Optimization and evaluation of a proportional derivative controller for planar arm movement

per Jagodnik, Kathleen M., van den Bogert, Antonie J.
Publicat 2010

An Optimized Proportional-Derivative Controller for the Human Upper Extremity with Gravity

per Jagodnik, Kathleen M., Blana, Dimitra, van den Bogert, Antonie J., Kirsch, Robert F.
Publicat a J Biomech (2015)

Drug Gene Budger (DGB): an application for ranking drugs to modulate a specific gene based on transcriptomic signatures

per Wang, Zichen, He, Edward, Sani, Kevin, Jagodnik, Kathleen M, Silverstein, Moshe C, Ma’ayan, Avi
Publicat a Bioinformatics (2019)

Training an Actor-Critic Reinforcement Learning Controller for Arm Movement Using Human-Generated Rewards

per Jagodnik, Kathleen M., Thomas, Philip S., van den Bogert, Antonie J., Branicky, Michael S., Kirsch, Robert F.
Publicat a IEEE Trans Neural Syst Rehabil Eng (2017)

EnrichrBot: Twitter bot tracking tweets about human genes

per Bartal, Alon, Lachmann, Alexander, Clarke, Daniel J B, Seiden, Allison H, Jagodnik, Kathleen M, Ma’ayan, Avi
Publicat a Bioinformatics (2020)

Datasets2Tools, repository and search engine for bioinformatics datasets, tools and canned analyses

per Torre, Denis, Krawczuk, Patrycja, Jagodnik, Kathleen M., Lachmann, Alexander, Wang, Zichen, Wang, Lily, Kuleshov, Maxim V., Ma’ayan, Avi
Publicat a Sci Data (2018)

Massive mining of publicly available RNA-seq data from human and mouse

per Lachmann, Alexander, Torre, Denis, Keenan, Alexandra B., Jagodnik, Kathleen M., Lee, Hoyjin J., Wang, Lily, Silverstein, Moshe C., Ma’ayan, Avi
Publicat a Nat Commun (2018)

ChEA3: transcription factor enrichment analysis by orthogonal omics integration

per Keenan, Alexandra B, Torre, Denis, Lachmann, Alexander, Leong, Ariel K, Wojciechowicz, Megan L, Utti, Vivian, Jagodnik, Kathleen M, Kropiwnicki, Eryk, Wang, Zichen, Ma’ayan, Avi
Publicat a Nucleic Acids Res (2019)

Drugmonizome and Drugmonizome-ML: integration and abstraction of small molecule attributes for drug enrichment analysis and machine learning

per Kropiwnicki, Eryk, Evangelista, John E, Stein, Daniel J, Clarke, Daniel J B, Lachmann, Alexander, Kuleshov, Maxim V, Jeon, Minji, Jagodnik, Kathleen M, Ma’ayan, Avi
Publicat a Database (Oxford) (2021)

The COVID-19 Gene and Drug Set Library

per Kuleshov, Maxim V., Clarke, Daniel J.B., Kropiwnicki, Eryk, Jagodnik, Kathleen M., Bartal, Alon, Evangelista, John E., Zhou, Abigail, Ferguson, Laura B., Lachmann, Alexander, Ma’ayan, Avi
Publicat a Res Sq (2020)

GEN3VA: aggregation and analysis of gene expression signatures from related studies

per Gundersen, Gregory W., Jagodnik, Kathleen M., Woodland, Holly, Fernandez, Nicholas F., Sani, Kevin, Dohlman, Anders B., Ung, Peter Man-Un, Monteiro, Caroline D., Schlessinger, Avner, Ma’ayan, Avi
Publicat a BMC Bioinformatics (2016)

Sustainable data and metadata management at the BD2K-LINCS Data Coordination and Integration Center

per Stathias, Vasileios, Koleti, Amar, Vidović, Dušica, Cooper, Daniel J., Jagodnik, Kathleen M., Terryn, Raymond, Forlin, Michele, Chung, Caty, Torre, Denis, Ayad, Nagi, Medvedovic, Mario, Ma'ayan, Avi, Pillai, Ajay, Schürer, Stephan C.
Publicat a Sci Data (2018)

Gene Set Knowledge Discovery with Enrichr

per Xie, Zhuorui, Bailey, Allison, Kuleshov, Maxim V., Clarke, Daniel J.B., Evangelista, John E., Jenkins, Sherry L., Lachmann, Alexander, Wojciechowicz, Megan L., Kropiwnicki, Eryk, Jagodnik, Kathleen M., Jeon, Minji, Ma’ayan, Avi
Publicat a Curr Protoc (2021)

Developing a Framework for Digital Objects in the Big Data to Knowledge (BD2K) Commons: Report from the Commons Framework Pilots Workshop

per Jagodnik, Kathleen M., Koplev, Simon, Jenkins, Sherry, Ohno-Machado, Lucila, Paten, Benedict, Schurer, Stephan C., Dumontier, Michel, Verborgh, Ruben, Bui, Alex, Ping, Peipei, McKenna, Neil J., Madduri, Ravi, Pillai, Ajay, Ma’ayan, Avi
Publicat a J Biomed Inform (2017)

