FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2005366093> ?p ?o ?g. }

• W2005366093 endingPage "310" @default.
• W2005366093 startingPage "303" @default.
• W2005366093 abstract "Microarrays to characterize single nucleotide polymorphisms (SNPs) provide a cost-effective and rapid method (under 24h) to genotype microbes as an alternative to sequencing. We developed a pipeline for SNP discovery and microarray design that scales to 100's of microbial genomes. Here we tested various SNP probe design strategies against 8 sequenced isolates of Bacillus anthracis to compare sequence and microarray data. The best strategy allowed probe length to vary within 32-40 bp to equalize hybridization free energy. This strategy resulted in a call rate of 99.52% and concordance rate of 99.86% for finished genomes. Other probe design strategies averaged substantially lower call rates (94.65-96.41%) and slightly lower concordance rates (99.64-99.80%). These rates were lower for draft than finished genomes, consistent with higher incidence of sequencing errors and gaps. Highly accurate SNP calls were possible in complex soil and blood backgrounds down to 1000 copies, and moderately accurate SNP calls down to 100 spiked copies. The closest genome to the spiked strain was correctly identified at only 10 spiked copies. Discrepancies between sequence and array data did not alter the SNP-based phylogeny, regardless of the probe design strategy, indicating that SNP arrays can accurately place unsequenced isolates on a phylogeny." @default.
• W2005366093 created "2016-06-24" @default.
• W2005366093 creator A5011274748 @default.
• W2005366093 creator A5013155084 @default.
• W2005366093 creator A5016136399 @default.
• W2005366093 creator A5062609008 @default.
• W2005366093 creator A5080523855 @default.
• W2005366093 date "2013-09-01" @default.
• W2005366093 modified "2023-09-23" @default.
• W2005366093 title "Optimizing SNP microarray probe design for high accuracy microbial genotyping" @default.
• W2005366093 cites W1576737979 @default.
• W2005366093 cites W1583721197 @default.
• W2005366093 cites W2007341233 @default.
• W2005366093 cites W2031611770 @default.
• W2005366093 cites W2057960967 @default.
• W2005366093 cites W2096128575 @default.
• W2005366093 cites W2099747689 @default.
• W2005366093 cites W2100095805 @default.
• W2005366093 cites W2101510083 @default.
• W2005366093 cites W2102292300 @default.
• W2005366093 cites W2106954995 @default.
• W2005366093 cites W2107282968 @default.
• W2005366093 cites W2133036743 @default.
• W2005366093 cites W2134283755 @default.
• W2005366093 cites W2142678478 @default.
• W2005366093 cites W2145282362 @default.
• W2005366093 cites W2147109452 @default.
• W2005366093 cites W2153700219 @default.
• W2005366093 cites W2168314697 @default.
• W2005366093 cites W2171090164 @default.
• W2005366093 cites W2400250419 @default.
• W2005366093 doi "https://doi.org/10.1016/j.mimet.2013.07.006" @default.
• W2005366093 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/23871857" @default.
• W2005366093 hasPublicationYear "2013" @default.
• W2005366093 type Work @default.
• W2005366093 sameAs 2005366093 @default.
• W2005366093 citedByCount "18" @default.
• W2005366093 countsByYear W20053660932014 @default.
• W2005366093 countsByYear W20053660932015 @default.
• W2005366093 countsByYear W20053660932016 @default.
• W2005366093 countsByYear W20053660932017 @default.
• W2005366093 countsByYear W20053660932018 @default.
• W2005366093 countsByYear W20053660932019 @default.
• W2005366093 countsByYear W20053660932020 @default.
• W2005366093 countsByYear W20053660932021 @default.
• W2005366093 countsByYear W20053660932022 @default.
• W2005366093 countsByYear W20053660932023 @default.
• W2005366093 crossrefType "journal-article" @default.
• W2005366093 hasAuthorship W2005366093A5011274748 @default.
• W2005366093 hasAuthorship W2005366093A5013155084 @default.
• W2005366093 hasAuthorship W2005366093A5016136399 @default.
• W2005366093 hasAuthorship W2005366093A5062609008 @default.
• W2005366093 hasAuthorship W2005366093A5080523855 @default.
• W2005366093 hasBestOaLocation W20053660931 @default.
• W2005366093 hasConcept C104317684 @default.
• W2005366093 hasConcept C122060243 @default.
• W2005366093 hasConcept C135763542 @default.
• W2005366093 hasConcept C139275648 @default.
• W2005366093 hasConcept C141231307 @default.
• W2005366093 hasConcept C150194340 @default.
• W2005366093 hasConcept C153209595 @default.
• W2005366093 hasConcept C160798450 @default.
• W2005366093 hasConcept C163691529 @default.
• W2005366093 hasConcept C186836561 @default.
• W2005366093 hasConcept C24432333 @default.
• W2005366093 hasConcept C31467283 @default.
• W2005366093 hasConcept C54355233 @default.
• W2005366093 hasConcept C59701697 @default.
• W2005366093 hasConcept C70721500 @default.
• W2005366093 hasConcept C86803240 @default.
• W2005366093 hasConcept C95371953 @default.
• W2005366093 hasConceptScore W2005366093C104317684 @default.
• W2005366093 hasConceptScore W2005366093C122060243 @default.
• W2005366093 hasConceptScore W2005366093C135763542 @default.
• W2005366093 hasConceptScore W2005366093C139275648 @default.
• W2005366093 hasConceptScore W2005366093C141231307 @default.
• W2005366093 hasConceptScore W2005366093C150194340 @default.
• W2005366093 hasConceptScore W2005366093C153209595 @default.
• W2005366093 hasConceptScore W2005366093C160798450 @default.
• W2005366093 hasConceptScore W2005366093C163691529 @default.
• W2005366093 hasConceptScore W2005366093C186836561 @default.
• W2005366093 hasConceptScore W2005366093C24432333 @default.
• W2005366093 hasConceptScore W2005366093C31467283 @default.
• W2005366093 hasConceptScore W2005366093C54355233 @default.
• W2005366093 hasConceptScore W2005366093C59701697 @default.
• W2005366093 hasConceptScore W2005366093C70721500 @default.
• W2005366093 hasConceptScore W2005366093C86803240 @default.
• W2005366093 hasConceptScore W2005366093C95371953 @default.
• W2005366093 hasFunder F4320306084 @default.
• W2005366093 hasIssue "3" @default.
• W2005366093 hasLocation W20053660931 @default.
• W2005366093 hasLocation W20053660932 @default.
• W2005366093 hasLocation W20053660933 @default.
• W2005366093 hasOpenAccess W2005366093 @default.
• W2005366093 hasPrimaryLocation W20053660931 @default.
• W2005366093 hasRelatedWork W1588942077 @default.
• W2005366093 hasRelatedWork W2004268158 @default.
• W2005366093 hasRelatedWork W2021147140 @default.

• next