Search Results - "Levy, Shawn"

Advancements in Next-Generation Sequencing by Levy, Shawn E, Myers, Richard M

“…The term next-generation sequencing is almost a decade old, but it remains the colloquial way to describe highly parallel or high-output sequencing methods…”
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The Pan-ErbB Negative Regulator Lrig1 Is an Intestinal Stem Cell Marker that Functions as a Tumor Suppressor by Powell, Anne E., Wang, Yang, Li, Yina, Poulin, Emily J., Means, Anna L., Washington, Mary K., Higginbotham, James N., Juchheim, Alwin, Prasad, Nripesh, Levy, Shawn E., Guo, Yan, Shyr, Yu, Aronow, Bruce J., Haigis, Kevin M., Franklin, Jeffrey L., Coffey, Robert J.

“…Lineage mapping has identified both proliferative and quiescent intestinal stem cells, but the molecular circuitry controlling stem cell quiescence is…”
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A Molecular Genetic Basis Explaining Altered Bacterial Behavior in Space by Zea, Luis, Prasad, Nripesh, Levy, Shawn E, Stodieck, Louis, Jones, Angela, Shrestha, Shristi, Klaus, David

“…Bacteria behave differently in space, as indicated by reports of reduced lag phase, higher final cell counts, enhanced biofilm formation, increased virulence,…”
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Next-Generation Sequencing Strategies by Levy, Shawn E, Boone, Braden E

“…More than a decade ago, the term "next-generation" sequencing was coined to describe what was, at the time, revolutionary new methods to sequence RNA and DNA…”
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Islet Microenvironment, Modulated by Vascular Endothelial Growth Factor-A Signaling, Promotes β Cell Regeneration by Brissova, Marcela, Aamodt, Kristie, Brahmachary, Priyanka, Prasad, Nripesh, Hong, Ji-Young, Dai, Chunhua, Mellati, Mahnaz, Shostak, Alena, Poffenberger, Greg, Aramandla, Radhika, Levy, Shawn E., Powers, Alvin C.

“…Pancreatic islet endocrine cell and endothelial cell (EC) interactions mediated by vascular endothelial growth factor-A (VEGF-A) signaling are important for…”
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Genetic and Functional Drivers of Diffuse Large B Cell Lymphoma by Reddy, Anupama, Zhang, Jenny, Davis, Nicholas S., Moffitt, Andrea B., Love, Cassandra L., Waldrop, Alexander, Leppa, Sirpa, Pasanen, Annika, Meriranta, Leo, Karjalainen-Lindsberg, Marja-Liisa, Nørgaard, Peter, Pedersen, Mette, Gang, Anne O., Høgdall, Estrid, Heavican, Tayla B., Lone, Waseem, Iqbal, Javeed, Qin, Qiu, Li, Guojie, Kim, So Young, Healy, Jane, Richards, Kristy L., Fedoriw, Yuri, Bernal-Mizrachi, Leon, Koff, Jean L., Staton, Ashley D., Flowers, Christopher R., Paltiel, Ora, Goldschmidt, Neta, Calaminici, Maria, Clear, Andrew, Gribben, John, Nguyen, Evelyn, Czader, Magdalena B., Ondrejka, Sarah L., Collie, Angela, Hsi, Eric D., Tse, Eric, Au-Yeung, Rex K.H., Kwong, Yok-Lam, Srivastava, Gopesh, Choi, William W.L., Evens, Andrew M., Pilichowska, Monika, Sengar, Manju, Reddy, Nishitha, Li, Shaoying, Chadburn, Amy, Gordon, Leo I., Jaffe, Elaine S., Levy, Shawn, Rempel, Rachel, Tzeng, Tiffany, Happ, Lanie E., Dave, Tushar, Rajagopalan, Deepthi, Datta, Jyotishka, Dunson, David B., Dave, Sandeep S.

