildt, Kathryn T., Segelke, Brent W., Zemla, Adam T., Desautels, Thomas A., Faissol, Daniel M.
Published in Scientific reports (21.07.2022)
Published in Scientific reports (21.07.2022)
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Journal Article
Using electronic health record collected clinical variables to predict medical intensive care unit mortality
Calvert, Jacob, Mao, Qingqing, Hoffman, Jana L., Jay, Melissa, Desautels, Thomas, Mohamadlou, Hamid, Chettipally, Uli, Das, Ritankar
Published in Annals of medicine and surgery (01.11.2016)
Published in Annals of medicine and surgery (01.11.2016)
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Journal Article
Design of cross-reactive antigens with machine learning and high-throughput experimental evaluation
Chesterman, Chelsy, Desautels, Thomas, Sierra, Luz-Jeannette, Arrildt, Kathryn T., Zemla, Adam, Lau, Edmond Y., Sundaram, Shivshankar, Laliberte, Jason, Chen, Lynn, Ruby, Aaron, Mednikov, Mark, Bertholet, Sylvie, Yu, Dong, Luisi, Kate, Malito, Enrico, Mallett, Corey P., Bottomley, Matthew J., van den Berg, Robert A., Faissol, Daniel
Published in Frontiers in bioinformatics (16.07.2025)
Published in Frontiers in bioinformatics (16.07.2025)
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Journal Article
An Active Learning Algorithm for Control of Epidural Electrostimulation
Desautels, Thomas A., Choe, Jaehoon, Gad, Parag, Nandra, Mandheerej S., Roy, Roland R., Zhong, Hui, Tai, Yu-Chong, Edgerton, V. Reggie, Burdick, Joel W.
Published in IEEE transactions on biomedical engineering (01.10.2015)
Published in IEEE transactions on biomedical engineering (01.10.2015)
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Journal Article
Using Transfer Learning for Improved Mortality Prediction in a Data-Scarce Hospital Setting
Desautels, Thomas, Calvert, Jacob, Hoffman, Jana, Mao, Qingqing, Jay, Melissa, Fletcher, Grant, Barton, Chris, Chettipally, Uli, Kerem, Yaniv, Das, Ritankar
Published in Biomedical informatics insights (2017)
Published in Biomedical informatics insights (2017)
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Journal Article
Preemptive optimization of a clinical antibody for broad neutralization of SARS-CoV-2 variants and robustness against viral escape
Zhu, Fangqiang, Rajan, Saravanan, Hayes, Conor F., Kwong, Ka Yin, Goncalves, Andre R., Zemla, Adam T., Lau, Edmond Y., Zhang, Yi, Cai, Yingyun, Goforth, John W., Landajuela, Mikel, Gilchuk, Pavlo, Kierny, Michael, Dippel, Andrew, Amofah, Bismark, Kaplan, Gilad, Cadevilla Peano, Vanessa, Morehouse, Christopher, Sparklin, Ben, Gopalakrishnan, Vancheswaran, Tuffy, Kevin M., Nguyen, Amy, Beloor, Jagadish, Kijak, Gustavo, Liu, Chang, Dijokaite-Guraliuc, Aiste, Mongkolsapaya, Juthathip, Screaton, Gavin R., Petersen, Brenden K., Desautels, Thomas A., Bennett, Drew, Conti, Simone, Segelke, Brent W., Arrildt, Kathryn T., Kaul, Samantha, Grzesiak, Emilia A., da Silva, Felipe Leno, Bates, Thomas W., Earnhart, Christopher G., Hopkins, Svetlana, Sundaram, Shivshankar, Esser, Mark T., Francica, Joseph R., Faissol, Daniel M.
Published in Science advances (28.03.2025)
Published in Science advances (28.03.2025)
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Journal Article
High-performance detection and early prediction of septic shock for alcohol-use disorder patients
Calvert, Jacob, Desautels, Thomas, Chettipally, Uli, Barton, Christopher, Hoffman, Jana, Jay, Melissa, Mao, Qingqing, Mohamadlou, Hamid, Das, Ritankar
Published in Annals of medicine and surgery (01.06.2016)
Published in Annals of medicine and surgery (01.06.2016)
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Journal Article
Prediction of early unplanned intensive care unit readmission in a UK tertiary care hospital: a cross-sectional machine learning approach
Desautels, Thomas, Das, Ritankar, Calvert, Jacob, Trivedi, Monica, Summers, Charlotte, Wales, David J, Ercole, Ari
Published in BMJ open (01.09.2017)
Published in BMJ open (01.09.2017)
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Journal Article
Prediction of Sepsis in the Intensive Care Unit With Minimal Electronic Health Record Data: A Machine Learning Approach
Desautels, Thomas, Calvert, Jacob, Hoffman, Jana, Jay, Melissa, Kerem, Yaniv, Shieh, Lisa, Shimabukuro, David, Chettipally, Uli, Feldman, Mitchell D, Barton, Chris, Wales, David J, Das, Ritankar
Published in JMIR medical informatics (30.09.2016)
Published in JMIR medical informatics (30.09.2016)
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Journal Article
