Automated Discovery of Functional Generality of Human Gene Expression Programs

por Gerber, Georg K, Dowell, Robin D, Jaakkola, Tommi S, Gifford, David K
Publicado 2007

Lineage-based identification of cellular states and expression programs

por Hashimoto, Tatsunori, Jaakkola, Tommi, Sherwood, Richard, Mazzoni, Esteban O., Wichterle, Hynek, Gifford, David
Publicado 2012

Prediction of Organic Reaction Outcomes Using Machine Learning

por Coley, Connor W., Barzilay, Regina, Jaakkola, Tommi S., Green, William H., Jensen, Klavs F.
Publicado 2017

Validation and refinement of gene-regulatory pathways on a network of physical interactions

por Yeang, Chen-Hsiang, Mak, H Craig, McCuine, Scott, Workman, Christopher, Jaakkola, Tommi, Ideker, Trey
Publicado 2005

Deep learning identifies synergistic drug combinations for treating COVID-19

por Jin, Wengong, Stokes, Jonathan M., Eastman, Richard T., Itkin, Zina, Zakharov, Alexey V., Collins, James J., Jaakkola, Tommi S., Barzilay, Regina
Publicado 2021

A graph-convolutional neural network model for the prediction of chemical reactivity

por Coley, Connor W., Jin, Wengong, Rogers, Luke, Jamison, Timothy F., Jaakkola, Tommi S., Green, William H., Barzilay, Regina, Jensen, Klavs F.
Publicado 2018

Benchmarking AlphaFold‐enabled molecular docking predictions for antibiotic discovery

por Wong, Felix, Krishnan, Aarti, Zheng, Erica J, Stärk, Hannes, Manson, Abigail L, Earl, Ashlee M, Jaakkola, Tommi, Collins, James J
Publicado 2022

Discovery of non-directional and directional pioneer transcription factors by modeling DNase profile magnitude and shape

por Sherwood, Richard I, Hashimoto, Tatsunori, O'Donnell, Charles W, Lewis, Sophia, Barkal, Amira A, van Hoff, John Peter, Karun, Vivek, Jaakkola, Tommi, Gifford, David K
Publicado 2014

A synergistic DNA logic predicts genome-wide chromatin accessibility

por Hashimoto, Tatsunori, Sherwood, Richard I., Kang, Daniel D., Rajagopal, Nisha, Barkal, Amira A., Zeng, Haoyang, Emons, Bart J.M., Srinivasan, Sharanya, Jaakkola, Tommi, Gifford, David K.
Publicado 2016

Analyzing Learned Molecular Representations for Property Prediction

por Yang, Kevin, Swanson, Kyle, Jin, Wengong, Coley, Connor, Eiden, Philipp, Gao, Hua, Guzman-Perez, Angel, Hopper, Timothy, Kelley, Brian, Mathea, Miriam, Palmer, Andrew, Settels, Volker, Jaakkola, Tommi, Jensen, Klavs, Barzilay, Regina
Publicado 2019

Correction to Analyzing Learned Molecular Representations for Property Prediction

por Yang, Kevin, Swanson, Kyle, Jin, Wengong, Coley, Connor, Eiden, Philipp, Gao, Hua, Guzman-Perez, Angel, Hopper, Timothy, Kelley, Brian, Mathea, Miriam, Palmer, Andrew, Settels, Volker, Jaakkola, Tommi, Jensen, Klavs, Barzilay, Regina
Publicado 2019

De novo design of protein structure and function with RFdiffusion

por Watson, Joseph L., Juergens, David, Bennett, Nathaniel R., Trippe, Brian L., Yim, Jason, Eisenach, Helen E., Ahern, Woody, Borst, Andrew J., Ragotte, Robert J., Milles, Lukas F., Wicky, Basile I. M., Hanikel, Nikita, Pellock, Samuel J., Courbet, Alexis, Sheffler, William, Wang, Jue, Venkatesh, Preetham, Sappington, Isaac, Torres, Susana Vázquez, Lauko, Anna, De Bortoli, Valentin, Mathieu, Emile, Ovchinnikov, Sergey, Barzilay, Regina, Jaakkola, Tommi S., DiMaio, Frank, Baek, Minkyung, Baker, David
Publicado 2023

Current and Future Roles of Artificial Intelligence in Medicinal Chemistry Synthesis

por Struble, Thomas J., Alvarez, Juan C., Brown, Scott P., Chytil, Milan, Cisar, Justin, DesJarlais, Renee L., Engkvist, Ola, Frank, Scott A., Greve, Daniel R., Griffin, Daniel J., Hou, Xinjun, Johannes, Jeffrey W., Kreatsoulas, Constantine, Lahue, Brian, Mathea, Miriam, Mogk, Georg, Nicolaou, Christos A., Palmer, Andrew D., Price, Daniel J., Robinson, Richard I., Salentin, Sebastian, Xing, Li, Jaakkola, Tommi, Green, William. H., Barzilay, Regina, Coley, Connor W., Jensen, Klavs F.
Publicado 2020