Search Results - "Rothberg, M"

Progress in Ion Torrent semiconductor chip based sequencing by Merriman, Barry, R&D Team, Ion Torrent, Rothberg, Jonathan M.

“…In order for next‐generation sequencing to become widely used as a diagnostic in the healthcare industry, sequencing instrumentation will need to be mass…”
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Prospective genomic characterization of the German enterohemorrhagic Escherichia coli O104:H4 outbreak by rapid next generation sequencing technology by Mellmann, Alexander, Harmsen, Dag, Cummings, Craig A, Zentz, Emily B, Leopold, Shana R, Rico, Alain, Prior, Karola, Szczepanowski, Rafael, Ji, Yongmei, Zhang, Wenlan, McLaughlin, Stephen F, Henkhaus, John K, Leopold, Benjamin, Bielaszewska, Martina, Prager, Rita, Brzoska, Pius M, Moore, Richard L, Guenther, Simone, Rothberg, Jonathan M, Karch, Helge

“…An ongoing outbreak of exceptionally virulent Shiga toxin (Stx)-producing Escherichia coli O104:H4 centered in Germany, has caused over 830 cases of hemolytic…”
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Acidity Generated by the Tumor Microenvironment Drives Local Invasion by ESTRELLA, Veronica, TINGAN CHEN, JOHNSON, Joseph, GATENBY, Robert A, GILLIES, Robert J, LLOYD, Mark, WOJTKOWIAK, Jonathan, CORNNELL, Heather H, IBRAHIM-HASHIM, Arig, BAILEY, Kate, BALAGURUNATHAN, Yoganand, ROTHBERG, Jennifer M, SLOANE, Bonnie F

“…The pH of solid tumors is acidic due to increased fermentative metabolism and poor perfusion. It has been hypothesized that acid pH promotes local invasive…”
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Droplet microfluidic technology for single-cell high-throughput screening by Brouzes, Eric, Medkova, Martina, Savenelli, Neal, Marran, Dave, Twardowski, Mariusz, Hutchison, J. Brian, Rothberg, Jonathan M, Link, Darren R, Perrimon, Norbert, Samuels, Michael L

“…We present a droplet-based microfluidic technology that enables high-throughput screening of single mammalian cells. This integrated platform allows for the…”
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Impaired Mitochondrial Dynamics and Mitophagy in Neuronal Models of Tuberous Sclerosis Complex by Ebrahimi-Fakhari, Darius, Saffari, Afshin, Wahlster, Lara, Di Nardo, Alessia, Turner, Daria, Lewis, Tommy L., Conrad, Christopher, Rothberg, Jonathan M., Lipton, Jonathan O., Kölker, Stefan, Hoffmann, Georg F., Han, Min-Joon, Polleux, Franck, Sahin, Mustafa

“…Tuberous sclerosis complex (TSC) is a neurodevelopmental disease caused by TSC1 or TSC2 mutations and subsequent activation of the mTORC1 kinase. Upon mTORC1…”
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Ultrasound-on-chip platform for medical imaging, analysis, and collective intelligence by Rothberg, Jonathan M., Ralston, Tyler S., Rothberg, Alex G., Martin, John, Zahorian, Jaime S., Alie, Susan A., Sanchez, Nevada J., Chen, Kailiang, Chen, Chao, Thiele, Karl, Grosjean, David, Yang, Jungwook, Bao, Liewei, Schneider, Rob, Schaetz, Sebastian, Meyer, Christophe, Neben, Abraham, Ryan, Bob, Petrus, J. R., Lutsky, Joe, McMahill, Dan, Corteville, Gregory, Hageman, Matthew R., Miller, Larry, Fife, Keith G.

