Deep learning identifies synergistic drug combinations for treating COVID-19
Jin, Wengong, Stokes, Jonathan M., Eastman, Richard T., Itkin, Zina, Zakharov, Alexey V., Collins, James J., Jaakkola, Tommi S., Barzilay, Regina
Published in Proceedings of the National Academy of Sciences - PNAS (28.09.2021)
Published in Proceedings of the National Academy of Sciences - PNAS (28.09.2021)
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Bone marrow–on–a–chip replicates hematopoietic niche physiology in vitro
Torisawa, Yu-suke, Spina, Catherine S, Mammoto, Tadanori, Mammoto, Akiko, Weaver, James C, Tat, Tracy, Collins, James J, Ingber, Donald E
Published in Nature methods (01.06.2014)
Published in Nature methods (01.06.2014)
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LIN28 Regulates Stem Cell Metabolism and Conversion to Primed Pluripotency
Zhang, Jin, Ratanasirintrawoot, Sutheera, Chandrasekaran, Sriram, Wu, Zhaoting, Ficarro, Scott B., Yu, Chunxiao, Ross, Christian A., Cacchiarelli, Davide, Xia, Qing, Seligson, Marc, Shinoda, Gen, Xie, Wen, Cahan, Patrick, Wang, Longfei, Ng, Shyh-Chang, Tintara, Supisara, Trapnell, Cole, Onder, Tamer, Loh, Yuin-Han, Mikkelsen, Tarjei, Sliz, Piotr, Teitell, Michael A., Asara, John M., Marto, Jarrod A., Li, Hu, Collins, James J., Daley, George Q.
Published in Cell stem cell (07.07.2016)
Published in Cell stem cell (07.07.2016)
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Safe CRISPR: Challenges and Possible Solutions
Pineda, Michael, Lear, Ashley, Collins, James P., Kiani, Samira
Published in Trends in biotechnology (Regular ed.) (01.04.2019)
Published in Trends in biotechnology (Regular ed.) (01.04.2019)
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A community effort to assess and improve drug sensitivity prediction algorithms
Costello, James C, Heiser, Laura M, Georgii, Elisabeth, Gönen, Mehmet, Menden, Michael P, Wang, Nicholas J, Bansal, Mukesh, Ammad-ud-din, Muhammad, Hintsanen, Petteri, Khan, Suleiman A, Mpindi, John-Patrick, Kallioniemi, Olli, Honkela, Antti, Aittokallio, Tero, Wennerberg, Krister, Collins, James J, Gallahan, Dan, Singer, Dinah, Saez-Rodriguez, Julio, Kaski, Samuel, Gray, Joe W, Stolovitzky, Gustavo
Published in Nature biotechnology (01.12.2014)
Published in Nature biotechnology (01.12.2014)
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Dissecting Engineered Cell Types and Enhancing Cell Fate Conversion via CellNet
Morris, Samantha A., Cahan, Patrick, Li, Hu, Zhao, Anna M., San Roman, Adrianna K., Shivdasani, Ramesh A., Collins, James J., Daley, George Q.
Published in Cell (14.08.2014)
Published in Cell (14.08.2014)
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Carbon Sources Tune Antibiotic Susceptibility in Pseudomonas aeruginosa via Tricarboxylic Acid Cycle Control
Meylan, Sylvain, Porter, Caroline B.M., Yang, Jason H., Belenky, Peter, Gutierrez, Arnaud, Lobritz, Michael A., Park, Jihye, Kim, Sun H., Moskowitz, Samuel M., Collins, James J.
Published in Cell chemical biology (16.02.2017)
Published in Cell chemical biology (16.02.2017)
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Nucleic acid detection with CRISPR-Cas13a/C2c2
Gootenberg, Jonathan S., Abudayyeh, Omar O., Lee, Jeong Wook, Essletzbichler, Patrick, Dy, Aaron J., Joung, Julia, Verdine, Vanessa, Donghia, Nina, Daringer, Nichole M., Freije, Catherine A., Myhrvold, Cameron, Bhattacharyya, Roby P., Livny, Jonathan, Regev, Aviv, Koonin, Eugene V., Hung, Deborah T., Sabeti, Pardis C., Collins, James J., Zhang, Feng
Published in Science (American Association for the Advancement of Science) (28.04.2017)
Published in Science (American Association for the Advancement of Science) (28.04.2017)
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Induction of Multipotential Hematopoietic Progenitors from Human Pluripotent Stem Cells via Respecification of Lineage-Restricted Precursors
Doulatov, Sergei, Vo, Linda T., Chou, Stephanie S., Kim, Peter G., Arora, Natasha, Li, Hu, Hadland, Brandon K., Bernstein, Irwin D., Collins, James J., Zon, Leonard I., Daley, George Q.
Published in Cell stem cell (03.10.2013)
Published in Cell stem cell (03.10.2013)
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Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles
Faith, Jeremiah J, Hayete, Boris, Thaden, Joshua T, Mogno, Ilaria, Wierzbowski, Jamey, Cottarel, Guillaume, Kasif, Simon, Collins, James J, Gardner, Timothy S
Published in PLoS biology (01.01.2007)
Published in PLoS biology (01.01.2007)
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Silver enhances antibiotic activity against gram-negative bacteria
Morones-Ramirez, J Ruben, Winkler, Jonathan A, Spina, Catherine S, Collins, James J
Published in Science translational medicine (19.06.2013)
Published in Science translational medicine (19.06.2013)
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Journal Article
Clinically relevant mutations in core metabolic genes confer antibiotic resistance
Lopatkin, Allison J, Bening, Sarah C, Manson, Abigail L, Stokes, Jonathan M, Kohanski, Michael A, Badran, Ahmed H, Earl, Ashlee M, Cheney, Nicole J, Yang, Jason H, Collins, James J
Published in Science (American Association for the Advancement of Science) (19.02.2021)
Published in Science (American Association for the Advancement of Science) (19.02.2021)
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Bacterial charity work leads to population-wide resistance
Collins, James J, Lee, Henry H, Molla, Michael N, Cantor, Charles R
Published in Nature (London) (02.09.2010)
Published in Nature (London) (02.09.2010)
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Complex signal processing in synthetic gene circuits using cooperative regulatory assemblies
Bashor, Caleb J, Patel, Nikit, Choubey, Sandeep, Beyzavi, Ali, Kondev, Jané, Collins, James J, Khalil, Ahmad S
Published in Science (American Association for the Advancement of Science) (10.05.2019)
Published in Science (American Association for the Advancement of Science) (10.05.2019)
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Epigenetic landscapes explain partially reprogrammed cells and identify key reprogramming genes
Lang, Alex H, Li, Hu, Collins, James J, Mehta, Pankaj
Published in PLoS computational biology (01.08.2014)
Published in PLoS computational biology (01.08.2014)
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Comparison of Cas9 activators in multiple species
Chavez, Alejandro, Tuttle, Marcelle, Pruitt, Benjamin W, Ewen-Campen, Ben, Chari, Raj, Ter-Ovanesyan, Dmitry, Haque, Sabina J, Cecchi, Ryan J, Kowal, Emma J K, Buchthal, Joanna, Housden, Benjamin E, Perrimon, Norbert, Collins, James J, Church, George
Published in Nature methods (01.07.2016)
Published in Nature methods (01.07.2016)
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Journal Article
Engineered bacteriophage targeting gene networks as adjuvants for antibiotic therapy
Lu, Timothy K, Collins, James J
Published in Proceedings of the National Academy of Sciences - PNAS (24.03.2009)
Published in Proceedings of the National Academy of Sciences - PNAS (24.03.2009)
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