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Jeremy paige

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https://www.readbyqxmd.com/read/27807835/complete-transcriptome-rna-seq
#1
David F B Miller, Pearlly Yan, Fang Fang, Aaron Buechlein, Karl Kroll, David Frankhouser, Cameron Stump, Paige Stump, James B Ford, Haixu Tang, Scott Michaels, Daniela Matei, Tim H Huang, Jeremy Chien, Yunlong Liu, Douglas B Rusch, Kenneth P Nephew
RNA-Seq is the leading technology for analyzing gene expression on a global scale across a broad spectrum of sample types. However, due to chemical modifications by fixation or degradation due to collection methods, samples often contain an abundance of RNA that is no longer intact, and the capability of current RNA-Seq protocols to accurately quantify such samples is often limited. We have developed an RNA-Seq protocol to address these key issues as well as quantify gene expression from the whole transcriptome...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27744559/performance-of-computed-tomography-of-the-head-to-evaluate-for-skull-fractures-in-infants-with-suspected-non-accidental-trauma
#2
Paige A Culotta, James E Crowe, Quynh-Anh Tran, Jeremy Y Jones, Amy R Mehollin-Ray, H Brandon Tran, Marcella Donaruma-Kwoh, Cristina T Dodge, Elizabeth A Camp, Andrea T Cruz
BACKGROUND: Young children with suspected abusive head trauma often receive skull radiographs to evaluate for fractures as well as computed tomography (CT) of the head to assess for intracranial injury. Using a CT as the primary modality to evaluate both fracture and intracranial injury could reduce exposure to radiation without sacrificing performance. OBJECTIVE: To evaluate the sensitivity of CT head with (3-D) reconstruction compared to skull radiographs to identify skull fractures in children with suspected abusive head trauma...
October 15, 2016: Pediatric Radiology
https://www.readbyqxmd.com/read/27023833/travel-associated-zika-virus-disease-cases-among-u-s-residents-united-states-january-2015-february-2016
#3
Paige Armstrong, Morgan Hennessey, Monica Adams, Cara Cherry, Sophia Chiu, Alexia Harrist, Natalie Kwit, Lillianne Lewis, Dana Olzenak McGuire, Titilope Oduyebo, Kate Russell, Pamela Talley, Mary Tanner, Charnetta Williams
Zika virus is an emerging mosquito-borne flavivirus. Recent outbreaks of Zika virus disease in the Pacific Islands and the Region of the Americas have identified new modes of transmission and clinical manifestations, including adverse pregnancy outcomes. However, data on the epidemiology and clinical findings of laboratory-confirmed Zika virus disease remain limited. During January 1, 2015-February 26, 2016, a total of 116 residents of 33 U.S. states and the District of Columbia had laboratory evidence of recent Zika virus infection based on testing performed at CDC...
2016: MMWR. Morbidity and Mortality Weekly Report
https://www.readbyqxmd.com/read/26562698/effects-of-brief-messaging-about-undiagnosed-infections-detected-through-hiv-testing-among-black-and-latino-men-who-have-sex-with-men-in-the-united-states
#4
Gordon Mansergh, Paige Miller, Jeffrey H Herbst, Matthew J Mimiaga, Jeremy Holman
We examined intent to get tested for HIV infection and use condoms among n = 604 uninfected black and Latino men who have sex with men after receiving brief information messaging that 1 in 10 minority men who have sex with men had HIV infection and did not know it. Information awareness, newness, believability, HIV testing cost willingness, and associated demographic variables were also assessed.
December 2015: Sexually Transmitted Diseases
https://www.readbyqxmd.com/read/26387627/recommendations-for-the-use-of-eliglustat-in-the-treatment-of-adults-with-gaucher-disease-type-1-in-the-united-states
#5
REVIEW
Manisha Balwani, Thomas Andrew Burrow, Joel Charrow, Ozlem Goker-Alpan, Paige Kaplan, Priya S Kishnani, Pramod Mistry, Jeremy Ruskin, Neal Weinreb
In Gaucher disease, deficient activity of acid β-glucosidase results in accumulation of its substrates, glucosylceramide and glucosylsphingosine, within the lysosomes of cells primarily in the spleen, liver, bone marrow, and occasionally the lung. The multisystem disease is predominantly characterized by hepatosplenomegaly, anemia, thrombocytopenia, and skeletal disease. Enzyme replacement therapy with recombinant human acid β-glucosidase has been the first-line therapy for Gaucher disease type 1 for more than two decades...
