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Playbook workflow builder: Interactive construction of bioinformatics workflows Clarke, Daniel J. B.; Evangelista, John Erol; Xie, Zhuorui; Marino, Giacomo B.; Byrd, Anna I.; Maurya, Mano R.; Srinivasan, Sumana; Yu, Keyang; Petrosyan, Varduhi; Roth, Matthew E.; Milinkov, Miroslav; King, Charles Hadley; Vora, Jeet Kiran; Keeney, Jonathon; Nemarich, Christopher; Khan, William; Lachmann, Alexander; Ahmed, Nasheath; Agris, Alexandra; Pan, Juncheng; Ramachandran, Srinivasan; Fahy, Eoin; Esquivel, Emmanuel; Mihajlovic, Aleksandar; Jevtic, Bosko; Milinovic, Vuk; Kim, Sean; McNeely, Patrick; Wang, Tianyi; Wenger, Eric; Brown, Miguel A.; Sickler, Alexander; Zhu, Yuankun; Jenkins, Sherry L.; Blood, Philip D.; Taylor, Deanne M.; Resnick, Adam C.; Mazumder, Raja; Milosavljevic, Aleksandar; Subramaniam, Shankar; Ma'ayan, Avi Share Save
Toxicology knowledge graph for structural birth defects Evangelista, John Erol; Clarke, Daniel J. B.; Xie, Zhuorui; Marino, Giacomo B.; Utti, Vivian; Jenkins, Sherry L.; Ahooyi, Taha Mohseni; Bologa, Cristian G.; Yang, Jeremy J.; Binder, Jessica L.; Kumar, Praveen; Lambert, Christophe G.; Grethe, Jeffrey S.; Wenger, Eric; Taylor, Deanne; Oprea, Tudor, I; de Bono, Bernard; Ma'ayan, Avi Share Save
SigCom LINCS: data and metadata search engine for a million gene expression signatures Evangelista, John Erol; Clarke, Daniel J. B.; Xie, Zhuorui; Lachmann, Alexander; Jeon, Minji; Chen, Kerwin; Jagodnik, Kathleen M.; Jenkins, Sherry L.; Kuleshov, Maxim, V; Wojciechowicz, Megan L.; Schurer, Stephan C.; Medvedovic, Mario; Ma'ayan, Avi Share Save
Predicting Lyme Disease From Patients' Peripheral Blood Mononuclear Cells Profiled With RNA-Sequencing Clarke, Daniel J. B.; Rebman, Alison W.; Bailey, Allison; Wojciechowicz, Megan L.; Jenkins, Sherry L.; Evangelista, John E.; Danieletto, Matteo; Fan, Jinshui; Eshoo, Mark W.; Mosel, Michael R.; Robinson, William; Ramadoss, Nitya; Bobe, Jason; Soloski, Mark J.; Aucott, John N.; Ma'ayan, Avi Share Save
Appyters: Turning Jupyter Notebooks into data-driven web apps 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 Share Save
FAIRshake: Toolkit to Evaluate the FAIRness of Research Digital Resources 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.; Azevedo, Ricardo de Miranda; 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 Share Save
The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations Keenan, Alexandra B.; Jenkins, Sherry L.; Jagodnik, Kathleen M.; Koplev, Simon; He, Edward; Torre, Denis; Wang, Zichen; Dohlman, Anders B.; Silverstein, Moshe C.; Lachmann, Alexander; Kuleshov, Maxim V.; Ma'ayan, Avi; Stathias, Vasileios; Terryn, Raymond; Cooper, Daniel; Forlin, Michele; Koleti, Amar; Vidovic, Dusica; Chung, Caty; Schurer, Stephan C.; Vasiliauskas, Jouzas; Pilarczyk, Marcin; Shamsaei, Behrouz; Fazel, Mehdi; Ren, Yan; Niu, Wen; Clark, Nicholas A.; White, Shana; Mahi, Naim; Zhang, Lixia; Kouril, Michal; Reichard, John F.; Sivaganesan, Siva; Medvedovic, Mario; Meller, Jaroslaw; Koch, Rick J.; Birtwistle, Marc R.; Iyengar, Ravi; Sobie, Eric A.; Azeloglu, Evren U.; Kaye, Julia; Osterloh, Jeannette; Haston, Kelly; Kalra, Jaslin; Finkbiener, Steve; Li, Jonathan; Milani, Pamela; Adam, Miriam; Escalante-Chong, Renan; Sachs, Karen; Lenail, Alex; Ramamoorthy, Divya; Fraenkel, Ernest; Daigle, Gavin; Hussain, Uzma; Coye, Alyssa; Rothstein, Jeffrey; Sareen, Dhruv; Ornelas, Loren; Banuelos, Maria; Mandefro, Berhan; Ho, Ritchie; Svendsen, Clive N.; Lim, Ryan G.; Casale, Malcolm S.; Thompson, Terri G.; Wu, Jie; Thompson, Leslie M.; Dardov, Victoria; Venkatraman, Vidya; Matlock, Andrea; Van Eyk, Jennifer E.; Jaffe, Jacob D.; Papanastasiou, Malvina; Subramanian, Aravind; Golub, Todd R.; Erickson, Sean D.; Fallahi-Sichani, Mohammad; Hafner, Marc; Gray, Nathanael S.; Lin, Jia-Ren; Mills, Caitlin E.; Muhlich, Jeremy L.; Niepel, Mario; Shamu, Caroline E.; Williams, Elizabeth H.; Wrobel, David; Sorger, Peter K.; Heiser, Laura M.; Gray, Joe W.; Korkola, James E.; Mills, Gordon B.; LaBarge, Mark; Feiler, Heidi S.; Dane, Mark A.; Bucher, Elmar; Nederlof, Michel; Sudar, Damir; Gross, Sean; Kilburn, David F.; Smith, Rebecca; Devlin, Kaylyn; Margolis, Ron; Derr, Leslie; Lee, Albert; Pillai, Ajay Share Save
Data Portal for the Library of Integrated Network-based Cellular Signatures (LINCS) program: integrated access to diverse large-scale cellular perturbation response data Koleti, Amar; Terryn, Raymond; Stathias, Vasileios; Chung, Caty; Cooper, Daniel J.; Turner, John P.; Vidovic, Dusica; 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; Schurer, Stephan C. Share Save
Developing a framework for digital objects in the Big Data to Knowledge (BD2K) commons: Report from the Commons Framework Pilots workshop Jagodnik, Kathleen M.; Koplev, Simon; Jenkins, Sherry L.; 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 Share Save
Extraction and analysis of signatures from the Gene Expression Omnibus by the crowd 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; Rose, Sophia M. Schussler-Fiorenza; Sharma, Shvetank; Schwartz, Uwe; Bengoetxea Bausela, Xabier; 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; Jueschke, Christoph; Dishuck, Philip C.; Lahl, Katharina; Jafari, Mohieddin; Aibar, Sara; Zaravinos, Apostolos; Steenhuizen, Linda H.; Allison, Lindsey R.; Gamallo, Pablo; de Andres Segura, Fernando; Devlin, Tyler Dae; Perez-Garcia, Vicente; Ma'ayan, Avi Share Save
Enrichr: a comprehensive gene set enrichment analysis web server 2016 update 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 Share Save
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