Single nucleotide polymorphism genotyping
Bayesian estimation of genomic copy number with single nucleotide polymorphism genotyping arrays
... Beibei Guo 1 , Alejandro Villagran 2 , Marina Vannucci 1 , Jian Wang 3,4 , Caleb Davis 3,4 , Tsz-Kwong Man 3 , Ching Lau 3,4 , Rudy Guerra 1* Abstract Background: The identification of copy number aberration in the human ...
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Method: a single nucleotide polymorphism genotyping method for Wheat streak mosaic virus
... one nucleotide longer than the primer itself. This nucleotide represents the SNP element and can be detected by fluorescence scanning of a capillary electrophoretic separation of ...
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Single-Nucleotide Polymorphism Genotyping Identifies a Locally Endemic Clone of Methicillin-Resistant Staphylococcus aureus
... three single-nucleotide polymorphisms that differentiate a clade (termed ‘t003-X’) within the radiation of methicillin-resistant Staphylococcus aureus (MRSA) ...a single acute-care hospital in ...
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Identification of field caught Anopheles gambiae s s and Anopheles arabiensis by TaqMan single nucleotide polymorphism genotyping
... Occasionally, it was observed that legs of individual mos- quitoes would adhere to the side of the wells of the PCR tray during sonication, just above the 40 ul volume of extraction buffer; and thus DNA would not have ...
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A statistical approach for detecting genomic aberrations in heterogeneous tumor samples from single nucleotide polymorphism genotyping data
... Christopher Yau 1* , Dmitri Mouradov 2 , Robert N Jorissen 2 , Stefano Colella 3,6 , Ghazala Mirza 3 , Graham Steers 4 , Adrian Harris 4 , Jiannis Ragoussis 3 , Oliver Sieber 2 , Christopher C Holmes 1,5 Abstract We ...
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Original Article Nested ARMS-qPCR is a fast and cost-saving method for single nucleotide polymorphism genotyping in clinical service
... In nested ARMS-qPCR, we adapt two-step strategy, nested-PCR and ARMS-qPCR. Nested- PCR amplifies the fragments containing SNP, which act as the templates in ARMS-qPCR. The significances of nested-PCR, the first step PCR, ...
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VCAM-1(rs3783605A>G) Single-Nucleotide Polymorphism Genotyping in a Sample of Type 2 Diabetes Mellitus Iraqi Patients
... rs3783605gene polymorphism ABSTRACT Introduction: The Vascular Adhesion Molecule-1 (VCAM-1) is a cell surface glycoprotein expressed by cytokine-activated endothelium, mediates the adhesion of monocytes and ...
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Development of a New Molecular Subtyping Tool for Salmonella enterica Serovar Enteritidis Based on Single Nucleotide Polymorphism Genotyping Using PCR
... Enteritidis SNP-PCR test can be completed in a single working day if a bacterial culture is available in the morning and the number of loci targeted is not extensive. In our laboratory, an analyst with 2 PCR ...
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Use of a Single Nucleotide Polymorphism Genotyping System To Demonstrate the Unique Epidemiology of Methicillin Resistant Staphylococcus aureus in Remote Aboriginal Communities
... Isolates that appear interesting can be further characterized by full MLST, as was done in this study. This approach led to the identification of a new numerically dominant clone, an impor- tant epidemiological finding. ...
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Novel Single Nucleotide Polymorphism Based Assay for Genotyping Mycobacterium avium subsp paratuberculosis
... SNP-based genotyping assay based on the analysis of 14 SNPs that can be used to charac- terize ...the genotyping of isolates characterized as type I, type III, and bison ...
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High-Density Single Nucleotide Polymorphism Linkage Maps of Lowland Switchgrass using Genotyping-by-Sequencing.
... Results Short-Read Analysis Illumina sequencing generated a large number of high- quality multiplexed single-end reads. At least 1 million 92-bp reads were generated for the majority of individu- als of the ...
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Genotyping Schemes for Polyomavirus BK, Using Gene-Specific Phylogenetic Trees and Single Nucleotide Polymorphism Analysis
... (including single- tons which can potentially represent an unfixed random mutation or a PCR artifact) were ignored in generating a subtype- or subgroup-specific consensus sequence by rule ...present. ...
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A single nucleotide polymorphism real time PCR assay for genotyping of Mycobacterium tuberculosis complex in peri urban Kampala
... to single base mismatch) than samples with wild type DNA (due to perfect match), whereas the MTBC L4-NU probes will produce higher T m values with mutant DNA (due to perfect ...
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Microsatellite genotyping and genome wide single nucleotide polymorphism based indices of Plasmodium falciparum diversity within clinical infections
... PCR-based genotyping gives estimates of infection complexity that correlate strongly with those from the SNP analy- ses, while also being more sensitive to detect addi- tional genotypes in some infections that ...
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Development and validation of a 20K Single Nucleotide Polymorphism (SNP) whole genome genotyping array for apple (Malus × domestica Borkh)
... for genotyping per individual is higher employing WGG arrays than for GBS, and only previously characterized SNPs that are present on the array can be interrogated, the data produced are robust and reliable, ...
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UNCORRECTED PROOF ARTICLE IN PRESS ANALYTICAL BIOCHEMISTRY. 2 Quantitative heteroduplex analysis for single nucleotide. 3 polymorphism genotyping
... homozygous single nucleotide polymorphism (SNPs) 13 have melting curves identical to that of the wild-type as predicted by nearest neighbor thermodynamic ...permits genotyping of all SNPs with ...
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Functional single nucleotide polymorphism-based association studies
... to genotyping errors of rare alleles and rare alleles have been particularly prone to genotyping ...in genotyping technologies, however, dramatically lessen these ...
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Combination of Single Nucleotide Polymorphism and Variable Number Tandem Repeats for Genotyping a Homogenous Population of Mycobacterium tuberculosis Beijing Strains in China
... Cluster and diversity analysis based on VNTR-15. SNP geno- typing has the advantage of classifying Beijing strains into phylo- genetically robust sublineages but lacks the discriminatory power for epidemiological study ...
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One-step colorimetric genotyping of single nucleotide polymorphism using probe-enhanced loop-mediated isothermal amplification (PE-LAMP)
... Intensive efforts have been devoted to SNP detection. Currently, the prevailing SNP detection methods mainly depend on the polymerase chain reaction (PCR), such as TaqMan assay [4], restriction fragment length ...
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Investigating the utility of combining Phi 29 whole genome amplification and highly multiplexed single nucleotide polymorphism BeadArray (TM) genotyping
... the sample collections need to provide high quality gDNA, for the purpose of accurate genotyping, they also need to be sustainable. If, for example, one million SNPs were to be genotyped in a whole genome ...
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