FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2044413612> ?p ?o ?g. }

• W2044413612 endingPage "665" @default.
• W2044413612 startingPage "665" @default.
• W2044413612 abstract "Next-generation sequencing technologies are widely used for detection of millions of Single Nucleotide Polymorphisms (SNPs) and also provide a means of assessing their variation. This information is useful for composing subsets of highly informative SNPs for region-specific or genome-wide analysis and to identify mutations regulating phenotypic differences within or between populations. In this study, we investigated the sensitivity of SNP detection and introduced the flanking SNPs value (FSV) as a novel measure for predicting SNP-variability using ~5X genome resequencing with ABI SOLID and DNA pools from two chicken lines divergently selected for juvenile bodyweight. Genotyping with a 60 K SNP chip revealed polymorphisms within or between two divergently selected chicken lines for 31 363 SNPs, 48% of which were also detected using resequencing of DNA pools. SNP detection using resequencing was more powerful for positions with larger differences in allele frequency between the lines. About 50% of the SNPs with non-reference allele frequencies in the range 0.5-0.6 and 67% of those with frequencies > 0.9 could be detected. On average, ~3.7 SNPs/kb were detected by resequencing, with about 5% lower density on microchromosomes than on macrochromosomes. There was a positive correlation between the observed between-line SNP variation from the 60 K chip analysis and our proposed FSV score computed from the genome resequencing data. The strongest correlations on macrochromosomes and microchromosomes were observed when the FSV was calculated with total flanking regions of 62 kb (correlation 0.55) and 38 kb (correlation 0.45), respectively. Genome resequencing with limited coverage (~5X) using pooled DNA samples and three non-reference reads as a threshold for SNP detection, identified 50 - 67% of the 60 K SNPs with a non-reference allele frequency larger than 0.5. The SNP density was around 5% lower on the microchromosomes, most likely because of their higher gene content. Our proposed method to estimate the SNP variation (FSV) uses additional sequence information to better predict SNP informativity. The FSV scores showed higher correlations for SNPs with a larger difference in allele frequency between the populations. The correlation was strongest on macrochromosomes, probably due to a lower recombination rate." @default.
• W2044413612 created "2016-06-24" @default.
• W2044413612 creator A5031486216 @default.
• W2044413612 creator A5078522220 @default.
• W2044413612 date "2010-01-01" @default.
• W2044413612 modified "2023-10-14" @default.
• W2044413612 title "SNP detection and prediction of variability between chicken lines using genome resequencing of DNA pools" @default.
• W2044413612 cites W1965621126 @default.
• W2044413612 cites W2035313111 @default.
• W2044413612 cites W2042726264 @default.
• W2044413612 cites W2044620339 @default.
• W2044413612 cites W2085024301 @default.
• W2044413612 cites W2098410702 @default.
• W2044413612 cites W2126810330 @default.
• W2044413612 cites W2130631370 @default.
• W2044413612 cites W2130696524 @default.
• W2044413612 cites W2137990569 @default.
• W2044413612 cites W2168148721 @default.
• W2044413612 cites W2588914676 @default.
• W2044413612 doi "https://doi.org/10.1186/1471-2164-11-665" @default.
• W2044413612 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/3091782" @default.
• W2044413612 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/21108801" @default.
• W2044413612 hasPublicationYear "2010" @default.
• W2044413612 type Work @default.
• W2044413612 sameAs 2044413612 @default.
• W2044413612 citedByCount "17" @default.
• W2044413612 countsByYear W20444136122012 @default.
• W2044413612 countsByYear W20444136122013 @default.
• W2044413612 countsByYear W20444136122014 @default.
• W2044413612 countsByYear W20444136122015 @default.
• W2044413612 countsByYear W20444136122016 @default.
• W2044413612 countsByYear W20444136122017 @default.
• W2044413612 countsByYear W20444136122019 @default.
• W2044413612 crossrefType "journal-article" @default.
• W2044413612 hasAuthorship W2044413612A5031486216 @default.
• W2044413612 hasAuthorship W2044413612A5078522220 @default.
• W2044413612 hasBestOaLocation W20444136121 @default.
• W2044413612 hasConcept C104317684 @default.
• W2044413612 hasConcept C122060243 @default.
• W2044413612 hasConcept C135763542 @default.
• W2044413612 hasConcept C139275648 @default.
• W2044413612 hasConcept C141231307 @default.
• W2044413612 hasConcept C150194340 @default.
• W2044413612 hasConcept C153209595 @default.
• W2044413612 hasConcept C163691529 @default.
• W2044413612 hasConcept C190172338 @default.
• W2044413612 hasConcept C30481170 @default.
• W2044413612 hasConcept C31467283 @default.
• W2044413612 hasConcept C51679486 @default.
• W2044413612 hasConcept C53226629 @default.
• W2044413612 hasConcept C54355233 @default.
• W2044413612 hasConcept C55060382 @default.
• W2044413612 hasConcept C86803240 @default.
• W2044413612 hasConcept C95371953 @default.
• W2044413612 hasConceptScore W2044413612C104317684 @default.
• W2044413612 hasConceptScore W2044413612C122060243 @default.
• W2044413612 hasConceptScore W2044413612C135763542 @default.
• W2044413612 hasConceptScore W2044413612C139275648 @default.
• W2044413612 hasConceptScore W2044413612C141231307 @default.
• W2044413612 hasConceptScore W2044413612C150194340 @default.
• W2044413612 hasConceptScore W2044413612C153209595 @default.
• W2044413612 hasConceptScore W2044413612C163691529 @default.
• W2044413612 hasConceptScore W2044413612C190172338 @default.
• W2044413612 hasConceptScore W2044413612C30481170 @default.
• W2044413612 hasConceptScore W2044413612C31467283 @default.
• W2044413612 hasConceptScore W2044413612C51679486 @default.
• W2044413612 hasConceptScore W2044413612C53226629 @default.
• W2044413612 hasConceptScore W2044413612C54355233 @default.
• W2044413612 hasConceptScore W2044413612C55060382 @default.
• W2044413612 hasConceptScore W2044413612C86803240 @default.
• W2044413612 hasConceptScore W2044413612C95371953 @default.
• W2044413612 hasIssue "1" @default.
• W2044413612 hasLocation W20444136121 @default.
• W2044413612 hasLocation W20444136122 @default.
• W2044413612 hasLocation W20444136123 @default.
• W2044413612 hasLocation W20444136124 @default.
• W2044413612 hasOpenAccess W2044413612 @default.
• W2044413612 hasPrimaryLocation W20444136121 @default.
• W2044413612 hasRelatedWork W1504890006 @default.
• W2044413612 hasRelatedWork W1508523048 @default.
• W2044413612 hasRelatedWork W1564808156 @default.
• W2044413612 hasRelatedWork W1588942077 @default.
• W2044413612 hasRelatedWork W1968019911 @default.
• W2044413612 hasRelatedWork W2038717263 @default.
• W2044413612 hasRelatedWork W2164332050 @default.
• W2044413612 hasRelatedWork W2413478641 @default.
• W2044413612 hasRelatedWork W2414446413 @default.
• W2044413612 hasRelatedWork W3139651602 @default.
• W2044413612 hasVolume "11" @default.
• W2044413612 isParatext "false" @default.
• W2044413612 isRetracted "false" @default.
• W2044413612 magId "2044413612" @default.
• W2044413612 workType "article" @default.