“…Diffuse large B cell lymphoma (DLBCL) is the most common form of blood cancer and is characterized by a striking degree of genetic and clinical heterogeneity…”
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Analysis of error profiles in deep next-generation sequencing data by Ma, Xiaotu, Shao, Ying, Tian, Liqing, Flasch, Diane A, Mulder, Heather L, Edmonson, Michael N, Liu, Yu, Chen, Xiang, Newman, Scott, Nakitandwe, Joy, Li, Yongjin, Li, Benshang, Shen, Shuhong, Wang, Zhaoming, Shurtleff, Sheila, Robison, Leslie L, Levy, Shawn, Easton, John, Zhang, Jinghui

“…Sequencing errors are key confounding factors for detecting low-frequency genetic variants that are important for cancer molecular diagnosis, treatment, and…”
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De novo gene mutations highlight patterns of genetic and neural complexity in schizophrenia by Xu, Bin, Ionita-Laza, Iuliana, Roos, J Louw, Boone, Braden, Woodrick, Scarlet, Sun, Yan, Levy, Shawn, Gogos, Joseph A, Karayiorgou, Maria

“…Maria Karayiorgou, Joseph Gogos and colleagues report exome sequencing of 231 individuals with schizophrenia and their unaffected parents. They observed an…”
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α Cell Function and Gene Expression Are Compromised in Type 1 Diabetes by Brissova, Marcela, Haliyur, Rachana, Saunders, Diane, Shrestha, Shristi, Dai, Chunhua, Blodgett, David M., Bottino, Rita, Campbell-Thompson, Martha, Aramandla, Radhika, Poffenberger, Gregory, Lindner, Jill, Pan, Fong Cheng, von Herrath, Matthias G., Greiner, Dale L., Shultz, Leonard D., Sanyoura, May, Philipson, Louis H., Atkinson, Mark, Harlan, David M., Levy, Shawn E., Prasad, Nripesh, Stein, Roland, Powers, Alvin C.

“…Many patients with type 1 diabetes (T1D) have residual β cells producing small amounts of C-peptide long after disease onset but develop an inadequate glucagon…”
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Age-dependent human β cell proliferation induced by glucagon-like peptide 1 and calcineurin signaling by Dai, Chunhua, Hang, Yan, Shostak, Alena, Poffenberger, Greg, Hart, Nathaniel, Prasad, Nripesh, Phillips, Neil, Levy, Shawn E, Greiner, Dale L, Shultz, Leonard D, Bottino, Rita, Kim, Seung K, Powers, Alvin C

“…Inadequate pancreatic β cell function underlies type 1 and type 2 diabetes mellitus. Strategies to expand functional cells have focused on discovering and…”
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A cell-based systems biology assessment of human blood to monitor immune responses after influenza vaccination by Hoek, Kristen L, Samir, Parimal, Howard, Leigh M, Niu, Xinnan, Prasad, Nripesh, Galassie, Allison, Liu, Qi, Allos, Tara M, Floyd, Kyle A, Guo, Yan, Shyr, Yu, Levy, Shawn E, Joyce, Sebastian, Edwards, Kathryn M, Link, Andrew J

“…Systems biology is an approach to comprehensively study complex interactions within a biological system. Most published systems vaccinology studies have…”
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Comprehensive benchmarking and ensemble approaches for metagenomic classifiers by McIntyre, Alexa B R, Ounit, Rachid, Afshinnekoo, Ebrahim, Prill, Robert J, Hénaff, Elizabeth, Alexander, Noah, Minot, Samuel S, Danko, David, Foox, Jonathan, Ahsanuddin, Sofia, Tighe, Scott, Hasan, Nur A, Subramanian, Poorani, Moffat, Kelly, Levy, Shawn, Lonardi, Stefano, Greenfield, Nick, Colwell, Rita R, Rosen, Gail L, Mason, Christopher E

“…One of the main challenges in metagenomics is the identification of microorganisms in clinical and environmental samples. While an extensive and heterogeneous…”
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A signalling cascade of IL-33 to IL-13 regulates metaplasia in the mouse stomach by Petersen, Christine P, Meyer, Anne R, De Salvo, Carlo, Choi, Eunyoung, Schlegel, Cameron, Petersen, Alec, Engevik, Amy C, Prasad, Nripesh, Levy, Shawn E, Peebles, R Stokes, Pizarro, Theresa T, Goldenring, James R

“…Alternatively activated macrophages (M2) are associated with the progression of spasmolytic polypeptide-expressing metaplasia (SPEM) in the stomach. However,…”
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Interrupted Glucagon Signaling Reveals Hepatic α Cell Axis and Role for L-Glutamine in α Cell Proliferation by Dean, E. Danielle, Li, Mingyu, Prasad, Nripesh, Wisniewski, Scott N., Von Deylen, Alison, Spaeth, Jason, Maddison, Lisette, Botros, Anthony, Sedgeman, Leslie R., Bozadjieva, Nadejda, Ilkayeva, Olga, Coldren, Anastasia, Poffenberger, Greg, Shostak, Alena, Semich, Michael C., Aamodt, Kristie I., Phillips, Neil, Yan, Hai, Bernal-Mizrachi, Ernesto, Corbin, Jackie D., Vickers, Kasey C., Levy, Shawn E., Dai, Chunhua, Newgard, Christopher, Gu, Wei, Stein, Roland, Chen, Wenbiao, Powers, Alvin C.

