deep sequencing
Identification of Dirofilaria immitis miRNA using illumina deep sequencing
... miR-72, miR-34 and miR-252, which are highly expressed in B. xylophilus [28], were only detected 147, 1107 and 467 times in D. immitis, respectively. A comparison of the D. immitis miRNA presented here with the 32 miRNA ...
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GenomeGems: evaluation of genetic variability from deep sequencing data
... using Deep Sequencing data generated in the Genome High-Throughput Sequencing Laboratory at Tel-Aviv University on the Illumina Gen- ome Analyzer ...the Deep Sequencing pre-processed ...
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Multiplexed Metagenomic Deep Sequencing To Analyze the Composition of High-Priority Pathogen Reagents
... metagenomic deep sequencing (MDS) for comprehensively assessing multiple viral ...of sequencing reads to an input sample in multiplexed high-titer virus MDS ...
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Deep Sequencing Analysis of Defective Genomes of Parainfluenza Virus 5 and Their Role in Interferon Induction
... the deep sequencing data were analyzed using methods specifically designed to identify the breakpoints that are associated with trailer copyback [DI(TrCB)], leader copyback [DI(LeCB)], and internal deletion ...
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Ultra-deep sequencing of VHSV isolates contributes to understanding the role of viral quasispecies
... established deep- sequencing methodology would prove very powerful for analysis of tissue samples from viral adaptation ...further deep sequencing analyses of VHSV genomes directly derived ...
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Repertoire of Porcine MicroRNAs in Adult Ovary and Testis by Deep Sequencing
... the deep sequencing approaches and more comprehensive in silico meth- odology for subsequent data analysis, have stimulat- ed wider spread and more in-depth studies of miR- NAs in the reproductive ...
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Application of tandem two dimensional mass spectrometry for top down deep sequencing of calmodulin
... about deep sequencing of proteins that used similar combinations of techniques [31], or other fragmentation techniques, such as ultraviolet photodissociation (UVPD) ...
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Detection of low density Plasmodium falciparum infections using amplicon deep sequencing
... Background: Deep sequencing of targeted genomic regions is becoming a common tool for understanding the dynamics and complexity of Plasmodium infections, but its lower limit of detection is currently ...
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Deep sequencing reveals stepwise mutation acquisition in paroxysmal nocturnal hemoglobinuria
... targeted deep sequencing, including a variety of genes (n = 61) that are frequently affected in MDS (Supplemental Table ...single-colony sequencing assays, bacte- rial subcloning, and analysis of VAF ...
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Deep sequencing of the X chromosome reveals the proliferation history of colorectal adenomas
... then deep-sequenced each dilution with Illumina and measured the corresponding mutation fre- quency as the number of mutated reads over the total reads that covered that ...Illumina deep sequencing ...
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Methylation hotspots evidenced by deep sequencing in patients with facioscapulohumeral dystrophy and mosaicism
... Genomic DNA was extracted from blood cells from different donors. After extraction, DNA was modified by sodium bisulfite treatment, PCR amplified, and analyzed by deep sequencing. Specific repetitive ...
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The dynamics of genome replication using deep sequencing
... equivalent copy number. The relative copy number of each genomic location was determined by deep sequencing and normalized to a baseline of 1.0, which resulted in observed maximum peak heights of 2.0. ...
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Integrated analysis of microRNA regulatory network in nasopharyngeal carcinoma with deep sequencing
... Results: Eight differentially expressed miRNAs were identified between NPC and chronic nasopharyngitis patients by deep sequencing. Further qRT-PCR assays confirmed 3 down-regulated miRNAs (miR-34c-5p, ...
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Illuminating uveitis: metagenomic deep sequencing identifies common and rare pathogens
... Metagenomic deep sequencing; MMR, Measles, mumps, rubella; MUSCLE, Multiple sequence comparison by log-expectation; NCBI, National Center for Biotechnology Information; nt, nucleotide; ORF, Open reading ...
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Deep sequencing of gastric carcinoma reveals somatic mutations relevant to personalized medicine
... (Illumina) sequencing. Relatively novel second generation sequencing technologies offer both increased throughput and deep sequencing ...Illumina sequencing technology to sequence the ...
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Deep sequencing reveals microRNAs predictive of antiangiogenic drug response
... The majority of metastatic renal cell carcinoma (RCC) patients are treated with tyrosine kinase inhibitors (TKI) in first-line treatment; however, a fraction are refractory to these antiangiogenic drugs. MicroRNAs ...
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Hepatitis C Virus Transmission Bottlenecks Analyzed by Deep Sequencing
... Hepatitis C virus (HCV) replication in infected patients produces large and diverse viral populations, which give rise to drug-resistant and immune escape variants. Here, we analyzed HCV populations during trans- mission ...
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ANDES: Statistical tools for the ANalyses of DEep Sequencing
... the sequencing depth was accumulated across data that were deposited by a community of influenza ...of sequencing both seasonal and swine origin H1N1 gen- ...the sequencing accuracy and identify ...
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Deep Sequencing Identifies Noncanonical Editing of Ebola and Marburg Virus RNAs in Infected Cells
... of deep sequencing technologies allows for a rapid and comprehensive analysis of viral transcription and replication that could not be readily achieved with earlier ...described deep RNA ...
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Quantitative Characterization of Defective Virus Emergence by Deep Sequencing
... that deep sequencing can be more sensitive than complementary measures for detecting and quantifying defective particles in a popula- ...in deep sequencing coverage simultaneously shows the ...
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