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Keywords {🔍}

samples, mutations, sample, cancer, sequencing, dna, calibration, prevalence, pubmed, additional, file, pcr, article, figure, read, udtseq, primer, error, assay, somatic, xenograft, google, scholar, depth, reads, coverage, table, clinical, mutation, rate, positions, tumor, cas, primary, analysis, genome, targeted, amplicons, usa, central, amplicon, position, detection, low, identified, snps, performance, genomic, mutational, sequence,

Topics {✒️}

tri-nucleotide pcr-specificity adapters ultra-deep targeted sequencing article download pdf multiple-alignment mouse-human track platinum high-fidelity taq article number r124 somatic d-loop mutation high-throughput sequencing data sequence alignment/map format n-ras point mutations n-ras exon-1 mutations small-cell lung cancer gastro-intestinal stromal tumors large-scale targeted sequencing generation sequencing technology microdroplet-based pcr enrichment position-dependent error rate allele-specific bias generated initial udt-seq profiles udt-seq assay interrogates confer adapter-strand specificity pre-clinical drug development calibration-tested sample combinations massively parallel sequencing local sequence-specific context full size image apc-r283x show significant ptc-225 thermal cycler udt-seq approach presented privacy choices/manage cookies molecularly defined trials single somatic mutation tri-nucleotide sequence xenograft-specific mutations revealed custom primer library teknova-fisher hollister ca related subjects snap-frozen tissue samples closest data point human genome sequencing binomial test p-values clinical trials testing tyrosine kinase domain polymerase chain reaction high sequence coverage single sample generated common inactivating mutation reported genomic location california san diego sheared genomic dna

Schema {🗺️}

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         headline:Detection of low prevalence somatic mutations in solid tumors with ultra-deep targeted sequencing
         description:Ultra-deep targeted sequencing (UDT-Seq) can identify subclonal somatic mutations in tumor samples. Early assays' limited breadth and depth restrict their clinical utility. Here, we target 71 kb of mutational hotspots in 42 cancer genes. We present novel methods enhancing both laboratory workflow and mutation detection. We evaluate UDT-Seq true sensitivity and specificity (> 94% and > 99%, respectively) for low prevalence mutations in a mixing experiment and demonstrate its utility using six tumor samples. With an improved performance when run on the Illumina Miseq, the UDT-Seq assay is well suited for clinical applications to guide therapy and study clonal selection in heterogeneous samples.
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            Calibration Sample
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            Animal Genetics and Genomics
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            Plant Genetics and Genomics
            Microbial Genetics and Genomics
            Bioinformatics
            Evolutionary Biology
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      headline:Detection of low prevalence somatic mutations in solid tumors with ultra-deep targeted sequencing
      description:Ultra-deep targeted sequencing (UDT-Seq) can identify subclonal somatic mutations in tumor samples. Early assays' limited breadth and depth restrict their clinical utility. Here, we target 71 kb of mutational hotspots in 42 cancer genes. We present novel methods enhancing both laboratory workflow and mutation detection. We evaluate UDT-Seq true sensitivity and specificity (> 94% and > 99%, respectively) for low prevalence mutations in a mixing experiment and demonstrate its utility using six tumor samples. With an improved performance when run on the Illumina Miseq, the UDT-Seq assay is well suited for clinical applications to guide therapy and study clonal selection in heterogeneous samples.
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      dateModified:2011-12-20T00:00:00Z
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         Calibration Sample
         Read Depth
         Coverage Depth
         Whole Genome Amplification
         Animal Genetics and Genomics
         Human Genetics
         Plant Genetics and Genomics
         Microbial Genetics and Genomics
         Bioinformatics
         Evolutionary Biology
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      name:Department of Pediatrics and Rady Children's Hospital, University of California San Diego, La Jolla, USA
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      name:Prognosys Biosciences, La Jolla, USA
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      name:Moores UCSD Cancer Center, University of California San Diego, La Jolla, USA
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