high-throughput genomic sequence
Clinical application of high throughput genomic technologies for treatment selection in breast cancer
... These high-throughput, multiplexed assays can identify changes in DNA sequence, gene copy number, structure, or ...as sequence changes in DNA which result from nucleic acid substitutions and ...
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An approach to comparing tiling array and high throughput sequencing technologies for genomic transcript mapping
... and its corresponding annotation of the rice genome became available in January 2005 [3]. Unlike the current genome build of Arabidopsis which is relatively stable, there have been significant changes across the various ...
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Sequence characteristics of T4 like bacteriophage IME08 genome termini revealed by high throughput sequencing
... highly sequence-preferred ...cleaves genomic DNA in a sequence-independent manner ...only sequence-preferred, but not strictly sequence-specific, and it can cut both in a ...
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‘Sifting the significance from the data’ - the impact of high-throughput genomic technologies on human genetics and health care
... ‘high throughput’ or ‘next generation’ genomic sequencing technologies has raised expecta- tions of what laboratory genetics has, and will have, to offer to both the clinician and the ...acid ...
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High throughput proteogenomics of Ruegeria pomeroyi : seeding a better genomic annotation for the whole marine Roseobacter clade
... allowed high-throughput protein analysis by shotgun nanoLC-MS/MS, which can generate useful information on thousands of proteins ...large genomic scale by many research groups ...nucleotide ...
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A high throughput DNA extraction method with high yield and quality
... and high quality DNA is often a limiting factor in genetic analysis of plant traits important to ...of genomic DNA from thousands of individual ...Many high throughput methods to isolate DNA ...
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Chromosomal copy number analysis on chorionic villus samples from early spontaneous miscarriages by high throughput genetic technology
... munity/protocols-home). Genomic DNA from CVSs was sheared to 250–300 bp fragments using Ion Shear Plus Reagents Kit (ThermoFisher, ...whole genomic sequence depth was ...
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Protocol: a versatile, inexpensive, high-throughput plant genomic DNA extraction method suitable for genotyping-by-sequencing
... 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 this routinely yielded degraded DNA from white clover ...
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Conversion of sequence characterized amplified region (SCAR) bands into high throughput DNA markers based on RAPD technique for detection of the stem nematode Ditylenchus dipsaci in crucial plant hosts
... To find species-specific RAPD-fragments, RAPD- PCRs were performed with genomic DNA of some plant-parasitic nematodes, e.g. Meloidogyne fal- lax and M. hapla, M. chitwoodi (Zijlstra 2000). In our experiments, ...
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Mash Screen: high throughput sequence containment estimation for genome discovery
... increase throughput and lower costs, databases of sequenced genomes ...NCBI’s Sequence Read Archive (SRA) [4], is growing even faster, outpacing our ability to assemble and curate the genomes and ...
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TIMPs of parasitic helminths – a large scale analysis of high throughput sequence datasets
... Genomic sequence data with identity to S. haematobium A_01727 were detected in both S. mansoni (Smp_087690; e-value 3e-110) and S. japonicum (Sjp_0053050.1; e-value 6.3e-64). However, the sequence ...
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TIMPs of parasitic helminths: a large-scale analysis of high-throughput sequence datasets
... Genomic sequence data with identity to S. haematobium A_01727 were detected in both S. mansoni (Smp_087690; e-value 3e-110) and S. japonicum (Sjp_0053050.1; e-value 6.3e-64). However, the sequence ...
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Some intriguing high-throughput DNA sequence variants prediction over protein functionality
... protein sequence, what is its folding rate? Which structural class and quaternary structural attribute does it belong to? Is it a protease? If it is, to which protease type does it belong? Which part of the ...
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High Throughput Method for Detecting Genomic Deletion Polymorphisms
... detect genomic deletions relative to a reference ...large sequence polymorphisms (LSPs) or insertion-deletion events in bacterial populations, we devel- oped a technique, termed deligotyping, which ...
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Comparative metabolism of cellulose, sophorose and glucose in Trichoderma reeseiusing high-throughput genomic and proteomic analyses
... The Illumina Hiseq 2000 system was used to sequence approximately 117 million 100 bp paired-end reads. These sequences were quality-filtered and mapped to the Trichoderma reesei 2.0 reference genome, available ...
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Ultra-high-throughput DArTseq-based silicoDArT and SNP markers for genomic studies in macadamia
... The statistical analysis of DArT data sets showed highly consistent results obtained for genetic diversity, population structure and PCoA. The pedigree relationships obtained through genetic diversity and population ...
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Targeted Chromatin Capture (T2C): a novel high resolution high throughput method to detect genomic interactions and regulatory elements
... The first steps of the preparation of the chromatin con- formation capturing library are carried out as in 3C-seq [23]. Basically, chromatin is cross-linked, followed by di- gestion with a 6 bp recognition restriction ...
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Reconstructing regulatory networks from high throughput post genomic data using MCMC methods
... The model organism chosen in this study is Escherichia coli K-12 of strain M G1655. E. coli is an excellent organism for systems biology. Its rapid growth rate under simple nutritional conditions makes experiment ...
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Effective Screening and Joint Modeling for High-Throughput Genomic Data Analysis.
... sequence variants that influence gene expression, and can be classified as either cis or trans acting [ AK15 ] . If an eQTL acts in cis, a variant affects the expression of a gene on the same chromosome with it or ...
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HoSeIn: A Workflow for Integrating Various Homology Search Results from a High-Throughput Sequence Dataset
... What follows is a detailed tutorial in which we exemplify our HoSeIn workflow. To be able to follow the step-by-step tutorial, we provide sample data in the form of the "RMA" files generated by MEGAN6 after it ...
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