keyword
MENU ▼
Read by QxMD icon Read
search

Amplification

keyword
https://www.readbyqxmd.com/read/29031081/optimization-of-the-promega-powerseq%C3%A2-auto-y-system-for-efficient-integration-within-a-forensic-dna-laboratory
#1
E A Montano, J M Bush, A M Garver, M M Larijani, S M Wiechman, C H Baker, M R Wilson, R A Guerrieri, E A Benzinger, D N Gehres, M L Dickens
The application of massively parallel sequencing (MPS) is growing in the forensic DNA field, as forensic DNA laboratories are continuously seeking methods to gain information from a limited or degraded forensic sample. However, the laborious nature of current MPS methodologies required for successful library preparation and sequencing leave opportunities for improvement to make MPS a practical option for processing forensic casework. In this study, the Promega PowerSeq™ Auto/Y System Prototype, a MPS laboratory workflow that incorporates multiplex amplification, was selected for optimization with the objectives to introduce automation for relieving manual processing, and to reduce the number of steps recommended by the standard protocol...
October 5, 2017: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/29031038/isocitrate-dehydrogenase-mutations-are-better-prognostic-marker-than-o6-methylguanine-dna-methyltransferase-promoter-methylation-in-glioblastomas-a-retrospective-single-centre-molecular-genetics-study-of-gliomas
#2
M Houdova Megova, J Drábek, Z Dwight, R Trojanec, V Koudeláková, J Vrbková, O Kalita, S Mlcochova, M Rabcanova, M Hajdúch
BACKGROUND: Mutations in isocitrate dehydrogenase 1 and 2 (IDH1/2) are a promising prognostic biomarker of gliomas. The purpose of our study was to examine the clinical prognostic properties of IDH1/2 mutations in a glioma patient cohort from the Czech Republic using an improved platform for simple and reliable IDH genotyping. MATERIAL AND METHODS: We retrospectively analyzed a group of 145 glioma patients by testing for the three most frequent IDH mutations, IDH1 R132H, IDH1 R132C, and IDH2 R172K, through the competitive amplification of differentially melting amplicons (CADMA) polymerase chain reaction (PCR)...
2017: Klinická Onkologie: Casopis Ceské a Slovenské Onkologické Spolecnosti
https://www.readbyqxmd.com/read/29029217/high-levels-of-susceptibility-to-new-and-older-antibiotics-in-neisseria-gonorrhoeae-isolates-from-saskatchewan-2003-15-time-to-consider-point-of-care-or-molecular-testing-for-precision-treatment
#3
Sidharath D Thakur, Paul N Levett, Gregory B Horsman, Jo-Anne R Dillon
Objectives: The antimicrobial susceptibility of Neisseria gonorrhoeae isolates from Saskatchewan was determined retrospectively (2003-15) to ascertain temporal trends to both current and older antimicrobials used for treatment. Method: The agar dilution method was used to test the antimicrobial susceptibilities of 685 isolates to seven antibiotics. Results: Over the period, only three (0.4%) gonococcal isolates had reduced susceptibility to cefixime and/or ceftriaxone...
September 27, 2017: Journal of Antimicrobial Chemotherapy
https://www.readbyqxmd.com/read/29029067/pharmacodynamics-of-fosfomycin-against-esbl-and-or-carbapenemase-producing-enterobacteriaceae
#4
Fiona Fransen, Kelly Hermans, Maria J B Melchers, Claudia C M Lagarde, Joseph Meletiadis, Johan W Mouton
Background: The increase in antibiotic resistance in Gram-negative bacteria and the limited therapeutic options due to the shortage of new antibiotics have increased the interest of the 'old' antibiotic fosfomycin in the treatment of infections. However, there are contradictory reports on the pharmacodynamics of and emergence of resistance to fosfomycin. Methods: Time-kill assays were performed with 11 ESBL-positive and 3 ESBL-negative strains, exposing the bacteria to 2-fold static concentrations from 0...
October 4, 2017: Journal of Antimicrobial Chemotherapy
https://www.readbyqxmd.com/read/29028804/a-recombinase-polymerase-amplification-assay-for-rapid-detection-of-crimean-congo-haemorrhagic-fever-virus-infection
#5
Laura C Bonney, Robert J Watson, Babak Afrough, Manija Mullojonova, Viktoriya Dzhuraeva, Farida Tishkova, Roger Hewson
BACKGROUND: Crimean-Congo Haemorrhagic fever Virus (CCHFV) is a rapidly emerging vector-borne pathogen and the cause of a virulent haemorrhagic fever affecting large parts of Europe, Africa, the Middle East and Asia. METHODOLOGY/PRINCIPLE FINDINGS: An isothermal recombinase polymerase amplification (RPA) assay was successfully developed for molecular detection of CCHFV. The assay showed rapid (under 10 minutes) detection of viral extracts/synthetic virus RNA of all 7 S-segment clades of CCHFV, with high target specificity...