February 2016: Molecular Genetics and Metabolism
https://www.readbyqxmd.com/read/26076165/conversion-of-a-gastric-band-into-an-intraperitoneal-port-in-a-patient-with-optimally-debulked-stage-3c-serous-ovarian-carcinoma
#6
Paige E Tucker, Paul A Cohen, Jeremy Tan, Jason Tan
•Describes the conversion of a gastric band into an intraperitoneal chemotherapy port•Removal of band is important for cytoreduction and preventing future complications.•Conversion of the gastric band to an IP port saved the patient the need for a new intraperitoneal port.•Rising obesity may see more patients with ovarian cancer involving gastric bands.•Consider ovarian pathology in women with abdominal symptoms after bariatric surgery.
April 2015: Gynecologic Oncology Reports
https://www.readbyqxmd.com/read/24990361/using-self-organizing-maps-to-develop-ambient-air-quality-classifications-a-time-series-example
#7
John L Pearce, Lance A Waller, Howard H Chang, Mitch Klein, James A Mulholland, Jeremy A Sarnat, Stefanie E Sarnat, Matthew J Strickland, Paige E Tolbert
BACKGROUND: Development of exposure metrics that capture features of the multipollutant environment are needed to investigate health effects of pollutant mixtures. This is a complex problem that requires development of new methodologies. OBJECTIVE: Present a self-organizing map (SOM) framework for creating ambient air quality classifications that group days with similar multipollutant profiles. METHODS: Eight years of day-level data from Atlanta, GA, for ten ambient air pollutants collected at a central monitor location were classified using SOM into a set of day types based on their day-level multipollutant profiles...
2014: Environmental Health: a Global Access Science Source
https://www.readbyqxmd.com/read/24947374/profiling-lysine-ubiquitination-by-selective-enrichment-of-ubiquitin-remnant-containing-peptides
#8
Guoqiang Xu, Alessia Deglincerti, Jeremy S Paige, Samie R Jaffrey
Protein ubiquitination plays critical roles in many biological processes. However, functional studies of protein ubiquitination in eukaryotic cells are limited by the ability to identify protein ubiquitination sites. Unbiased high-throughput screening methods are necessary to discover novel ubiquitination sites that play important roles in cellular regulation. Here, we describe an immunopurification approach that enriches ubiquitin remnant-containing peptides to facilitate downstream mass spectrometry (MS) identification of lysine ubiquitination sites...
2014: Methods in Molecular Biology
https://www.readbyqxmd.com/read/23963512/application-of-alternative-spatiotemporal-metrics-of-ambient-air-pollution-exposure-in-a-time-series-epidemiological-study-in-atlanta
#9
Stefanie Ebelt Sarnat, Jeremy A Sarnat, James Mulholland, Vlad Isakov, Halûk Özkaynak, Howard H Chang, Mitchel Klein, Paige E Tolbert
Exposure error in studies of ambient air pollution and health that use city-wide measures of exposure may be substantial for pollutants that exhibit spatiotemporal variability. Alternative spatiotemporal metrics of exposure for traffic-related and regional pollutants were applied in a time-series study of ambient air pollution and cardiorespiratory emergency department visits in Atlanta, GA, USA. Exposure metrics included daily central site monitoring for particles and gases; daily spatially refined ambient concentrations obtained from regional background monitors, local-scale dispersion, and hybrid air quality models; and spatially refined ambient exposures from population exposure models...
November 2013: Journal of Exposure Science & Environmental Epidemiology
https://www.readbyqxmd.com/read/23924634/transmembrane-protein-88-a-wnt-regulatory-protein-that-specifies-cardiomyocyte-development
#10
Nathan J Palpant, Lil Pabon, Jeremy S Rabinowitz, Brandon K Hadland, Cristi L Stoick-Cooper, Sharon L Paige, Irwin D Bernstein, Randall T Moon, Charles E Murry
Genetic regulation of the cell fate transition from lateral plate mesoderm to the specification of cardiomyocytes requires suppression of Wnt/β-catenin signaling, but the mechanism for this is not well understood. By analyzing gene expression and chromatin dynamics during directed differentiation of human embryonic stem cells (hESCs), we identified a suppressor of Wnt/β-catenin signaling, transmembrane protein 88 (TMEM88), as a potential regulator of cardiovascular progenitor cell (CVP) specification. During the transition from mesoderm to the CVP, TMEM88 has a chromatin signature of genes that mediate cell fate decisions, and its expression is highly upregulated in advance of key cardiac transcription factors in vitro and in vivo...
