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https://www.readbyqxmd.com/read/28532404/use-of-the-qiagen-genereader-ngs-system-for-detection-of-kras-mutations-validated-by-the-qiagen-therascreen-pcr-kit-and-alternative-ngs-platform
#1
Agus Darwanto, Anne-Mette Hein, Sascha Strauss, Yi Kong, Andrew Sheridan, Dan Richards, Eric Lader, Monika Ngowe, Timothy Pelletier, Danielle Adams, Austin Ricker, Nishit Patel, Andreas Kühne, Simon Hughes, Dan Shiffman, Dirk Zimmermann, Kai Te Kaat, Thomas Rothmann
BACKGROUND: The detection of somatic mutations in primary tumors is critical for the understanding of cancer evolution and targeting therapy. Multiple technologies have been developed to enable the detection of such mutations. Next generation sequencing (NGS) is a new platform that is gradually becoming the technology of choice for genotyping cancer samples, owing to its ability to simultaneously interrogate many genomic loci at massively high efficiency and increasingly lower cost. However, multiple barriers still exist for its broader adoption in clinical research practice, such as fragmented workflow and complex bioinformatics analysis and interpretation...
May 22, 2017: BMC Cancer
https://www.readbyqxmd.com/read/28521991/nmr-characterization-of-cellulose-acetate-mole-fraction-of-monomers-in-cellulose-acetate-determined-from-carbonyl-carbon-resonances
#2
Hiroyuki Kono, Chinatsu Oka, Ryota Kishimoto, Sayaka Fujita
Cellulose acetate (CA) samples with varying degrees of substitution were prepared via homogeneous acetylation in 1-butyl-3-methylimidazolium chloride ([BMIM]Cl) and by the acid-hydrolysis of cellulose triacetate in acetic acid. Quantitative analysis of the (13)C NMR spectra facilitated the assignment of the carbonyl carbon shifts of the 2-mono-, 3-mono-, 6-mono-, 2,3-di-, 2,6-di-, 3,6-di-, and 2,3,6-tri-substituted anhydroglucose units (AGUs), and the determination of the mole fraction of 7 AGUs and unsubstituted AGU in the CA chains...
August 15, 2017: Carbohydrate Polymers
https://www.readbyqxmd.com/read/28511660/simvastatin-for-patients-with-acute-respiratory-distress-syndrome-long-term-outcomes-and-cost-effectiveness-from-a-randomised-controlled-trial
#3
A Agus, C Hulme, R M Verghis, C McDowell, C Jackson, C M O'Kane, J G Laffey, D F McAuley
BACKGROUND: Simvastatin therapy for patients with acute respiratory distress syndrome (ARDS) has been shown to be safe and associated with minimal adverse effects, but it does not improve clinical outcomes. The aim of this research was to report on mortality and cost-effectiveness of simvastatin in patients with ARDS at 12 months. METHODS: This was a cost-utility analysis alongside a multicentre, double-blind, randomised controlled trial carried out in the UK and Ireland...
May 17, 2017: Critical Care: the Official Journal of the Critical Care Forum
https://www.readbyqxmd.com/read/28507416/pathotypic-characterization-of-newcastle-disease-virus-isolated-from-vaccinated-chicken-in-west-java-indonesia
#4
Dwi Desmiyeni Putri, Ekowati Handharyani, Retno Damajanti Soejoedono, Agus Setiyono, Ni Luh Putu Ika Mayasari, Okti Nadia Poetri
AIM: This research was conducted to differentiate and characterize eight Newcastle disease virus (NDV) isolates collected from vaccinated chicken at commercial flocks in West Java, Indonesia, in 2011, 2014 and 2015 by pathotype specific primers. MATERIALS AND METHODS: A total of eight NDV isolates collected from clinical outbreaks among commercial vaccinated flocks in West Java, Indonesia, in 2011, 2014, and 2015 were used in this study. Reverse transcription-polymerase chain reaction was used to detect and differentiate virulence of NDV strains, using three sets of primers targeting their M and F gene...
April 2017: Veterinary World
https://www.readbyqxmd.com/read/28505488/predictors-of-buprenorphine-treatment-success-of-opioid-dependence-in-two-baltimore-city-grassroots-recovery-programs
#5
April Joy Damian, Tamar Mendelson, Deborah Agus
INTRODUCTION: Despite evidence for the efficacy of buprenorphine treatment in primary care, few studies have identified factors associated with treatment success, nor have such factors been evaluated in community settings. Identifying correlates of treatment success can facilitate the development of treatment models tailored for distinct populations, including low-income communities of color. The current study examined client-level socio-demographic factors associated with treatment success in community-based buprenorphine programs serving vulnerable populations...