Computationally restoring the potency of a clinical antibody against SARS-CoV-2 Omicron subvariants
Desautels, Thomas A, Arrildt, Kathryn T, Zemla, Adam T, Lau, Edmond Y, Zhu, Fangqiang, Ricci, Dante, Cronin, Stephanie, Zost, Seth, Binshtein, Elad, Scheaffer, Suzanne M, Engdahl, Taylor B, Chen, Elaine, Goforth, John W, Vashchenko, Denis, Nguyen, Sam, Weilhammer, Dina R, Lo, Jacky Kai-Yin, Rubinfeld, Bonnee, Saada, Edwin A, Weisenberger, Tracy, Lee, Tek-Hyung, Whitener, Bradley, Case, James B, Ladd, Alexander, Silva, Mary S, Haluska, Rebecca M, Grzesiak, Emilia A, Bates, Thomas W, Petersen, Brenden K, Thackray, Larissa B, Segelke, Brent W, Lillo, Antonietta Maria, Sundaram, Shankar, Diamond, Michael S, Crowe, James E, Carnahan, Robert H, Faissol, Daniel M
Published in bioRxiv (24.04.2023)
Published in bioRxiv (24.04.2023)
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Paper
Journal Article
Language model-accelerated deep symbolic optimization
da Silva, Felipe Leno, Goncalves, Andre, Nguyen, Sam, Vashchenko, Denis, Glatt, Ruben, Desautels, Thomas, Landajuela, Mikel, Faissol, Daniel, Petersen, Brenden
Published in Neural computing & applications (19.07.2023)
Published in Neural computing & applications (19.07.2023)
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Journal Article
Computationally restoring the potency of a clinical antibody against Omicron
Desautels, Thomas A., Arrildt, Kathryn T., Zemla, Adam T., Lau, Edmond Y., Zhu, Fangqiang, Ricci, Dante, Cronin, Stephanie, Zost, Seth J., Binshtein, Elad, Scheaffer, Suzanne M., Dadonaite, Bernadeta, Petersen, Brenden K., Engdahl, Taylor B., Chen, Elaine, Handal, Laura S., Hall, Lynn, Goforth, John W., Vashchenko, Denis, Nguyen, Sam, Weilhammer, Dina R., Lo, Jacky Kai-Yin, Rubinfeld, Bonnee, Saada, Edwin A., Weisenberger, Tracy, Lee, Tek-Hyung, Whitener, Bradley, Case, James B., Ladd, Alexander, Silva, Mary S., Haluska, Rebecca M., Grzesiak, Emilia A., Earnhart, Christopher G., Hopkins, Svetlana, Bates, Thomas W., Thackray, Larissa B., Segelke, Brent W., Lillo, Antonietta Maria, Sundaram, Shivshankar, Bloom, Jesse D., Diamond, Michael S., Crowe, James E., Carnahan, Robert H., Faissol, Daniel M.
Published in Nature (London) (23.05.2024)
Published in Nature (London) (23.05.2024)
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Journal Article
Fluorescence correlation spectroscopy measurements of proteins expressed inside microcapsules
Liu, Chao, Hoang-Phou, Steven A., Ye, Congwang, Laurence, Matthew J., Rubinfeld, Bonnee, Desautels, Thomas A., Smith, Willaim L., Fong, Erika J., Watkins, Nicholas N., Gilmore, Sean F., Shusteff, Maxim, Laurence, Ted A., Coleman, Matthew A.
Published in Biophysical journal (11.02.2022)
Published in Biophysical journal (11.02.2022)
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Journal Article
A computational approach to mortality prediction of alcohol use disorder inpatients
Calvert, Jacob, Mao, Qingqing, Rogers, Angela J., Barton, Christopher, Jay, Melissa, Desautels, Thomas, Mohamadlou, Hamid, Jan, Jasmine, Das, Ritankar
Published in Computers in biology and medicine (01.08.2016)
Published in Computers in biology and medicine (01.08.2016)
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Journal Article
Learning Regions of Interest for Bayesian Optimization with Adaptive Level-Set Estimation
Zhang, Fengxue, Song, Jialin, Bowden, James, Ladd, Alexander, Yue, Yisong, Desautels, Thomas A, Chen, Yuxin
Year of Publication 25.07.2023
Year of Publication 25.07.2023
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Journal Article
Deep Symbolic Optimization: Reinforcement Learning for Symbolic Mathematics
Hayes, Conor F, Da Silva, Felipe Leno, Yang, Jiachen, Mundhenk, T. Nathan, Lee, Chak Shing, Pettit, Jacob F, Santiago, Claudio, Kim, Sookyung, Kim, Joanne T, Solis, Ignacio Aravena, Glatt, Ruben, Goncalves, Andre R, Ladd, Alexander, Solak, Ahmet Can, Desautels, Thomas, Faissol, Daniel, Petersen, Brenden K, Landajuela, Mikel
Year of Publication 15.05.2025
Year of Publication 15.05.2025
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Journal Article
NEUROSTIMULATOR
HODES JONATHAN, JACKSON DOUGLAS J, GERASIMENKO YURY, UPCHURCH STEVEN L, DESAUTELS THOMAS ANTHONY, KEYNTON ROBERT S, BURDICK JOEL W, ROY ROLAND R, ANGELI CLAUDIA A, TERRAFRANCA JR. NICHOLAS A, EDGERTON VICTOR REGGIE, HARKEMA SUSAN J, TAI YU CHONG, NANDRA MANDHEEREJ S, NABER JOHN F
Year of Publication 04.02.2014
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Year of Publication 04.02.2014
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