October 13, 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/29028603/a-surface-confined-dna-assembly-amplification-strategy-on-dna-nanostructural-scaffold-for-electrochemiluminescence-biosensing
#6
Qiu-Mei Feng, Yue-Hua Guo, Jing-Juan Xu, Hong-Yuan Chen
A critical challenge in surface-based DNA assembly amplification is the reduced accessibility of DNA strands arranged on a heterogeneous surface compared to that in homogeneous solution. Here, a novel in situ surface-confined DNA assembly amplification electrochemiluminescence (ECL) biosensor based on DNA nanostructural scaffold was presented. In this design, a stem-loop structural DNA segment (Hairpin 1) was constructed on the vertex of DNA nanostructural scaffold as recognition probe. In the present of target DNA, the hairpin structure changed to rod-like through complementary hybridization with target DNA, resulting in the formation of Hairpin 1:target DNA...
September 22, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/29028212/a-novel-error-compensation-control-for-a-class-of-high-order-nonlinear-systems-with-input-delay
#7
Chao Shi, Zongcheng Liu, Xinmin Dong, Yong Chen
A novel tracking error-compensation-based adaptive neural control scheme is proposed for a class of high-order nonlinear systems with completely unknown nonlinearities and input delay. In the tracking errors of existing papers, there exist the following difficulties: first, output curve always lags behind the desired trajectory, second, some big peak errors cause a decrease in tracking precision, and third, a big initial value of the modified tracking error can make the closed-loop system unstable. To tackle them, three corresponding error-compensation terms are constructed, including a prediction and compensation term, an auxiliary signal produced by the constructed auxiliary system, and a damping term...
October 10, 2017: IEEE Transactions on Neural Networks and Learning Systems
https://www.readbyqxmd.com/read/29028035/generation-amplification-frequency-conversion-and-reversal-of-propagation-of-thz-photons-in-nonlinear-hyperbolic-metamaterial
#8
Alexander K Popov, Sergey A Myslivets
We propose metamaterial (MM) that supports a mixture of three or more normal and backward electromagnetic modes with equal co-directed phase velocities and mutually contra-directed energy fluxes. This enables extraordinary three-wave mixing, greatly enhanced optical parametric amplification, and frequency-changing generation of entangled photons in the reflection direction. Proof-of-principle numerical simulation of such processes is presented based on the particular example of the wave-guided terahertz waves contra-propagating in the MM made of carbon nanotubes...
October 15, 2017: Optics Letters
https://www.readbyqxmd.com/read/29027789/integrated-bacterial-identification-and-antimicrobial-susceptibility-testing-using-pcr-and-high-resolution-melt
#9
Pornpat Athamanolap, Kuangwen Hsieh, Liben Chen, Samuel Yang, Tza-Huei Wang
Accurate and timely diagnostics are critical for managing bacterial infections. The current gold standard, culture-based diagnostics can provide clinicians with comprehensive diagnostic information including bacterial identity and antimicrobial susceptibility, but they often require several days of turnaround time, which leads to compromised clinical outcome and promotes the spread of antibiotic resistance. Nucleic acid amplification tests such as PCR have significantly accelerated the detection of specific bacteria, but generally lack the capacities for broad-based bacterial identification or antimicrobial susceptibility testing...
October 13, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/29027787/detection-of-t4-polynucleotide-kinase-via-allosteric-aptamer-probe-platform
#10
Mingxuan Gao, Jingjing Guo, Yanling Song, Zhi Zhu, Chaoyong James Yang
As a vital enzyme in DNA phosphorylation and restoration, T4 polynuceotide kinase (T4 PNK) has aroused great interest in recent years. Numerous strategies have been established for highly sensitive detection of T4 PNK based on diverse signal amplification techniques. However, they often need sophisticated design, a variety of auxiliary reagents and enzymes, or cumbersome manipulations. Herein, we have designed a new kind of allosteric aptamer probe consisting of streptavidin aptamer (SA aptamer) and the complementary DNA (cDNA) for simple detection of T4 PNK without signal amplification and with minimized interference in complex biological samples...