September 2013: Development
https://www.readbyqxmd.com/read/22840851/ambient-pollen-concentrations-and-emergency-department-visits-for-asthma-and-wheeze
#11
Lyndsey A Darrow, Jeremy Hess, Christine A Rogers, Paige E Tolbert, Mitchel Klein, Stefanie E Sarnat
BACKGROUND: Previous studies report associations between aeroallergen exposure and asthma exacerbations. Aeroallergen burdens and asthma prevalence are increasing worldwide and are projected to increase further with climate change, highlighting the importance of understanding population-level relationships between ambient pollen concentrations and asthma. OBJECTIVE: We sought to examine short-term associations between ambient concentrations of various pollen taxa and emergency department (ED) visits for asthma and wheeze in the Atlanta metropolitan area between 1993 and 2004...
September 2012: Journal of Allergy and Clinical Immunology
https://www.readbyqxmd.com/read/22832582/averting-biodiversity-collapse-in-tropical-forest-protected-areas
#12
William F Laurance, D Carolina Useche, Julio Rendeiro, Margareta Kalka, Corey J A Bradshaw, Sean P Sloan, Susan G Laurance, Mason Campbell, Kate Abernethy, Patricia Alvarez, Victor Arroyo-Rodriguez, Peter Ashton, Julieta Benítez-Malvido, Allard Blom, Kadiri S Bobo, Charles H Cannon, Min Cao, Richard Carroll, Colin Chapman, Rosamond Coates, Marina Cords, Finn Danielsen, Bart De Dijn, Eric Dinerstein, Maureen A Donnelly, David Edwards, Felicity Edwards, Nina Farwig, Peter Fashing, Pierre-Michel Forget, Mercedes Foster, George Gale, David Harris, Rhett Harrison, John Hart, Sarah Karpanty, W John Kress, Jagdish Krishnaswamy, Willis Logsdon, Jon Lovett, William Magnusson, Fiona Maisels, Andrew R Marshall, Deedra McClearn, Divya Mudappa, Martin R Nielsen, Richard Pearson, Nigel Pitman, Jan van der Ploeg, Andrew Plumptre, John Poulsen, Mauricio Quesada, Hugo Rainey, Douglas Robinson, Christiane Roetgers, Francesco Rovero, Frederick Scatena, Christian Schulze, Douglas Sheil, Thomas Struhsaker, John Terborgh, Duncan Thomas, Robert Timm, J Nicolas Urbina-Cardona, Karthikeyan Vasudevan, S Joseph Wright, Juan Carlos Arias-G, Luzmila Arroyo, Mark Ashton, Philippe Auzel, Dennis Babaasa, Fred Babweteera, Patrick Baker, Olaf Banki, Margot Bass, Inogwabini Bila-Isia, Stephen Blake, Warren Brockelman, Nicholas Brokaw, Carsten A Brühl, Sarayudh Bunyavejchewin, Jung-Tai Chao, Jerome Chave, Ravi Chellam, Connie J Clark, José Clavijo, Robert Congdon, Richard Corlett, H S Dattaraja, Chittaranjan Dave, Glyn Davies, Beatriz de Mello Beisiegel, Rosa de Nazaré Paes da Silva, Anthony Di Fiore, Arvin Diesmos, Rodolfo Dirzo, Diane Doran-Sheehy, Mitchell Eaton, Louise Emmons, Alejandro Estrada, Corneille Ewango, Linda Fedigan, François Feer, Barbara Fruth, Jacalyn Giacalone Willis, Uromi Goodale, Steven Goodman, Juan C Guix, Paul Guthiga, William Haber, Keith Hamer, Ilka Herbinger, Jane Hill, Zhongliang Huang, I Fang Sun, Kalan Ickes, Akira Itoh, Natália Ivanauskas, Betsy Jackes, John Janovec, Daniel Janzen, Mo Jiangming, Chen Jin, Trevor Jones, Hermes Justiniano, Elisabeth Kalko, Aventino Kasangaki, Timothy Killeen, Hen-biau King, Erik Klop, Cheryl Knott, Inza Koné, Enoka Kudavidanage, José Lahoz da Silva Ribeiro, John Lattke, Richard Laval, Robert Lawton, Miguel Leal, Mark Leighton, Miguel Lentino, Cristiane Leonel, Jeremy Lindsell, Lee Ling-Ling, K Eduard Linsenmair, Elizabeth Losos, Ariel Lugo, Jeremiah Lwanga, Andrew L Mack, Marlucia Martins, W Scott McGraw, Roan McNab, Luciano Montag, Jo Myers Thompson, Jacob Nabe-Nielsen, Michiko Nakagawa, Sanjay Nepal, Marilyn Norconk, Vojtech Novotny, Sean O'Donnell, Muse Opiang, Paul Ouboter, Kenneth Parker, N Parthasarathy, Kátia Pisciotta, Dewi Prawiradilaga, Catherine Pringle, Subaraj Rajathurai, Ulrich Reichard, Gay Reinartz, Katherine Renton, Glen Reynolds, Vernon Reynolds, Erin Riley, Mark-Oliver Rödel, Jessica Rothman, Philip Round, Shoko Sakai, Tania