[PDF] Top 20 Next generation sequencing for virus detection: covering all the bases
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Next generation sequencing for virus detection: covering all the bases
... reliable virus detection. The number of reads required for detection is influenced by the number of virus-derived reads in the data, the size of the virus genome and the complexity of ... See full document
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Applications of next-generation sequencing analysis for the detection of hepatocellular carcinoma-associated hepatitis B virus mutations
... Higher heterogeneity increases the uncertainty of reads- mapped genomic coordinates and leads to greater chal- lenges in discovering deletion mutations. Several methods for deletion mutation discovery have been proposed, ... See full document
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Exploring the Potential of Next Generation Sequencing in Detection of Respiratory Viruses
... Sequence-independent next-generation ...and next-generation sequencing with a 454GS Junior (Roche) were carried out as previously described (19–21) on 81 nasopha- ryngeal ...a ... See full document
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Evaluation of the microbiome in Periodontal Health and Plaque Covering Supragingival calculus using Next Generation Sequencing Technology
... requires nutritionally complex media for growth, and therefore the media for its primary isolation usually include blood agar or serum in their base. This study presented a new medium, Dentaid-1, with improved ... See full document
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Development and evaluation of a non ribosomal random PCR and next generation sequencing based assay for detection and sequencing of hand, foot and mouth disease pathogens
... viral detection in vesicle swab, blood, CSF and urine has been reported, albeit at a lower frequency in the latter 3 sample ...of sequencing depth varied across the genomes of the tested viruses generated ... See full document
10
Detection of Cytomegalovirus Drug Resistance Mutations by Next Generation Sequencing
... this virus is well suited for NGS methods that are analogous to the 454 pyrosequencing ap- proaches used in HIV drug resistance testing (reviewed in refer- ence ...Sanger sequencing (23, 33, 47–50) and ... See full document
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Free-living nematodes detection using next-generation sequencing technology
... raw fastq reads were first merged using the make.contigs command with default parameter settings. This step uses similar algorithm as the one used in PANDAseq (Masella et al., 2012) (Table 4.1). The merged reads were ... See full document
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Direct Sequencing and Characterization of a Clinical Isolate of Epstein-Barr Virus from Nasopharyngeal Carcinoma Tissue by Using Next-Generation Sequencing Technology
... genome, all of the uniquely mapped EBV sequences were assembled into a consensus sequence of 139,600 bp (138,451 bp without ...1. Detection of potential bacteria and viruses by comprehensive de novo ... See full document
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Detection of a divergent Parainfluenza 4 virus in an adult patient with influenza like illness using next generation sequencing
... In this study, we used a combination of RT-PCR and next-generation sequencing to identify and characterise the full coding sequence of a novel PIV4 variant from an adult participating in[r] ... See full document
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Evaluation of Targeted Next Generation Sequencing for Detection of Bovine Pathogens in Clinical Samples
... detect all the pathogens that may be present in a sample, enabling universal unbiased pathogen ...of all the nucleic acids, including host nucleic acids, which are more abundant than the pathogen nucleic ... See full document
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Determining the Mutation Bias of Favipiravir in Influenza Virus Using Next-Generation Sequencing
... 279 bases to avoid any fragmen- tation step during sample preparation, ensuring the barcode was not sheared from the ...MiSeq. Sequencing data for the samples were processed and analyzed using custom ... See full document
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High Throughput Next Generation Sequencing of Polioviruses
... Sanger-based sequencing of the viral protein 1 (VP1) capsid region is currently the standard method for PV ...whole-genome sequencing protocols for poliovirus isolates and FTA cards using ... See full document
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Rapid detection of human herpes virus by next generation sequencing in a patient with encephalitis
... simplex virus type 1 and herpes simplex virus type 2 DNA came back negative in ...treatment, next-generation sequencing (NGS) of CSF was used for the detection of ...a ... See full document
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Improved Detection by Next Generation Sequencing of Pyrazinamide Resistance in Mycobacterium tuberculosis Isolates
... (iii) Next-generation sequencing. Whole-gene next-generation Ion Torrent sequencing was performed using a novel but standardized ...(14). All PCR products were subjected ... See full document
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Biases in the metabarcoding of plant pathogens using rust fungi as a model system
... drive detection differences between NGS metabarcoding and clon‐ ...shortening all sequences to the length of the shortest sequence (248 bp) did not change the interpretation of the overall results and ... See full document
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<p>Next-generation-sequencing technology used for the detection of <em>Mycoplasma hominis</em> in renal cyst fluid: a case report</p>
... The steadily high levels of in fl ammatory markers necessitated anti-infective agents. The timeline of the inva- sive operations, symptoms and anti-infective medicine prescriptions is shown in Figure 3. At POD 3 – 4, ce fi ... See full document
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Next-generation sequencing approach to hyperCKemia
... teed. Next-generation sequencing (NGS) has recently been proposed as a cost-effective strategy for the molecular di- agnosis of inherited neuromuscular ...allow detection of the molecular basis ... See full document
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Multiplex PCR and next generation sequencing for the non invasive detection of bladder cancer
... single sequencing run, making the assay cost-effective when samples are analysed in batches: <5 USD/Euros sequencing cost per test (at the time of ...the detection of a small number of tumour DNA ... See full document
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Blackcurrant Leaf Chlorosis Associated Virus: Next-Generation Sequencing Reveals an Extraordinary Virus with Multiple Genomic Components Including Evidence of Circular RNA
... Abstract: Blackcurrant leaf chlorosis associated virus (BCLCaV) was detected recently by next- 11.. generation sequencing (NGS) and proposed as a new and distinct species in the genus [r] ... See full document
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Draft genome of the Arabidopsis thaliana phyllosphere bacterium, Williamsia sp. ARP1
... Technologies). Sequencing was performed on a MiSeq device using v2 2 × 250 bp chemistry, and the genome was multi- plexed together with ten other bacterial genomes from other ... See full document
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