WGS, whole genome sequencing
Ethical and Psychosocial Issues in Whole Genome Sequencing (WGS) for Newborns
... Human Genome Project was initiated in 1990, a component of the project was a focus on ethical, legal, and social implications of ...1990s, whole genome sequencing (WGS) was not ...
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An outbreak of Streptococcus pyogenes in a mental health facility : advantage of well timed whole genome sequencing over emm typing
... WGS, Whole Genome Sequencing NOTE: Duplicate isolates are not reflected in the table; There may be more than one strains on some dates; Isolates from staff members are not reflected in t[r] ...
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Complex structural variants in Mendelian disorders: identification and breakpoint resolution using short- and long-read genome sequencing
... short-read WGS, long-read WGS, long insert WGS (liWGS) and microarrays, each with strengths and ...short-read WGS to identify clinically relevant ...long-read sequencing technologies ...
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Telomerecat: A ploidy-agnostic method for estimating telomere length from whole genome sequencing data
... We have validated Telomerecat by showing that it correlates with existing computational and experimental methods as well as with sample donor age. mTRF itself provides an imperfect measure of telomere length and, from ...
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<p>Genomic and Phenotypic Diversity of <em>Listeria monocytogenes</em> Causing Pregnancy-Associated Listeriosis from Zhejiang Province, China, 2016–2018</p>
... In this study, we described a 3-year surveillance of lister- iosis in a women ’ s hospital in Zhejiang province, China, using whole genome sequencing (WGS) and bioinformatics tools. We aim to ...
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Whole genome sequencing of multidrug-resistant Salmonella enterica serovar Typhimurium isolated from humans and poultry in Burkina Faso
... Whole genome sequences (WGS) of ...The sequencing reads were trimmed before assembly using default settings of Ridom SeqSphere+ (trim at both ends of the reads until the average base quality ...
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Genomics for Molecular Epidemiology and Detecting Transmission of Carbapenemase Producing Enterobacterales in Victoria, Australia, 2012 to 2016
... ABSTRACT Carbapenemase-producing Enterobacterales (CPE) are being increasingly reported in Australia, and integrated clinical and genomic surveillance is critical to effectively manage this threat. We sought to ...
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A Predominant Variable Number Tandem Repeat Cluster of Mycobacterium tuberculosis Isolates among Asylum Seekers in the Netherlands and Denmark, Deciphered by Whole Genome Sequencing
... Data analysis. WGS data analysis was performed in R Statistics (version 3.2). SNPs annotated as PE/PPE, PGRS, esx, repeat, polyketide, pks, or transposase were excluded during WGS data analysis. Squared ...
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Telomerecat: A ploidy-agnostic method for estimating telomere length from whole genome sequencing data
... within WGS samples, we compared the algorithm to an established experimental method (mean terminal restriction fragment Southern blot experiment (mTRF)) and the current leading computational method ...study, ...
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Phenotypic H Antigen Typing by Mass Spectrometry Combined with Genetic Typing of H Antigens, O Antigens, and Toxins by Whole Genome Sequencing Enhances Identification of Escherichia coli Isolates
... After addressing the issues associated with traditional H sero- typing, it became obvious that platforms such WGS could be used to address problems arising with O-antigen serotyping as well. Although O serotyping ...
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Whole Genome Sequencing for Routine Pathogen Surveillance in Public Health: a Population Snapshot of Invasive Staphylococcus aureus in Europe
... A key characteristic of HRCs has been the emergence of antibiotic resistance. WGS provides the opportunity to scan genomes for all known genetic determinants of antibiotic resistance. We examined the distribution ...
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12919_2014_article_1939.pdf
... Genome-wide association studies (GWAS) have been used for examining genetic variants associated with blood pressure and hypertension [1,2]. Because blood pressure changes over time, it is important to collect ...
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Genetic variants of Helicobacter pylori type IV secretion system components CagL and CagI and their association with clinical outcomes
... using whole-genome sequencing (WGS), and analyzed whether single nucleotide variants and amino acid changes (AACs) correlated with adverse clinical ...Using WGS, we analyzed genetic ...
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Targeted or whole genome sequencing of formalin fixed tissue samples: potential applications in cancer genomics
... Over 99.5% concordance in base call was observed at total intersect positions in all paired samples, and over 99.9% concordance in base call was observed in targeted regions in all paired samples. In addition, 98.8% and ...
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Sequencing strategies and characterization of 721 vervet monkey genomes for future genetic analyses of medically relevant traits
... genotyping genome- wide SNPs in humans and in a few model systems (such as the ...low-pass whole genome sequencing (WGS) provides a cost-effective alternative to SNP genotyping ar- rays ...
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Comparative sequencing analysis reveals high genomic concordance between matched primary and metastatic colorectal cancer lesions
... by WGS; however, two nonsense mutations in RASA1 (C372* and R679*) were detected in the both primary and metastatic sam- ...of whole genome sequencing to identify rare alterations in driver ...
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A protocol for the identification and validation of novel genetic causes of kidney disease
... parallel sequencing (MPS) from ap- proximately 2005 [14] has arguably been the next greatest advance since the development of Sanger sequencing in the late 1970s [15, ...generation sequencing (NGS) ...
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Real Time Whole Genome Sequencing for Routine Typing, Surveillance, and Outbreak Detection of Verotoxigenic Escherichia coli
... With whole-genome sequencing (WGS) becoming cheaper, it has huge potential in both diagnostics and routine ...of WGS for routine typing and surveillance of verocytotoxin-produc- ing ...
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Defining a Core Genome Multilocus Sequence Typing Scheme for the Global Epidemiology of Vibrio parahaemolyticus
... of whole-genome sequencing (WGS) has become routine for trace back investigations, with core genome MLST (cgMLST) analysis as one of the most straightforward ways to explore complex ...
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The Hidden Genomic and Transcriptomic Plasticity of Giant Marker Chromosomes in Cancer
... deep sequencing (ChIP-seq), whole-genome sequencing (WGS), immunofluorescence in situ hybridization (immu- no-FISH), whole-transcriptome sequencing (total RNA-seq), and ...
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