“…Decreasing glucagon action lowers the blood glucose and may be useful therapeutically for diabetes. However, interrupted glucagon signaling leads to α cell…”
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The mammalian LINC complex regulates genome transcriptional responses to substrate rigidity by Alam, Samer G., Zhang, Qiao, Prasad, Nripesh, Li, Yuan, Chamala, Srikar, Kuchibhotla, Ram, KC, Birendra, Aggarwal, Varun, Shrestha, Shristi, Jones, Angela L., Levy, Shawn E., Roux, Kyle J., Nickerson, Jeffrey A., Lele, Tanmay P.

“…Mechanical integration of the nucleus with the extracellular matrix (ECM) is established by linkage between the cytoskeleton and the nucleus. This integration…”
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Cell-Based Systems Biology Analysis of Human AS03-Adjuvanted H5N1 Avian Influenza Vaccine Responses: A Phase I Randomized Controlled Trial by Howard, Leigh M, Hoek, Kristen L, Goll, Johannes B, Samir, Parimal, Galassie, Allison, Allos, Tara M, Niu, Xinnan, Gordy, Laura E, Creech, C Buddy, Prasad, Nripesh, Jensen, Travis L, Hill, Heather, Levy, Shawn E, Joyce, Sebastian, Link, Andrew J, Edwards, Kathryn M

“…Vaccine development for influenza A/H5N1 is an important public health priority, but H5N1 vaccines are less immunogenic than seasonal influenza vaccines…”
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Spaceflight Modifies Escherichia coli Gene Expression in Response to Antibiotic Exposure and Reveals Role of Oxidative Stress Response by Aunins, Thomas R, Erickson, Keesha E, Prasad, Nripesh, Levy, Shawn E, Jones, Angela, Shrestha, Shristi, Mastracchio, Rick, Stodieck, Louis, Klaus, David, Zea, Luis, Chatterjee, Anushree

“…Bacteria grown in space experiments under microgravity conditions have been found to undergo unique physiological responses, ranging from modified cell…”
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A Neurodegeneration-Specific Gene-Expression Signature of Acutely Isolated Microglia from an Amyotrophic Lateral Sclerosis Mouse Model by Chiu, Isaac M., Morimoto, Emiko T.A., Goodarzi, Hani, Liao, Jennifer T., O’Keeffe, Sean, Phatnani, Hemali P., Muratet, Michael, Carroll, Michael C., Levy, Shawn, Tavazoie, Saeed, Myers, Richard M., Maniatis, Tom

“…Microglia are resident immune cells of the CNS that are activated by infection, neuronal injury, and inflammation. Here, we utilize flow cytometry and deep RNA…”
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Ecophysiological Examination of the Lake Erie Microcystis Bloom in 2014: Linkages between Biology and the Water Supply Shutdown of Toledo, OH by Steffen, Morgan M., Davis, Timothy W., McKay, R. Michael L., Bullerjahn, George S., Krausfeldt, Lauren E., Stough, Joshua M.A., Neitzey, Michelle L., Gilbert, Naomi E., Boyer, Gregory L., Johengen, Thomas H., Gossiaux, Duane C., Burtner, Ashley M., Palladino, Danna, Rowe, Mark D., Dick, Gregory J., Meyer, Kevin A., Levy, Shawn, Boone, Braden E., Stumpf, Richard P., Wynne, Timothy T., Zimba, Paul V., Gutierrez, Danielle, Wilhelm, Steven W.

“…Annual cyanobacterial blooms dominated by Microcystis have occurred in western Lake Erie (U.S./Canada) during summer months since 1995. The production of…”
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KRAS-dependent sorting of miRNA to exosomes by Cha, Diana J, Franklin, Jeffrey L, Dou, Yongchao, Liu, Qi, Higginbotham, James N, Demory Beckler, Michelle, Weaver, Alissa M, Vickers, Kasey, Prasad, Nirpesh, Levy, Shawn, Zhang, Bing, Coffey, Robert J, Patton, James G

“…Mutant KRAS colorectal cancer (CRC) cells release protein-laden exosomes that can alter the tumor microenvironment. To test whether exosomal RNAs also…”
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