Search Results - "Powers, Rani K."

Next-Generation Machine Learning for Biological Networks by Camacho, Diogo M., Collins, Katherine M., Powers, Rani K., Costello, James C., Collins, James J.

“…Machine learning, a collection of data-analytical techniques aimed at building predictive models from multi-dimensional datasets, is becoming integral to…”
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Mechanical control of innate immune responses against viral infection revealed in a human lung alveolus chip by Bai, Haiqing, Si, Longlong, Jiang, Amanda, Belgur, Chaitra, Zhai, Yunhao, Plebani, Roberto, Oh, Crystal Yuri, Rodas, Melissa, Patil, Aditya, Nurani, Atiq, Gilpin, Sarah E., Powers, Rani K., Goyal, Girija, Prantil-Baun, Rachelle, Ingber, Donald E.

“…Mechanical breathing motions have a fundamental function in lung development and disease, but little is known about how they contribute to host innate…”
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A human-airway-on-a-chip for the rapid identification of candidate antiviral therapeutics and prophylactics by Si, Longlong, Bai, Haiqing, Rodas, Melissa, Cao, Wuji, Oh, Crystal Yuri, Jiang, Amanda, Moller, Rasmus, Hoagland, Daisy, Oishi, Kohei, Horiuchi, Shu, Uhl, Skyler, Blanco-Melo, Daniel, Albrecht, Randy A., Liu, Wen-Chun, Jordan, Tristan, Nilsson-Payant, Benjamin E., Golynker, Ilona, Frere, Justin, Logue, James, Haupt, Robert, McGrath, Marisa, Weston, Stuart, Zhang, Tian, Plebani, Roberto, Soong, Mercy, Nurani, Atiq, Kim, Seong Min, Zhu, Danni Y., Benam, Kambez H., Goyal, Girija, Gilpin, Sarah E., Prantil-Baun, Rachelle, Gygi, Steven P., Powers, Rani K., Carlson, Kenneth E., Frieman, Matthew, tenOever, Benjamin R., Ingber, Donald E.

“…The rapid repurposing of antivirals is particularly pressing during pandemics. However, rapid assays for assessing candidate drugs typically involve in vitro…”
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Trisomy 21 activates the kynurenine pathway via increased dosage of interferon receptors by Powers, Rani K., Culp-Hill, Rachel, Ludwig, Michael P., Smith, Keith P., Waugh, Katherine A., Minter, Ross, Tuttle, Kathryn D., Lewis, Hannah C., Rachubinski, Angela L., Granrath, Ross E., Carmona-Iragui, María, Wilkerson, Rebecca B., Kahn, Darcy E., Joshi, Molishree, Lleó, Alberto, Blesa, Rafael, Fortea, Juan, D’Alessandro, Angelo, Costello, James C., Sullivan, Kelly D., Espinosa, Joaquin M.

“…Trisomy 21 (T21) causes Down syndrome (DS), affecting immune and neurological function by ill-defined mechanisms. Here we report a large metabolomics study of…”
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Metastatic cells are preferentially vulnerable to lysosomal inhibition by Morgan, Michael J., Fitzwalter, Brent E., Owens, Charles R., Powers, Rani K., Sottnik, Joseph L., Gamez, Graciela, Costello, James C., Theodorescu, Dan, Thorburn, Andrew

“…Molecular alterations that confer phenotypic advantages to tumors can also expose specific therapeutic vulnerabilities. To search for potential treatments that…”
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Sequential specification of oligodendrocyte lineage cells by distinct levels of Hedgehog and Notch signaling by Ravanelli, Andrew M., Kearns, Christina A., Powers, Rani K., Wang, Yuying, Hines, Jacob H., Donaldson, Maranda J., Appel, Bruce

“…During development of the central nervous system oligodendrocyte precursor cells (OPCs) give rise to both myelinating oligodendrocytes and NG2 glia, which are…”
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Target-agnostic drug prediction integrated with medical record analysis uncovers differential associations of statins with increased survival in COVID-19 patients by Sperry, Megan M, Oskotsky, Tomiko T, Marić, Ivana, Kaushal, Shruti, Takeda, Takako, Horvath, Viktor, Powers, Rani K, Rodas, Melissa, Furlong, Brooke, Soong, Mercy, Prabhala, Pranav, Goyal, Girija, Carlson, Kenneth E, Wong, Ronald J, Kosti, Idit, Le, Brian L, Logue, James, Hammond, Holly, Frieman, Matthew, Stevenson, David K, Ingber, Donald E, Sirota, Marina, Novak, Richard

“…Drug repurposing requires distinguishing established drug class targets from novel molecule-specific mechanisms and rapidly derisking their therapeutic…”
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Semi-Supervised Learning Using Hierarchical Mixture Models: Gene Essentiality Case Study by Daniels, Michael W., Dvorkin, Daniel, Powers, Rani K., Kechris, Katerina

“…Integrating gene-level data is useful for predicting the role of genes in biological processes. This problem has typically focused on supervised…”
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SOPHIE: Generative Neural Networks Separate Common and Specific Transcriptional Responses by Lee, Alexandra J., Mould, Dallas L., Crawford, Jake, Hu, Dongbo, Powers, Rani K., Doing, Georgia, Costello, James C., Hogan, Deborah A., Greene, Casey S.

“…Genome-wide transcriptome profiling identifies genes that are prone to differential expression (DE) across contexts, as well as genes with changes specific to…”
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GSEA-InContext: identifying novel and common patterns in expression experiments by Powers, Rani K, Goodspeed, Andrew, Pielke-Lombardo, Harrison, Tan, Aik-Choon, Costello, James C

“…Abstract Motivation Gene Set Enrichment Analysis (GSEA) is routinely used to analyze and interpret coordinate pathway-level changes in transcriptomics…”
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Deep-Learning Resources for Studying Glycan-Mediated Host-Microbe Interactions by Bojar, Daniel, Powers, Rani K., Camacho, Diogo M., Collins, James J.

“…Glycans, the most diverse biopolymer, are shaped by evolutionary pressures stemming from host-microbe interactions. Here, we present machine learning and…”
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Eya3 promotes breast tumor-associated immune suppression via threonine phosphatase-mediated PD-L1 upregulation by Vartuli, Rebecca L, Zhou, Hengbo, Zhang, Lingdi, Powers, Rani K, Klarquist, Jared, Rudra, Pratyaydipta, Vincent, Melanie Y, Ghosh, Debashis, Costello, James C, Kedl, Ross M, Slansky, Jill E, Zhao, Rui, Ford, Heide L

“…Eya proteins are critical developmental regulators that are highly expressed in embryogenesis but downregulated after development. Amplification and/or…”
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Nutritional deficiency in an intestine-on-a-chip recapitulates injury hallmarks associated with environmental enteric dysfunction by Bein, Amir, Fadel, Cicely W., Swenor, Ben, Cao, Wuji, Powers, Rani K., Camacho, Diogo M., Naziripour, Arash, Parsons, Andrew, LoGrande, Nina, Sharma, Sanjay, Kim, Seongmin, Jalili-Firoozinezhad, Sasan, Grant, Jennifer, Breault, David T., Iqbal, Junaid, Ali, Asad, Denson, Lee A., Moore, Sean R., Prantil-Baun, Rachelle, Goyal, Girija, Ingber, Donald E.

“…Environmental enteric dysfunction (EED)—a chronic inflammatory condition of the intestine—is characterized by villus blunting, compromised intestinal barrier…”
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