The COVID-19 Drug and Gene Set Library

per Kuleshov, Maxim V., Stein, Daniel J., Clarke, Daniel J.B., Kropiwnicki, Eryk, Jagodnik, Kathleen M., Bartal, Alon, Evangelista, John E., Hom, Jason, Cheng, Minxuan, Bailey, Allison, Zhou, Abigail, Ferguson, Laura B., Lachmann, Alexander, Ma'ayan, Avi
Publicat a Patterns (N Y) (2020)

Enrichr: a comprehensive gene set enrichment analysis web server 2016 update

per Kuleshov, Maxim V., Jones, Matthew R., Rouillard, Andrew D., Fernandez, Nicolas F., Duan, Qiaonan, Wang, Zichen, Koplev, Simon, Jenkins, Sherry L., Jagodnik, Kathleen M., Lachmann, Alexander, McDermott, Michael G., Monteiro, Caroline D., Gundersen, Gregory W., Ma'ayan, Avi
Publicat a Nucleic Acids Res (2016)

Appyters: Turning Jupyter Notebooks into data-driven web apps

per Clarke, Daniel J.B., Jeon, Minji, Stein, Daniel J., Moiseyev, Nicole, Kropiwnicki, Eryk, Dai, Charles, Xie, Zhuorui, Wojciechowicz, Megan L., Litz, Skylar, Hom, Jason, Evangelista, John Erol, Goldman, Lucas, Zhang, Serena, Yoon, Christine, Ahamed, Tahmid, Bhuiyan, Samantha, Cheng, Minxuan, Karam, Julie, Jagodnik, Kathleen M., Shu, Ingrid, Lachmann, Alexander, Ayling, Sam, Jenkins, Sherry L., Ma'ayan, Avi
Publicat a Patterns (N Y) (2021)

Data Portal for the Library of Integrated Network-based Cellular Signatures (LINCS) program: integrated access to diverse large-scale cellular perturbation response data

per Koleti, Amar, Terryn, Raymond, Stathias, Vasileios, Chung, Caty, Cooper, Daniel J, Turner, John P, Vidović, Dušica, Forlin, Michele, Kelley, Tanya T, D’Urso, Alessandro, Allen, Bryce K, Torre, Denis, Jagodnik, Kathleen M, Wang, Lily, Jenkins, Sherry L, Mader, Christopher, Niu, Wen, Fazel, Mehdi, Mahi, Naim, Pilarczyk, Marcin, Clark, Nicholas, Shamsaei, Behrouz, Meller, Jarek, Vasiliauskas, Juozas, Reichard, John, Medvedovic, Mario, Ma’ayan, Avi, Pillai, Ajay, Schürer, Stephan C
Publicat a Nucleic Acids Res (2018)

FAIRshake: Toolkit to Evaluate the FAIRness of Research Digital Resources

per Clarke, Daniel J.B., Wang, Lily, Jones, Alex, Wojciechowicz, Megan L., Torre, Denis, Jagodnik, Kathleen M., Jenkins, Sherry L., McQuilton, Peter, Flamholz, Zachary, Silverstein, Moshe C., Schilder, Brian M., Robasky, Kimberly, Castillo, Claris, Idaszak, Ray, Ahalt, Stanley C., Williams, Jason, Schurer, Stephan, Cooper, Daniel J., de Miranda Azevedo, Ricardo, Klenk, Juergen A., Haendel, Melissa A., Nedzel, Jared, Avillach, Paul, Shimoyama, Mary E., Harris, Rayna M., Gamble, Meredith, Poten, Rudy, Charbonneau, Amanda L., Larkin, Jennie, Brown, C. Titus, Bonazzi, Vivien R., Dumontier, Michel J., Sansone, Susanna-Assunta, Ma’ayan, Avi
Publicat a Cell Syst (2019)

Extraction and analysis of signatures from the Gene Expression Omnibus by the crowd

per Wang, Zichen, Monteiro, Caroline D., Jagodnik, Kathleen M., Fernandez, Nicolas F., Gundersen, Gregory W., Rouillard, Andrew D., Jenkins, Sherry L., Feldmann, Axel S., Hu, Kevin S., McDermott, Michael G., Duan, Qiaonan, Clark, Neil R., Jones, Matthew R., Kou, Yan, Goff, Troy, Woodland, Holly, Amaral, Fabio M R., Szeto, Gregory L., Fuchs, Oliver, Schüssler-Fiorenza Rose, Sophia M., Sharma, Shvetank, Schwartz, Uwe, Bausela, Xabier Bengoetxea, Szymkiewicz, Maciej, Maroulis, Vasileios, Salykin, Anton, Barra, Carolina M., Kruth, Candice D., Bongio, Nicholas J., Mathur, Vaibhav, Todoric, Radmila D, Rubin, Udi E., Malatras, Apostolos, Fulp, Carl T., Galindo, John A., Motiejunaite, Ruta, Jüschke, Christoph, Dishuck, Philip C., Lahl, Katharina, Jafari, Mohieddin, Aibar, Sara, Zaravinos, Apostolos, Steenhuizen, Linda H., Allison, Lindsey R., Gamallo, Pablo, de Andres Segura, Fernando, Dae Devlin, Tyler, Pérez-García, Vicente, Ma'ayan, Avi
Publicat a Nat Commun (2016)