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A pipeline for sample tagging of whole genome bisulfite sequencing data using genotypes of whole genome sequencing
BackgroundIn large-scale high-throughput sequencing projects and biobank construction, sample tagging is essential to prevent sample mix-ups. Despite...
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Optimized whole-genome sequencing workflow for tumor diagnostics in routine pathology practice
Two decades after the genomics revolution, oncology is rapidly transforming into a genome-driven discipline, yet routine cancer diagnostics is still...
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Use of Whole Genome Sequencing for Mycobacterium tuberculosis Complex Antimicrobial Susceptibility Testing
Whole genome sequencing (WGS) is becoming an important diagnostic tool for antimicrobial susceptibility testing of Mycobacterium tuberculosis complex...
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Cost-effective library preparation for whole genome sequencing with feather DNA
Samples from avian species of high conservation concern are often low in total genomic DNA (gDNA). Feathers are collected more frequently than blood,...
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Fast and sensitive validation of fusion transcripts in whole-genome sequencing data
BackgroundIn cancer, genomic rearrangements can create fusion genes that either combine protein-coding sequences from two different partner genes or...
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Genetic diversity and recent ancestry based on whole-genome sequencing of endangered Swedish cattle breeds
Several indigenous cattle breeds in Sweden are endangered. Conservation of their genetic diversity and genomic characterization is a priority.
Whole-ge...
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Plasma cell-free DNA 5-hydroxymethylcytosine and whole-genome sequencing signatures for early detection of esophageal cancer
Esophageal cancer is a highly incidence and deadly disease with a poor prognosis, especially in develo** countries. Owing to the lack of specific...
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What Whole Genome Sequencing Has Told Us About Pathogenic Vibrios
When the first microbial genome sequences were published just 20 years ago, our understanding regarding the microbial world changed dramatically. The...
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Analyzing somatic mutations by single-cell whole-genome sequencing
Somatic mutations are the cause of cancer and have been implicated in other, noncancerous diseases and aging. While clonally expanded mutations can...
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Exploring quantitative traits-associated copy number deletions through reanalysis of UK10K consortium whole genome sequencing cohorts
ObjectivesWe performed comprehensive association analyses of common high-confidence gnomAD-reported copy number deletions (CNDs) with 60 quantitative...
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Whole genome sequencing of a novel Bacillus thuringiensis isolated from Assam soil
BackgroundBacillus thuringiensis (Bt) is a gram-positive ubiquitous saprophytic bacterium that produces proteins (Crystal protein, Vegetative...
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Exploring multidrug-resistant Klebsiella pneumoniae antimicrobial resistance mechanisms through whole genome sequencing analysis
BackgroundAntibiotic-resistant Klebsiella pneumoniae has emerged as a critical public health threat worldwide. Understanding the antimicrobial...
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Whole-genome sequencing in medicinal plants: current progress and prospect
Advancements in genomics have dramatically accelerated the research on medicinal plants, and the development of herbgenomics has promoted the...
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Use of Whole Genome Sequencing for Mycobacterium tuberculosis Complex Antimicrobial Susceptibility Testing: From Sequence Data to Resistance Profiles
Whole genome sequencing of Mycobacterium tuberculosis complex (MTBC) isolates has been shown to provide accurate predictions for resistance and...
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A paired-end whole-genome sequencing approach enables comprehensive characterization of transgene integration in rice
Efficient, accurate molecular characterization of genetically modified (GM) organisms is challenging, especially for those transgenic events...
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Towards reliable whole genome sequencing for outbreak preparedness and response
BackgroundTo understand the dynamics of infectious diseases, genomic epidemiology is increasingly advocated, with a need for rapid generation of...
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Whole genome sequencing analysis of alpaca suggests TRPV3 as a candidate gene for the suri phenotype
BackgroundAlpaca is a domestic South American camelid probably arising from the domestication of two wild camelids, the vicugna and the guanaco. Two...
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Identification of Novel Induced Mutations in Seed and Vegetatively Propagated Plants from Reduced Representation or Whole Genome Sequencing Data
Treatment of plants with chemical mutagens results primarily in the production of novel single nucleotide variants. Mutagenesis is a mostly random...
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The STROMICS genome study: deep whole-genome sequencing and analysis of 10K Chinese patients with ischemic stroke reveal complex genetic and phenotypic interplay
Ischemic stroke is a leading cause of global mortality and long-term disability. However, there is a paucity of whole-genome sequencing studies on...
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ConanVarvar: a versatile tool for the detection of large syndromic copy number variation from whole-genome sequencing data
BackgroundA wide range of tools are available for the detection of copy number variants (CNVs) from whole-genome sequencing (WGS) data. However, none...