“…Over the past half-century, ultrasound imaging has become a key technology for assessing an ever-widening range of medical conditions at all stages of life…”
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Chronic Autophagy Is a Cellular Adaptation to Tumor Acidic pH Microenvironments by WOJTKOWIAK, Jonathan W, ROTHBERG, Jennifer M, KUMAR, Virendra, SCHRAMM, Karla J, HALLER, Edward, PROEMSEY, Joshua B, LLOYD, Mark C, SLOANE, Bonnie F, GILLIES, Robert J

“…Tumor cell survival relies upon adaptation to the acidic conditions of the tumor microenvironment. To investigate potential acidosis survival mechanisms, we…”
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A Complete Neandertal Mitochondrial Genome Sequence Determined by High-Throughput Sequencing by Green, Richard E., Malaspinas, Anna-Sapfo, Krause, Johannes, Briggs, Adrian W., Johnson, Philip L.F., Uhler, Caroline, Meyer, Matthias, Good, Jeffrey M., Maricic, Tomislav, Stenzel, Udo, Prüfer, Kay, Siebauer, Michael, Burbano, Hernán A., Ronan, Michael, Rothberg, Jonathan M., Egholm, Michael, Rudan, Pavao, Brajković, Dejana, Kućan, Željko, Gušić, Ivan, Wikström, Mårten, Laakkonen, Liisa, Kelso, Janet, Slatkin, Montgomery, Pääbo, Svante

“…A complete mitochondrial (mt) genome sequence was reconstructed from a 38,000 year-old Neandertal individual with 8341 mtDNA sequences identified among 4.8 Gb…”
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Gaining confidence in high-throughput protein interaction networks by Bader, Joel S, Chaudhuri, Amitabha, Rothberg, Jonathan M, Chant, John

“…Although genome-scale technologies have benefited from statistical measures of data quality, extracting biologically relevant pathways from high-throughput…”
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The complete genome of an individual by massively parallel DNA sequencing by Lupski, James R, Rothberg, Jonathan M, Shen, Yufeng, Chen, Yi-Ju, Turcotte, Cynthia L, Tartaro, Karrie, Irzyk, Gerard P, Wheeler, David A, Gomes, Xavier, Yuan, Ye, Qin, Xiang, Chinault, Craig, Weinstock, George M, Song, Xing-zhi, Chen, Lei, Srinivasan, Maithreyan, He, Wen, Liu, Yue, Muzny, Donna M, Gibbs, Richard A, Niazi, Faheem, Margulies, Marcel, Roth, G. Thomas, Makhijani, Vinod, Nazareth, Lynne, McGuire, Amy, Egholm, Michael

“…The association of genetic variation with disease and drug response, and improvements in nucleic acid technologies, have given great optimism for the impact of…”
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High-Throughput Quantitative Polymerase Chain Reaction in Picoliter Droplets by Kiss, Margaret Macris, Ortoleva-Donnelly, Lori, Beer, N. Reginald, Warner, Jason, Bailey, Christopher G, Colston, Bill W, Rothberg, Jonathon M, Link, Darren R, Leamon, John H

“…Limiting dilution PCR has become an increasingly useful technique for the detection and quantification of rare species in a population, but the limit of…”
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Low-Abundance Drug-Resistant Viral Variants in Chronically HIV-Infected, Antiretroviral Treatment–Naive Patients Significantly Impact Treatment Outcomes by Simen, Birgitte B., Simons, Jan Fredrik, Hullsiek, Katherine Huppler, Novak, Richard M., MacArthur, Rodger D., Baxter, John D., Huang, Chunli, Lubeski, Christine, Turenchalk, Gregory S., Braverman, Michael S., Desany, Brian, Rothberg, Jonathan M., Egholm, Michael

“…BackgroundMinor (i.e., <20% prevalence) drug-resistant human immunodeficiency virus (HIV) variants may go undetected, yet be clinically important ObjectivesTo…”
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Analysis of one million base pairs of Neanderthal DNA by Ronan, Michael T, Egholm, Michael, Paunovic, Maja, Pääbo, Svante, Green, Richard E, Ptak, Susan E, Rothberg, Jonathan M, Briggs, Adrian W, Simons, Jan F, Krause, Johannes, Du, Lei

“…Neanderthals are the extinct hominid group most closely related to contemporary humans, so their genome offers a unique opportunity to identify genetic changes…”
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A decision model to estimate a risk threshold for venous thromboembolism prophylaxis in hospitalized medical patients by Le, P., Martinez, K. A., Pappas, M. A., Rothberg, M. B.

