Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool
Chen, Edward Y, Tan, Christopher M, Kou, Yan, Duan, Qiaonan, Wang, Zichen, Meirelles, Gabriela Vaz, Clark, Neil R, Ma'ayan, Avi
Published in BMC bioinformatics (15.04.2013)
Published in BMC bioinformatics (15.04.2013)
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Journal Article
Induction of a Hemogenic Program in Mouse Fibroblasts
Pereira, Carlos-Filipe, Chang, Betty, Qiu, Jiajing, Niu, Xiaohong, Papatsenko, Dmitri, Hendry, Caroline E., Clark, Neil R., Nomura-Kitabayashi, Aya, Kovacic, Jason C., Ma’ayan, Avi, Schaniel, Christoph, Lemischka, Ihor R., Moore, Kateri
Published in Cell stem cell (01.08.2013)
Published in Cell stem cell (01.08.2013)
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Journal Article
The characteristic direction: a geometrical approach to identify differentially expressed genes
Clark, Neil R, Hu, Kevin S, Feldmann, Axel S, Kou, Yan, Chen, Edward Y, Duan, Qiaonan, Ma'ayan, Avi
Published in BMC bioinformatics (21.03.2014)
Published in BMC bioinformatics (21.03.2014)
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Journal Article
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, 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
Published in Nature communications (26.09.2016)
Published in Nature communications (26.09.2016)
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Journal Article
Renoprotective Effect of Combined Inhibition of Angiotensin-Converting Enzyme and Histone Deacetylase
YIFEI ZHONG, CHEN, Edward Y, JOHN CIJIANG HE, RUIJIE LIU, CHUANG, Peter Y, MALLIPATTU, Sandeep K, TAN, Christopher M, CLARK, Neil R, YUEYI DENG, KLOTMAN, Paul E, MA'AYAN, Avi
Published in Journal of the American Society of Nephrology (01.05.2013)
Published in Journal of the American Society of Nephrology (01.05.2013)
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Journal Article
Drug-induced adverse events prediction with the LINCS L1000 data
Wang, Zichen, Clark, Neil R, Ma'ayan, Avi
Published in Bioinformatics (Oxford, England) (01.08.2016)
Published in Bioinformatics (Oxford, England) (01.08.2016)
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Journal Article
Proteomics analysis of the non-muscle myosin heavy chain IIa-enriched actin-myosin complex reveals multiple functions within the podocyte
Hays, Thomas, Ma'ayan, Avi, Clark, Neil R, Tan, Christopher M, Teixeira, Avelino, Teixeira, Angela, Choi, Jae W, Burdis, Nora, Jung, Sung Yun, Bajaj, Amol O, O'Malley, Bert W, He, John C, Hyink, Deborah P, Klotman, Paul E
Published in PloS one (20.06.2014)
Published in PloS one (20.06.2014)
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Journal Article
Recovering protein-protein and domain-domain interactions from aggregation of IP-MS proteomics of coregulator complexes
Mazloom, Amin R, Dannenfelser, Ruth, Clark, Neil R, Grigoryan, Arsen V, Linder, Kathryn M, Cardozo, Timothy J, Bond, Julia C, Boran, Aislyn D W, Iyengar, Ravi, Malovannaya, Anna, Lanz, Rainer B, Ma'ayan, Avi
Published in PLoS computational biology (01.12.2011)
Published in PLoS computational biology (01.12.2011)
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Journal Article
Lean Big Data integration in systems biology and systems pharmacology
Ma’ayan, Avi, Rouillard, Andrew D, Clark, Neil R, Wang, Zichen, Duan, Qiaonan, Kou, Yan
Published in Trends in pharmacological sciences (Regular ed.) (01.09.2014)
Published in Trends in pharmacological sciences (Regular ed.) (01.09.2014)
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Journal Article
Integration of protein phosphorylation, acetylation, and methylation data sets to outline lung cancer signaling networks
Grimes, Mark, Hall, Benjamin, Foltz, Lauren, Levy, Tyler, Rikova, Klarisa, Gaiser, Jeremiah, Cook, William, Smirnova, Ekaterina, Wheeler, Travis, Clark, Neil R, Lachmann, Alexander, Zhang, Bin, Hornbeck, Peter, Ma'ayan, Avi, Comb, Michael
Published in Science signaling (22.05.2018)
Published in Science signaling (22.05.2018)
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Journal Article
Glucocorticoid receptor isoforms direct distinct mitochondrial programs to regulate ATP production
Morgan, David J, Poolman, Toryn M, Williamson, Andrew J K, Wang, Zichen, Clark, Neil R, Ma'ayan, Avi, Whetton, Anthony D, Brass, Andrew, Matthews, Laura C, Ray, David W
Published in Scientific reports (26.05.2016)
Published in Scientific reports (26.05.2016)
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Journal Article
Network2Canvas: network visualization on a canvas with enrichment analysis
Tan, Christopher M, Chen, Edward Y, Dannenfelser, Ruth, Clark, Neil R, Ma'ayan, Avi
Published in Bioinformatics (01.08.2013)
Published in Bioinformatics (01.08.2013)
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Journal Article
Cell-specific prediction and application of drug-induced gene expression profiles
Hodos, Rachel, Zhang, Ping, Lee, Hao-Chih, Duan, Qiaonan, Wang, Zichen, Clark, Neil R, Ma'ayan, Avi, Wang, Fei, Kidd, Brian, Hu, Jianying, Sontag, David, Dudley, Joel
Published in Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (2018)
Published in Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (2018)
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Journal Article
Scaffold hopping approach on the route to selective tankyrase inhibitors
Liscio, Paride, Carotti, Andrea, Asciutti, Stefania, Ferri, Martina, Pires, Maira M., Valloscuro, Sara, Ziff, Jacob, Clark, Neil R., Macchiarulo, Antonio, Aaronson, Stuart A., Pellicciari, Roberto, Camaioni, Emidio
Published in European journal of medicinal chemistry (24.11.2014)
Published in European journal of medicinal chemistry (24.11.2014)
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Journal Article
Sets2Networks: network inference from repeated observations of sets
Clark, Neil R, Dannenfelser, Ruth, Tan, Christopher M, Komosinski, Michael E, Ma'ayan, Avi
Published in BMC systems biology (23.07.2012)
Published in BMC systems biology (23.07.2012)
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