DNA-based high-throughput sequencing
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 ...
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High-throughput sequencing of cytosine methylation in plant DNA
... alternative sequencing approach to bisulphite treatment. Methylated DNA immunoprecipitation sequencing (MeDIP-seq) [39] relies on the use of some antibody to precipitate fragments of DNA ...
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Efficient storage of high throughput DNA sequencing data using reference-based compression
... BAM based input, but it has been deliberately written to experiment with different component compression schemes; as such its run time is slow, with around 2 hours taken for compression (see Methods); however, we ...
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Efficient storage of high throughput DNA sequencing data using reference-based compression
... Our strategy is to pool unmapped reads from a variety of ‘‘similar’’ experiments, e.g., those using the same individual or species, and then discover runs of sequences that are present across the experiments. These ...
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Optimizing a MapReduce Module of Preprocessing High-Throughput DNA Sequencing Data
... correct sequencing errors if the reads and their quality values show high level of consistency at each ...algorithm based on the MapReduce ...
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Application of High-Throughput DNA Sequencing Technologies in the Metagenomic Study of Marine Biofilms
... and sequencing pre-established communities in their natural environments, the biofilms of this study are let to grow on clean glass discs for three weeks under exposure to the antimicrobial agent ...been ...
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CODEX2: full spectrum copy number variation detection by high throughput DNA sequencing
... Abstract High-throughput DNA sequencing enables detection of copy number variations (CNVs) on the genome-wide scale with finer resolution compared to array-based methods but suffers ...
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Genetics of non-syndromic childhood obesity and the use of high-throughput DNA sequencing technologies
... Thus, based on this evidence, one can postulate that a mutation in the LRP2 gene can alter those mentioned processes and pathways, which may have substantial implications in morbid ...
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Standards for Sequencing Viral Genomes in the Era of High Throughput Sequencing
... HT sequencing data: the detection of the infectious agent and the treatment of the disease caused by the ...through DNA/RNA-based inclusivity assays ...
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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 ...
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Functional Interpretation of High-Throughput Sequencing Data.
... variation, DNA-binding (ChIP-chips), SNP genotyping, and ...as DNA methylation and SNP ...contain DNA sequence targets that are spread across the genome to target various parts of the gene body ...
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Methodology for Copy Number Variant Detection from High. Throughput DNA Exome Sequencing and Application to the
... statistically based merging technique suggest that this read depth technique is able to detect CNV signatures which PEM based approaches find difficult to detect, such as segmental ...
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BSPAT: a fast online tool for DNA methylation co-occurrence pattern analysis based on high-throughput bisulfite sequencing data
... calculated based on Equation (1), where the numerate represents the differ- ence between the observed frequency and the expected frequency, and the denominator is the estimated standard deviation under the ...
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Fine grained compositional analysis of Port Everglades Inlet microbiome using high throughput DNA sequencing
... Notes. ** Indicates statistical significance. to more closely resemble a brackish surface water microbial community rather than an open ocean water microbial community. This was expected as PEI is influenced by human ...
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High throughput DNA sequencing to detect differences in the subgingival plaque microbiome in elderly subjects with and without dementia
... Sparks Stein et al. [13] found elevated levels of anti- bodies to Prevotella intermedia and Fusobacterium nucle- atum in the blood of subjects who later developed AD. These investigators also found that subjects with ...
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Spectrum of mutations in monogenic diabetes genes identified from high-throughput DNA sequencing of 6888 individuals
... In this study, we sequenced and analyzed mutations in monogenic diabetes genes in a large cohort of individuals with diabetes ( n = 4016) and controls ( n = 2872) from the southern part of Germany. Among individuals with ...
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Application of high-throughput sequencing (HTS) metabarcoding to diatom biomonitoring: Do DNA extraction methods matter?
... the DNA sequence of diatoms isolated from temperate regions, so it provided bet- ter molecular coverage for our European samples than the 2 tropical samples (Pol2 and Ref ...
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Protocol: a versatile, inexpensive, high-throughput plant genomic DNA extraction method suitable for genotyping-by-sequencing
... the sequencing quality. As we developed the high-throughput methodology for use in a 96-well plate format, we initially used chemistry based on an organic solvent CTAB protocol [6], how- ever ...
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High throughput sequencing to decipher the genetic heterogeneity of deafness
... NGS has already had an important impact on both research and clinical diagnosis in other diseases, such as breast cancer [5], intractable infl ammatory bowel disease [6] and Kabuki syndrome [7], as it enables screening of ...
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Validation of high throughput sequencing and microbial forensics applications
... Inc.) sequencing preparation method requires approximately 100 ng to 1 μg [77], Haloplex (Agilent, Santa Clara, CA, USA) 225 ng [78], Nextera XT (Illumina) 1 ng [79], and polymerase chain reaction ...
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