May 10, 2017: Addictive Behaviors
https://www.readbyqxmd.com/read/28494708/ovis-aries-papillomavirus-3-in-ovine-cutaneous-squamous-cell-carcinoma
#6
Veronica Vitiello, Giovanni P Burrai, Mariagrazia Agus, Antonio G Anfossi, Alberto Alberti, Elisabetta Antuofermo, Stefano Rocca, Tiziana Cubeddu, Salvatore Pirino
Squamous cell carcinoma (SCC) is a common malignancy affecting humans and other animals. Papillomaviruses (PVs) are frequently reported as causal agents of cutaneous benign and malignant epithelial lesions in different animal species, but only few studies have investigated their role in ovine SCC. In this study, we explore the possible involvement of the Ovine aries PVs (OaPV1, OaPV2, OaPV3) in cutaneous SCC using an integrated histological and molecular approach. Forty cutaneous SCCs from different anatomical locations of Sardinian sheep and 40 matched non-SCC samples were evaluated histologically and by polymerase chain reaction (PCR) to assess the presence of ovine PVs...
January 1, 2017: Veterinary Pathology
https://www.readbyqxmd.com/read/28492399/acute-kidney-injury-after-pediatric-cardiac-surgery-a-secondary-analysis-of-the-safe-pediatric-euglycemia-after-cardiac-surgery-trial
#7
Joshua J Blinder, Lisa A Asaro, David Wypij, David T Selewski, Michael S D Agus, Michael Gaies, Michael A Ferguson
OBJECTIVES: To understand the effect of tight glycemic control on cardiac surgery-associated acute kidney injury. DESIGN: Secondary analysis of data from the Safe Pediatric Euglycemia after Cardiac Surgery trial of tight glycemic control versus standard care. SETTING: Pediatric cardiac ICUs at University of Michigan, C.S. Mott Children's Hospital, and Boston Children's Hospital. PATIENTS: Children 0-36 months old undergoing congenital cardiac surgery...
May 10, 2017: Pediatric Critical Care Medicine
https://www.readbyqxmd.com/read/28433091/internet-delivered-parenting-program-for-prevention-and-early-intervention-of-anxiety-problems-in-young-children-randomized-controlled-trial
#8
Amy J Morgan, Ronald M Rapee, Agus Salim, Nahal Goharpey, Elli Tamir, Lauren F McLellan, Jordana K Bayer
OBJECTIVE: The Cool Little Kids parenting group program is an effective intervention for preventing anxiety disorders in young children who are at risk because of inhibited temperament. The program has six group sessions delivered by trained psychologists to parents of 3- to 6-year-old children. An online adaptation (Cool Little Kids Online) has been developed to overcome barriers to its wide dissemination in the community. This study tested the efficacy of Cool Little Kids Online in a randomized controlled trial...
May 2017: Journal of the American Academy of Child and Adolescent Psychiatry
https://www.readbyqxmd.com/read/28402900/determination-of-mole-fractions-of-ethyl-cellulose-containing-monomers-by-nmr
#9
Hiroyuki Kono
Three samples of ethyl cellulose (EC) with different degrees of substitution (DS)-0.51, 1.41, and 2.28-were prepared by a slurry method using ethyl bromide as the etherification reagent. (1)H-(13)C HSQC and HSQC-TOCSY NMR spectral analysis allowed for complete assignment of the (1)H and (13)C chemical shifts, respectively, of eight anhydroglucose units (AGUs) comprising EC chains-un-, 2-mono-, 3-mono-, 6-mono-, 2,3-di-, 2,6-di-, 3,6-di-, and 2,3,6-tri-substituted AGUs. In addition, the lineshape of the quantitative (13)C NMR spectra of the three EC samples provided change in the mole fractions of these AGUs against DS, making it possible to estimate the reaction mechanism for the production of EC, elucidating reactivities of the hydroxyl groups at the 2, 3, and 6 positions of cellulose and interactions between the substituent groups within the same AGU and vicinal AGUs...