October 13, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/29027452/-expression-and-activity-assay-of-recombinant-flap-endonuclease-1
#11
Nan Sheng, Yinjiao Ma, Jianping Wang, Bingjie Zou, Guohua Zhou
Flap endonuclease 1 (FEN1) is an endonuclease that catalyzes invasive reaction. It can be used in signal-amplification reaction-based nucleic acid assay. However, the application of FEN1 is hampered due to the lack of detailed protocols to express and purify the enzyme, and to quantify the enzyme activity. In this paper, the DNA fragment coding the gene of FEN1 from Archaeoglobus fulgidus was synthesized, and inserted into the plasmid of pET24a(+) to express recombinant FEN1 with His-tag. After optimizing the expression, detailed expression protocol of FEN1 was obtained by culturing the recombinant E...
October 25, 2016: Sheng Wu Gong Cheng Xue Bao, Chinese Journal of Biotechnology
https://www.readbyqxmd.com/read/29027450/-cloning-and-expression-of-scavenger-receptor-class-b-bmscrb8-in-silkworm-bombyx-mori
#12
Yuzu Zhao, Kui Zhang, Mei Tang, Man Xu, Chongyang Li, Guangzhao Pan, Li Shen, Hongjuan Cui, Liqun Yang
Scavenger receptor class B is involved in various indispensable physiological processes, like the formation and inhibition of atherosclerosis or other cardiovascular diseases, innate immune defense and the removal of apoptotic cells. Here, we cloned BmSCRB8, a member of scavenger receptor class B in silkworm. We obtained the full-length cDNA sequence of BmSCRB8 by rapid amplification of cDNA ends (RACE), including 2 668 bp. The ORF of BmSCRB8 is 1 704 bp, encoding 567 amino acids. Online software prediction indicated that the molecular weight of BmSCRB8 is 63...
October 25, 2016: Sheng Wu Gong Cheng Xue Bao, Chinese Journal of Biotechnology
https://www.readbyqxmd.com/read/29027412/-research-advances-in-secondary-development-of-chinese-patent-medicines-based-on-quality-by-design-concept
#13
Xing-Chu Gong, Teng Chen, Hai-Bin Qu
Quality by design (QbD) concept is an advanced pharmaceutical quality control concept. The application of QbD concept in the research and development of pharmaceutical processes of traditional Chinese medicines (TCM) mainly contains five parts, including the definition of critical processes and their evaluation criteria, the determination of critical process parameters and critical material attributes, the establishment of quantitative models, the development of design space, as well as the application and continuous improvement of control strategy...
March 2017: Zhongguo Zhong Yao za Zhi, Zhongguo Zhongyao Zazhi, China Journal of Chinese Materia Medica
https://www.readbyqxmd.com/read/29027306/fenton-reaction-induced-renal-carcinogenesis-in-mutyh-deficient-mice-exhibits-less-chromosomal-aberrations-than-the-rat-model
#14
Guang Hua Li, Shinya Akatsuka, Shan Hwu Chew, Li Jiang, Takahiro Nishiyama, Akihiko Sakamoto, Takashi Takahashi, Mitsuru Futakuchi, Hiromu Suzuki, Kunihiko Sakumi, Yusaku Nakabeppu, Shinya Toyokuni
Oxidative stress including iron excess has been associated with carcinogenesis. The level of 8-oxoguanine, a major oxidatively modified base in DNA, is maintained very low by three distinct enzymes, encoded by OGG1, MUTYH and MTH1. Germline biallelic inactivation of MUTYH represents a familial cancer syndrome called MUTYH-associated polyposis. Here, we used Mutyh-deficient mice to evaluate renal carcinogenesis induced by ferric nitrilotriacetate (Fe-NTA). Although the C57BL/6 background is cancer-resistant, a repeated intraperitoneal administration of Fe-NTA induced a high incidence of renal cell carcinoma (RCC; 26...
October 13, 2017: Pathology International
https://www.readbyqxmd.com/read/29027209/heterogeneous-distribution-of-alectinib-in-neuroblastoma-xenografts-revealed-by-matrix-assisted-laser-desorption-ionisation-mass-spectrometry-imaging-a-pilot-study
#15
Shoraku Ryu, Mitsuhiro Hayashi, Hiroaki Aikawa, Isamu Okamoto, Yasuhiro Fujiwara, Akinobu Hamada
BACKGROUND AND PURPOSE: The penetration of the anaplastic lymphoma kinase (ALK) inhibitor alectinib in neuroblastomas and the relationship between alectinib and ALK expression are unknown. The aim of this study was to perform a quantitative investigation of the inter- and intra-tumoural distribution of alectinib in different neuroblastoma xenograft models using matrix-assisted laser desorption ionisation mass spectrometry imaging (MALDI-MSI). EXPERIMENTAL APPROACH: The distribution of alectinib in NB1 (ALK amplification) and SK-N-FI (ALK wild-type) xenograft tissues was analysed using MALDI-MSI...
