Primer pairs selected for high throughput sequencing
Automated degenerate PCR primer design for high throughput sequencing improves efficiency of viral sequencing
... degenerate primer design pipeline is to maximize the success rate of selected primer pairs, given a set of sequences that are assumed to represent the target ...The high ...
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Primer Pairs for Rice (Oryza sativa L.) Bisulfite Sequencing Studies
... ic primer pairs suitable in epigenetic studies in Osmancik 97 which is one of the most sown rice cultivars in ...these primer pairs could provide understanding of epigenetic regulation in ...
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Indices and Applications in High-Throughput Sequencing
... 6.10.6 Performance comparison In the last experiment, we compare the real-world performance of RazerS with other read mappers. To this end, we mapped four different sets of 10 million Illumina read pairs of length ...
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PrimerView: high-throughput primer design and visualization
... designed primer against the target sequence provides easy and fast validation controls for researchers to examine the distribution and position of each ...a primer map for a designed primer to the ...
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High Throughput Next Generation Sequencing of Polioviruses
... whole-genome sequencing of poliovirus isolates from culture supernatants and FTA card specimens, which are the standard sample types analyzed for global poliovirus ...
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High throughput sequencing of 16S rRNA gene amplicons : effects of extraction procedure, primer length and annealing temperature
... 1 Centre for Systems Biology, School of Biosciences, University of Birmingham, Birmingham, United Kingdom, 2 Mucosal Microbiology, School of Veterinary Sciences, University of Bristol, Bristol, United Kingdom Abstract ...
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Insights into aphid prey consumption by ladybirds: Optimising field sampling methods and primer design for high throughput sequencing
... [4]. High-throughput sequencing (HTS) has been increasingly adopted as a standard method for dietary analysis of both prey consumed by predators and plants consumed by herbivores, given its ...
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High-throughput sequencing and small non-coding RNAs
... A primary source of information on ncRNAs are short read libraries that are prepared and analyzed with a focus on microRNAs. Here, total RNA is size-selected so that RNAs larger than 30 nt, and hence all complete ...
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Bayesian modelling of high-throughput sequencing assays with malacoda.
... base pairs of genomic context surrounding variants of ...variants selected using preliminary evidence from GWAS, and there are usually ten to thirty replicates of each allele with unique, inert ...
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The Role of High Performance, Grid and Cloud Computing in High-Throughput Sequencing
... key-value pairs (mapping). Then, the pairs are sorted by their keys and the values are aggregated under their respective keys at the assigned reducer nodes ...
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Targeted high-throughput sequencing for genetic diagnostics of hemophagocytic lymphohistiocytosis
... Twelve genes, previously linked to HLH, albinism with HLH, or susceptibility to severe EBV infections, were included in our panel. Overall, we achieved 96.6 % coverage of the genes of interest, with an average cover- age ...
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Characterization of a new apple luteovirus identified by high throughput sequencing
... Graft transmission of the luteovirus To verify the luteovirus sequences are associated with graft-transmissible agents, dormant buds of each of four selected trees from the PSU block (Table 1; PA13, PA14, PA18 and ...
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Application of high-throughput sequencing for the analyses of PRRSV-host interactions
... Day 11 covered a period during peak viremia when virus levels were elevated in normal pigs. By Day 21, the levels of viremia were reversed; viremia in the SCID group was elevated compared to the normal littermates (see ...
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Genotype-Frequency Estimation from High-Throughput Sequencing Data
... and/or high variance in coverage among individuals, unnecessarily high estima- tion variance can ...adjacent pairs of estimates deviating by 1=N; where N is the sample ...
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High-throughput DNA sequencing laboratories
... relatively high percentage of overinjections experienced with the LPA matrix when excess DNA is injected, impeding the flow of current through the capillary and pro- hibiting bands from reaching the ...DNA ...
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Standards for Sequencing Viral Genomes in the Era of High Throughput Sequencing
... the sequencing of “full” viral ...of high- throughput RACE alternatives, the time and resources required to complete hundreds or thousands of genomes are likely to con- tinue to outweigh the ...
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High-Throughput Sequencing and Metagenomic Data Analysis
... Abstract Metagenomic approaches are a growing branch of science and have many applications in different fields. Metagenomics seems to be the ideal culture- independent technique for unraveling the biodiversity of soils ...
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Improving quality of high-throughput sequencing reads
... [33] N. Beerenwinkel and O. Zagordi, “Ultra-deep sequencing for the anal- ysis of viral populations,” Current Opinion in Virology, vol. 1, no. 5, pp. 413–418, 2011. [34] R. Durbin, D. Altshuler, R. Durbin, G. ...
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Universal Count Correction for High-Throughput Sequencing
... Discussion We have shown that per-base count overdispersion is a widespread and consistent phenomenon in high-throughput sequencing experiments. While correcting for exon-level over- dispersion has ...
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High-throughput sequencing of the chicken gut microbiome
... Comparison of the results in Chapter Three and Chapter Four was not always possible for all organs due to the depth of coverage gained in the V3-V4 16S rRNA gene-fragment sequencing. Furthermore, because the ...
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