April 6, 2017: Carbohydrate Research
https://www.readbyqxmd.com/read/28373568/early-human-symbolic-behavior-in-the-late-pleistocene-of-wallacea
#10
Adam Brumm, Michelle C Langley, Mark W Moore, Budianto Hakim, Muhammad Ramli, Iwan Sumantri, Basran Burhan, Andi Muhammad Saiful, Linda Siagian, Suryatman, Ratno Sardi, Andi Jusdi, Abdullah, Andi Pampang Mubarak, Hasliana, Hasrianti, Adhi Agus Oktaviana, Shinatria Adhityatama, Gerrit D van den Bergh, Maxime Aubert, Jian-Xin Zhao, Jillian Huntley, Bo Li, Richard G Roberts, E Wahyu Saptomo, Yinika Perston, Rainer Grün
Wallacea, the zone of oceanic islands separating the continental regions of Southeast Asia and Australia, has yielded sparse evidence for the symbolic culture of early modern humans. Here we report evidence for symbolic activity 30,000-22,000 y ago at Leang Bulu Bettue, a cave and rock-shelter site on the Wallacean island of Sulawesi. We describe hitherto undocumented practices of personal ornamentation and portable art, alongside evidence for pigment processing and use in deposits that are the same age as dated rock art in the surrounding karst region...
April 18, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28273648/optogenetic-methods-in-drug-screening-technologies-and-applications
#11
REVIEW
Vivana Agus, Harald Janovjak
The optogenetic revolution enabled spatially-precise and temporally-precise control over protein function, signaling pathway activation, and animal behavior with tremendous success in the dissection of signaling networks and neural circuits. Very recently, optogenetic methods have been paired with optical reporters in novel drug screening platforms. In these all-optical platforms, light remotely activated ion channels and kinases thereby obviating the use of electrophysiology or reagents. Consequences were remarkable operational simplicity, throughput, and cost-effectiveness that culminated in the identification of new drug candidates...
March 5, 2017: Current Opinion in Biotechnology
https://www.readbyqxmd.com/read/28248836/pediatric-multiple-organ-dysfunction-syndrome-promising-therapies
#12
Allan Doctor, Jerry Zimmerman, Michael Agus, Surender Rajasekaran, Juliane Bubeck Wardenburg, James Fortenberry, Anne Zajicek, Emma Mairson, Katri Typpo
OBJECTIVE: To describe the state of the science, identify knowledge gaps, and offer potential future research questions regarding promising therapies for children with multiple organ dysfunction syndrome presented during the Eunice Kennedy Shriver National Institute of Child Health and Human Development Workshop on Pediatric Multiple Organ Dysfunction Syndrome (March 26-27, 2015). DATA SOURCES: Literature review, research data, and expert opinion. STUDY SELECTION: Not applicable...
March 2017: Pediatric Critical Care Medicine
https://www.readbyqxmd.com/read/28209461/prostate-cancer-detection-rate-in-indonesian-men
#13
Chaidir Arif Mochtar, Widi Atmoko, Rainy Umbas, Agus Rizal Ardy Hariandy Hamid
PURPOSES OF THE STUDY: To evaluate the overall detection rate of prostate cancer in biopsies according to serum prostate-specific antigen levels, determine the number of cores biopsied in Indonesian men, and provide a correlated staging of prostate cancer patients at varying intervals of prostate-specific antigen levels. METHODS: We retrospectively analyzed the data from Indonesian men who had undergone prostate biopsy at two national referral medical centers in Jakarta from January 1995 to December 2014...
February 13, 2017: Asian Journal of Surgery
https://www.readbyqxmd.com/read/28180995/piloting-the-one-health-systems-mapping-and-analysis-resource-toolkit-in-indonesia
#14
Kaylee Myhre Errecaborde, Katharine M Pelican, Heidi Kassenborg, Ong-Orn Prasarnphanich, Linda Valeri, Erinaldi Yuuzar, Rama Prima Syahti Fauzi, Nyoman Sri Budayanti, Agus Suwandono, Wayan T Artama, Wiku Adisasmito, Tracey Dutcher
As a global network, countries are being asked to meet goals set forth in the Global Health Security Agenda (GHSA) for a workforce capable of effective and efficient prevention, detection and response to infectious disease threats. There is great need for a cross-sectoral workforce that can innovate and problem-solve. To achieve GHSA goals, countries need a way to visualize their existing system, identify opportunities for improvement, and achieve improved cross-sectoral interactions. The One Health Systems Mapping and Analysis Resource Toolkit (OH-SMART) was successfully piloted in West Sumatra, Indonesia, and was used to enhance multi-agency collaboration around infectious disease outbreaks and proved to be an adaptable, scalable process requiring minimal resources...
February 8, 2017: EcoHealth
https://www.readbyqxmd.com/read/28172447/powerful-differential-expression-analysis-incorporating-network-topology-for-next-generation-sequencing-data
#15
Malathi S I Dona, Luke A Prendergast, Suresh Mathivanan, Shivakumar Keerthikumar, Agus Salim
Motivation: RNA-seq has become the technology of choice for interrogating the transcriptome. However, most methods for RNA-seq differential expression (DE) analysis do not utilize prior knowledge of biological networks to detect DE genes. With the increased availability and quality of biological network databases, methods that can utilize this prior knowledge are needed and will offer biologists with a viable, more powerful alternative when analyzing RNA-seq data. Results: We propose a three-state Markov Random Field (MRF) method that utilizes known biological pathways and interaction to improve sensitivity and specificity and therefore reducing false discovery rates (FDRs) when detecting differentially expressed genes from RNA-seq data...