Sanaiotti, Tommaso Savini, Gertrud Schaab, John Seidensticker, Alhaji Siaka, Miles R Silman, Thomas B Smith, Samuel Soares de Almeida, Navjot Sodhi, Craig Stanford, Kristine Stewart, Emma Stokes, Kathryn E Stoner, Raman Sukumar, Martin Surbeck, Mathias Tobler, Teja Tscharntke, Andrea Turkalo, Govindaswamy Umapathy, Merlijn van Weerd, Jorge Vega Rivera, Meena Venkataraman, Linda Venn, Carlos Verea, Carolina Volkmer de Castilho, Matthias Waltert, Benjamin Wang, David Watts, William Weber, Paige West, David Whitacre, Ken Whitney, David Wilkie, Stephen Williams, Debra D Wright, Patricia Wright, Lu Xiankai, Pralad Yonzon, Franky Zamzani
The rapid disruption of tropical forests probably imperils global biodiversity more than any other contemporary phenomenon. With deforestation advancing quickly, protected areas are increasingly becoming final refuges for threatened species and natural ecosystem processes. However, many protected areas in the tropics are themselves vulnerable to human encroachment and other environmental stresses. As pressures mount, it is vital to know whether existing reserves can sustain their biodiversity. A critical constraint in addressing this question has been that data describing a broad array of biodiversity groups have been unavailable for a sufficiently large and representative sample of reserves...
September 13, 2012: Nature
https://www.readbyqxmd.com/read/22616285/development-of-outcome-based-multipollutant-mobile-source-indicators
#13
Jorge E Pachon, Sivaraman Balachandran, Yongtao Hu, James A Mulholland, Lyndsey A Darrow, Jeremy A Sarnat, Paige E Tolbert, Armistead G Russell
Multipollutant indicators of mobile source impacts are developed from readily available CO, NOx, and elemental carbon (EC) data for use in air quality and epidemiologic analysis. Two types of outcome-based Integrated Mobile Source Indicators (IMSI) are assessed. The first is derived from analysis of emissions of EC, CO, and NOx such that pollutant concentrations are mixed and weighted based on emission ratios for both gasoline and diesel vehicles. The emission-based indicators (IMSI(EB)) capture the impact of mobile sources on air quality estimated from receptor models and their uncertainty is comparable to measurement and source apportionment uncertainties...
April 2012: Journal of the Air & Waste Management Association
https://www.readbyqxmd.com/read/22403384/fluorescence-imaging-of-cellular-metabolites-with-rna
#14
Jeremy S Paige, Thinh Nguyen-Duc, Wenjiao Song, Samie R Jaffrey
Genetically encoded sensors are powerful tools for imaging intracellular metabolites and signaling molecules. However, developing sensors is challenging because they require proteins that undergo conformational changes upon binding the desired target molecule. We describe an approach for generating fluorescent sensors based on Spinach, an RNA sequence that binds and activates the fluorescence of a small-molecule fluorophore. We show that these sensors can detect a variety of different small molecules in vitro and in living cells...
March 9, 2012: Science
https://www.readbyqxmd.com/read/21968772/a-method-to-detect-residual-confounding-in-spatial-and-other-observational-studies
#15
W Dana Flanders, Mitchel Klein, Lyndsey A Darrow, Matthew J Strickland, Stefanie E Sarnat, Jeremy A Sarnat, Lance A Waller, Andrea Winquist, Paige E Tolbert
BACKGROUND: Residual confounding is challenging to detect. Recently, we described a method for detecting confounding and justified it primarily for time-series studies. The method depends on an indicator with 2 key characteristics: (1) it is conditionally independent (given measured exposures and covariates) of the outcome, in the absence of confounding, misspecification, and measurement errors; and (2) like the exposure, it is associated with confounders, possibly unmeasured. We proposed using future exposure levels as the indicator to detect residual confounding...
