[PDF] Top 20 Tuberculosis: new era for diagnosis and surveillance using whole-genome sequencing-based approaches
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Tuberculosis: new era for diagnosis and surveillance using whole-genome sequencing-based approaches
... WGS- based methodologies for routine diagnostic and epidemiological surveillance of ...M. tuberculosis strains and to develop specific pipelines to be implemented in the Portuguese ... See full document
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Rapid determination of anti-tuberculosis drug resistance from whole-genome sequences
... validated using new and publi- cally available sequence and phenotypic data from 792 isolates, from six countries (Canada, China, Malawi, Pakistan, Portugal and Russia; see Additional ... See full document
10
Evidence-based tuberculosis diagnosis.
... yield and/or increase in sensitivity of examining a third sputum specimen ranged between 2% and 5% ...programs, and potentially increase case detection for several reasons ...Partly based on ... See full document
7
Using routinely reported tuberculosis genotyping and surveillance data to predict tuberculosis outbreaks.
... model, using all culture-positive TB cases as the background ...statistic, based on the log-likelihood ratio (LLR), to determine spatial concentration of cases in a ...(p,0.05) and nonsignificant ... See full document
8
Rapid determination of anti-tuberculosis drug resistance from whole-genome sequences
... EMB and PZA, and the lack of a consensus reference standard with which to compare new ...[46] and false resistance results are not uncommon ...M. tuberculosis genome and ... See full document
10
Rapid determination of anti-tuberculosis drug resistance from whole-genome sequences
... EMB and PZA, and the lack of a consensus reference standard with which to compare new ...[46] and false resistance results are not uncommon ...M. tuberculosis genome and ... See full document
10
Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: a longitudinal molecular epidemiological study.
... Mycobacterium tuberculosis (Mtb) transmission is essential to guide efficient tuberculosis control ...of using next generation genome sequencing for identification of outbreak-related ... See full document
12
Identification of Salmonella for public health surveillance using whole genome sequencing
... II–IV) and (ii) the unexpectedly large number of novel STs ...isolates and the MLST database was modified and up-dated to incorporate the new ...evolving and this data will be shared ... See full document
18
PulseNet International: vision for the implementation of whole genome sequencing (WGS) for global food-borne disease surveillance
... real-time surveillance, PulseNet International will standardise WGS-based subtyping using extended MLST-based approaches; specifically, ...resolution and epide- miological ... See full document
12
Homo sapiens, Homo neanderthalensis and the Denisova specimen: New insights on their evolutionary histories using whole-genome comparisons
... humans and Denisovans were ad- ...T and G ® A artifactual mutations due to 5-methyl- cytosine post-mortem deamination (Briggs et ...4.5% and 5.9%, respectively, in the Neanderthal genome ... See full document
12
Whole Genome Re-Sequencing and Characterization of Powdery Mildew Disease-Associated Allelic Variation in Melon.
... SNPs and InDels compared to the reference ...melon, and this number is low compared to the numbers of resistance genes known in Arabidopsis (526), grape (690), and rice (1206) ...(cab-1 and ... See full document
19
Emergence of multidrug-resistant Mycobacterium tuberculosis of the Beijing lineage in Portugal and Guinea-Bissau: a snapshot of moving clones by whole-genome sequencing
... (MDR) tuberculosis (TB) and increased transmissibility but, countries such as Portugal and Guinea-Bissau fall outside the regions phylogeographically associated with this speci fic ...Mycobacterium ... See full document
13
Whole genome and exome sequencing of monozygotic twins with trisomy 21, discordant for a congenital heart defect and epilepsy.
... platforms—whole genome sequencing (WGS), duplicate array hybridization (DAH) and RNA sequencing (RNA-Seq), to identify discordant SNVs for monozy- gotic twins discordant for multiple ... See full document
7
The variability and reproducibility of whole genome sequencing technology for detecting resistance to anti-tuberculous drugs
... M. tuberculosis clinical isolates were sourced from ten patients with known drug-resistant TB admitted to four different hospitals in Lisbon between 2007 and ...chain and there is no epidemiological ... See full document
9
Examination of Mycobacterium avium subspecies paratuberculosis mixed genotype infections in dairy animals using a whole genome sequencing approach
... fragment using the primer pair F: CTCCTTTCGGCCGCTGTA and R: ...(SNP171 and SNP172), which are in close physical proximity to one another in the genome, were targeted with this single PCR ... See full document
13
Whole-genome sequencing of a Plasmodium vivax isolate from the China-Myanmar border area
... the whole genome of ...scaffolds and vir gene orthologs are indicated by ...isolate and the histogram represents the degree of similarity (blue: identity > ...drawn using Circos ... See full document
3
Whole genome SNP genotyping and exome sequencing reveal novel genetic variants and putative causative genes in congenital hyperinsulinism.
... By sequencing the exome DNA libraries, we obtained ...27 and 506, and an average of 19,181 variations per patient, including substitutions and indels (Table ...GLUD1, and KCNJ11, ... See full document
10
Whole genome sequencing and evolutionary analysis of human respiratory syncytial virus A and B from Milwaukee, WI 1998-2010.
... A/WI/629-3/06-07 and A/WI/629-9/06-07 isolated during the 2006/2007 season and which belong to the same lineage (GA1) as the prototype strain A2 isolated almost 50 years ago (Figures 1 and ...15 ... See full document
15
Reconstructing Native American migrations from whole-genome and whole-exome data.
... MXL, and Andean populations, but not in CEU, Eskimo-Aleut, and Na- ...IBD and ancestry can be used to date Figure ...(a) and CLM (b) compared to the predictions of the best-fitting migration ... See full document
14
Scanning and Filling: Ultra-Dense SNP Genotyping Combining Genotyping-By-Sequencing, SNP Array and Whole-Genome Resequencing Data.
... data and these will need to be imputed for many downstream ...use whole genome resequencing data to assess the accuracy of the imputed ...data. Using a panel of 301 soybean accessions, we show ... See full document
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