October 13, 2017: British Journal of Pharmacology
https://www.readbyqxmd.com/read/29026734/cytomegalovirus-infection-under-a-hybrid-strategy-in-pediatric-liver-transplantation-a-single-center-experience
#16
Ryung Kim, Dai Joung, Sunghee Lee, Insook Jeong, Seak Hee Oh, Jung-Man Namgoong, Dae Yeon Kim, Kyung Mo Kim
PURPOSE: To evaluate the outcomes of a hybrid prophylactic strategy to prevent cytomegalovirus (CMV) disease in pediatric liver transplantation (LT) patients. METHODS: CMV DNAemia was regularly monitored by quantitative nucleic acid amplification test (QNAT) and was quantified in all children. CMV infection and disease were defined according to the International Consensus Guidelines. The hybrid strategy against CMV infection consisted of universal 3-week prophylaxis and preemptive treatment of intravenous ganciclovir regardless of the recipient's serostatus...
September 2017: Pediatric Gastroenterology, Hepatology & Nutrition
https://www.readbyqxmd.com/read/29026495/recombinant-production-and-affinity-purification-of-the-frac-pore-forming-toxin-using-hexa-his-tag-and-pet-expression-cassette
#17
Mehdi Imani, Hossein Zarei Jaliani, Mohammad Hassan Kheirandish, Mahnaz Azadpour
OBJECTIVES: A newly-introduced protein toxin from a sea anemone, namely fragaceatoxin C is a protein with molecular weight of 20 kDa and pore-forming capability against cell membranes has recently grasped great attentions for its function. In this study, its coding sequence cloned as a fusion protein with His-tag for simple production and rapid purification. MATERIALS AND METHODS: After PCR amplification using NcoI and HindIII-harboring primers, the gene fragment was cloned into pET-28a(+)...
April 2017: Iranian Journal of Basic Medical Sciences
https://www.readbyqxmd.com/read/29026473/hepatitis-c-genotypes-in-libya-correlation-with-patients-characteristics-level-of-viremia-and-degree-of-liver-fibrosis
#18
Abdel-Naser Elzuoki, Islam Elzouki, Sabah Albarassi, Mohamed Gammo, Abdalla Burwaiss
OBJECTIVES: Our study sought to determine the distribution of hepatitis C virus (HCV)-genotypes among patients attending two tertiary care hospitals in Benghazi and Tripoli, Libya, and correlate this with patient's characteristics, viral load, and degree of fibrosis. METHODS: We conducted a retrospective study of 286 HCV-RNA positive Libyan patients referred from different health care facilities in east and west Libya for specific HCV treatment. HCV genotyping was carried out by gene amplification...
September 2017: Oman Medical Journal
https://www.readbyqxmd.com/read/29026323/diagnostic-accuracy-of-xpert-mtb-rif-assay-for-musculoskeletal-tuberculosis-a-meta-analysis
#19
REVIEW
Hai Wen, Pengzhi Li, Hong Ma, Guohua Lv
OBJECTIVES: Xpert MTB/RIF assay, a rapid and automated real-time nucleic acid amplification test, has been reported for the diagnosis of musculoskeletal tuberculosis (TB) in current years. This meta-analysis aims to determine the diagnostic accuracy of Xpert for the detection of musculoskeletal TB and rifampicin (RIF) resistance. METHODS: We searched PubMed, Embase, China National Knowledge Infrastructure, and Wanfang for original articles published up to 1st June 2017 to identify studies in which the Xpert assay was applied to diagnose musculoskeletal TB...
2017: Infection and Drug Resistance
https://www.readbyqxmd.com/read/29025424/understanding-immune-phenotypes-in-human-gastric-disease-tissues-by-multiplexed-immunohistochemistry
#20
Le Ying, Feng Yan, Qiaohong Meng, Xiangliang Yuan, Liang Yu, Bryan R G Williams, David W Chan, Liyun Shi, Yugang Tu, Peihua Ni, Xuefeng Wang, Dakang Xu, Yiqun Hu
BACKGROUND: Understanding immune phenotypes and human gastric disease in situ requires an approach that leverages multiplexed immunohistochemistry (mIHC) with multispectral imaging to facilitate precise image analyses. METHODS: We developed a novel 4-color mIHC assay based on tyramide signal amplification that allowed us to reliably interrogate immunologic checkpoints, including programmed death-ligand 1 (PD-L1), cytotoxic T cells (CD8(+)T) and regulatory T cells (Foxp3), in formalin-fixed, paraffin-embedded tissues of various human gastric diseases...
October 12, 2017: Journal of Translational Medicine
keyword
keyword
27814
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"