November 2011: Epidemiology
https://www.readbyqxmd.com/read/21798953/rna-mimics-of-green-fluorescent-protein
#16
Jeremy S Paige, Karen Y Wu, Samie R Jaffrey
Green fluorescent protein (GFP) and its derivatives have transformed the use and analysis of proteins for diverse applications. Like proteins, RNA has complex roles in cellular function and is increasingly used for various applications, but a comparable approach for fluorescently tagging RNA is lacking. Here, we describe the generation of RNA aptamers that bind fluorophores resembling the fluorophore in GFP. These RNA-fluorophore complexes create a palette that spans the visible spectrum. An RNA-fluorophore complex, termed Spinach, resembles enhanced GFP and emits a green fluorescence comparable in brightness with fluorescent proteins...
July 29, 2011: Science
https://www.readbyqxmd.com/read/21068669/a-method-for-detection-of-residual-confounding-in-time-series-and-other-observational-studies
#17
W Dana Flanders, Mitchel Klein, Lyndsey A Darrow, Matthew J Strickland, Stefanie E Sarnat, Jeremy A Sarnat, Lance A Waller, Andrea Winquist, Paige E Tolbert
BACKGROUND: A difficult issue in observational studies is assessment of whether important confounders are omitted or misspecified. In this study, we present a method for assessing whether residual confounding is present. Our method depends on availability of an indicator with 2 key characteristics: first, it is conditionally independent (given measured exposures and covariates) of the outcome in the absence of confounding, misspecification, and measurement errors; second, it is associated with the exposure and, like the exposure, with any unmeasured confounders...
January 2011: Epidemiology
https://www.readbyqxmd.com/read/20639865/global-analysis-of-lysine-ubiquitination-by-ubiquitin-remnant-immunoaffinity-profiling
#18
Guoqiang Xu, Jeremy S Paige, Samie R Jaffrey
Protein ubiquitination is a post-translational modification (PTM) that regulates various aspects of protein function by different mechanisms. Characterization of ubiquitination has lagged behind that of smaller PTMs, such as phosphorylation, largely because of the difficulty of isolating and identifying peptides derived from the ubiquitinated portion of proteins. To address this issue, we generated a monoclonal antibody that enriches for peptides containing lysine residues modified by diglycine, an adduct left at sites of ubiquitination after trypsin digestion...
August 2010: Nature Biotechnology
https://www.readbyqxmd.com/read/20378732/short-term-associations-between-ambient-air-pollutants-and-pediatric-asthma-emergency-department-visits
#19
MULTICENTER STUDY
Matthew J Strickland, Lyndsey A Darrow, Mitchel Klein, W Dana Flanders, Jeremy A Sarnat, Lance A Waller, Stefanie E Sarnat, James A Mulholland, Paige E Tolbert
RATIONALE: Certain outdoor air pollutants cause asthma exacerbations in children. To advance understanding of these relationships, further characterization of the dose-response and pollutant lag effects are needed, as are investigations of pollutant species beyond the commonly measured criteria pollutants. OBJECTIVES: Investigate short-term associations between ambient air pollutant concentrations and emergency department visits for pediatric asthma. METHODS: Daily counts of emergency department visits for asthma or wheeze among children aged 5 to 17 years were collected from 41 Metropolitan Atlanta hospitals during 1993-2004 (n = 91,386 visits)...
August 1, 2010: American Journal of Respiratory and Critical Care Medicine
https://www.readbyqxmd.com/read/19756042/the-use-of-alternative-pollutant-metrics-in-time-series-studies-of-ambient-air-pollution-and-respiratory-emergency-department-visits
#20
Lyndsey A Darrow, Mitchel Klein, Jeremy A Sarnat, James A Mulholland, Matthew J Strickland, Stefanie E Sarnat, Armistead G Russell, Paige E Tolbert
Various temporal metrics of daily pollution levels have been used to examine the relationships between air pollutants and acute health outcomes. However, daily metrics of the same pollutant have rarely been systematically compared within a study. In this analysis, we describe the variability of effect estimates attributable to the use of different temporal metrics of daily pollution levels. We obtained hourly measurements of ambient particulate matter (PM₂.₅), carbon monoxide (CO), nitrogen dioxide (NO₂), and ozone (O₃) from air monitoring networks in 20-county Atlanta for the time period 1993-2004...
January 2011: Journal of Exposure Science & Environmental Epidemiology
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