May 15, 2017: Bioinformatics
https://www.readbyqxmd.com/read/28148967/transcriptomic-analysis-of-common-carp-anterior-kidney-during-cyprinid-herpesvirus-3-infection-immunoglobulin-repertoire-and-homologue-functional-divergence
#16
Matthew J Neave, Agus Sunarto, Kenneth A McColl
Cyprinid herpesvirus 3 (CyHV-3) infects koi and common carp and causes widespread mortalities. While the virus is a significant concern for aquaculture operations in many countries, in Australia the virus may be a useful biocontrol agent for pest carp. However, carp immune responses to CyHV-3, and the molecular mechanisms underpinning resistance, are not well understood. Here we used RNA-Seq on carp during different phases of CyHV-3 infection to detect the gene expression dynamics of both host and virus simultaneously...
February 2, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28143997/targeted-therapy-for-metastatic-renal-cell-carcinoma
#17
REVIEW
Andika Afriansyah, Agus Rizal Ah Hamid, Chaidir A Mochtar, Rainy Umbas
In the past 10 years, recent development of targeted therapy in metastatic renal cell carcinoma (mRCC) has provided a new hope and significantly enhanced the prognosis of the disease. Three class of targeted therapy were developed, including multi-targeted tyrosine kinase inhibitors (TKI), the mammalian target of rapamycin (mTOR) complex-1 kinase inhibitors, and the humanized antivascular endothelial growth factor (VEGF) monoclonal antibody. Hence, the objective of this article was to critically examine the current evidence of targeted therapy treatment for patients with mRCC...
October 2016: Acta Medica Indonesiana
https://www.readbyqxmd.com/read/28118549/tight-glycemic-control-in-critically-ill-children
#18
RANDOMIZED CONTROLLED TRIAL
Michael S D Agus, David Wypij, Eliotte L Hirshberg, Vijay Srinivasan, E Vincent Faustino, Peter M Luckett, Jamin L Alexander, Lisa A Asaro, Martha A Q Curley, Garry M Steil, Vinay M Nadkarni
BACKGROUND: In multicenter studies, tight glycemic control targeting a normal blood glucose level has not been shown to improve outcomes in critically ill adults or children after cardiac surgery. Studies involving critically ill children who have not undergone cardiac surgery are lacking. METHODS: In a 35-center trial, we randomly assigned critically ill children with confirmed hyperglycemia (excluding patients who had undergone cardiac surgery) to one of two ranges of glycemic control: 80 to 110 mg per deciliter (4...
February 23, 2017: New England Journal of Medicine
https://www.readbyqxmd.com/read/28114605/auditory-stimulus-processing-and-task-learning-are-adequate-in-dyslexia-but-benefits-from-regularities-are-reduced
#19
Luba Daikhin, Ofri Raviv, Merav Ahissar
Purpose: The reading deficit for people with dyslexia is typically associated with linguistic, memory, and perceptual-discrimination difficulties, whose relation to reading impairment is disputed. We proposed that automatic detection and usage of serial sound regularities for individuals with dyslexia is impaired (anchoring deficit hypothesis), leading to the formation of less reliable sound predictions. Agus, Carrión-Castillo, Pressnitzer, and Ramus, (2014) reported seemingly contradictory evidence by showing similar performance by participants with and without dyslexia in a demanding auditory task that contained task-relevant regularities...
February 1, 2017: Journal of Speech, Language, and Hearing Research: JSLHR
https://www.readbyqxmd.com/read/28107262/suspected-cerebral-edema-in-diabetic-ketoacidosis-is-there-still-a-role-for-head-ct-in-treatment-decisions
#20
Carmen L Soto-Rivera, Lisa A Asaro, Michael S D Agus, Danielle D DeCourcey
OBJECTIVES: Neurologic deterioration associated with cerebral edema in diabetic ketoacidosis is typically sudden in onset, progresses rapidly, and requires emergent treatment. The utility of brain imaging by head CT in decisions to treat for cerebral edema has not been previously studied. The objective of this study was to describe the characteristics of pediatric patients with diabetic ketoacidosis who develop altered mental status and evaluate the role of head CT in this cohort. DESIGN: Retrospective analysis of clinical, biochemical, and radiologic data...
March 2017: Pediatric Critical Care Medicine
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