“…Essentials Low risk patients don't require venous thromboembolism (VTE) prophylaxis; low risk is unquantified. We used a Markov model to estimate the risk…”
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Acid-Mediated Tumor Proteolysis: Contribution of Cysteine Cathepsins by Rothberg, Jennifer M, Bailey, Kate M, Wojtkowiak, Jonathan W, Ben-Nun, Yael, Bogyo, Matthew, Weber, Ekkehard, Moin, Kamiar, Blum, Galia, Mattingly, Raymond R, Gillies, Robert J, Sloane, Bonnie F

“…One of the noncellular microenvironmental factors that contribute to malignancy of solid tumors is acidic peritumoral pH. We have previously demonstrated that…”
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Assessment of whole genome amplification-induced bias through high-throughput, massively parallel whole genome sequencing by Pinard, Robert, de Winter, Alex, Sarkis, Gary J, Gerstein, Mark B, Tartaro, Karrie R, Plant, Ramona N, Egholm, Michael, Rothberg, Jonathan M, Leamon, John H

“…Whole genome amplification is an increasingly common technique through which minute amounts of DNA can be multiplied to generate quantities suitable for…”
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A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae by Fields, Stanley, Uetz, Peter, Giot, Loic, Cagney, Gerard, Mansfield, Traci A, Judson, Richard S, Knight, James R, Lockshon, Daniel, Narayan, Vaibhav, Srinivasan, Maithreyan, Pochart, Pascale, Qureshi-Emili, Alia, Li, Ying, Godwin, Brian, Conover, Diana, Kalbfleisch, Theodore, Vijayadamodar, Govindan, Yang, Meijia, Johnston, Mark, Rothberg, Jonathan M

“…Two large-scale yeast two-hybrid screens were undertaken to identify protein-protein interactions between full-length open reading frames predicted from the…”
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Global neuropathologic severity of Alzheimer's disease and locus coeruleus vulnerability influences plasma phosphorylated tau levels by Murray, Melissa E, Moloney, Christina M, Kouri, Naomi, Syrjanen, Jeremy A, Matchett, Billie J, Rothberg, Darren M, Tranovich, Jessica F, Sirmans, Tiffany N Hicks, Wiste, Heather J, Boon, Baayla D C, Nguyen, Aivi T, Reichard, R Ross, Dickson, Dennis W, Lowe, Val J, Dage, Jeffrey L, Petersen, Ronald C, Jack, Jr, Clifford R, Knopman, David S, Vemuri, Prashanthi, Graff-Radford, Jonathan, Mielke, Michelle M

“…Advances in ultrasensitive detection of phosphorylated tau (p-tau) in plasma has enabled the use of blood tests to measure Alzheimer's disease (AD) biomarker…”
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Cost-Effectiveness of a Vaccine to Prevent Herpes Zoster and Postherpetic Neuralgia in Older Adults by Rothberg, Michael B., Virapongse, Anunta, Smith, Kenneth J.

“…Background.A vaccine to prevent herpes zoster was recently approved by the United States Food and Drug Administration. We sought to determine the…”
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Patterns of Nucleotide Misincorporations during Enzymatic Amplification and Direct Large-scale Sequencing of Ancient DNA by Stiller, M., Green, R. E., Ronan, M., Simons, J. F., Du, L., He, W., Egholm, M., Rothberg, J. M., Keats, S. G., Ovodov, N. D., Antipina, E. E., Baryshnikov, G. F., Kuzmin, Y. V., Vasilevski, A. A., Wuenschell, G. E., Termini, J., Hofreiter, M., Jaenicke-Després, V., Pääbo, S.

“…Whereas evolutionary inferences derived from present-day DNA sequences are by necessity indirect, ancient DNA sequences provide a direct view of past genetic…”
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