Matches in SemOpenAlex for { <https://semopenalex.org/work/W2047622162> ?p ?o ?g. }
Showing items 1 to 95 of
95
with 100 items per page.
- W2047622162 abstract "The combination of low density SNP arrays and DNA pooling is a fast and cost effective approach to genotyping that opens up basic genomics to a range of new applications and studies. However we have identified significant limitations in the existing approach to calculating allele frequencies with DNA pooling. These limitations include a reduced ability to deal with SNP to SNP variation via the standard interpolation method. Our contribution is a new hierarchical learning framework which resolves these drawbacks. The framework involves a hierarchy of two greedily trained layers of learners. The first layer learns the bias of each SNP then applies a calibration to reduce SNP bias by mapping into a common coordinate system across all SNPs. The second layer learns an allele frequency function exploiting the global SNP data. A range of algorithms have been applied including linear regression, neural network and support vector regression. The framework has been tested on pooled samples of Black Tiger prawns that have been genotyped with low density Sequenom iPLEX panels. Analysis of pooled samples and the corresponding individually genotyped SNP samples indicate the pooling approach introduces an allele frequency RMS error of 0.12. The existing calibration approach corrects ~14% of the error. Our hierarchical approach is 4.5 times as effective by correcting for ~64% of the introduced error. This is a significant reduction and has the potential to enable genetic studies previously not possible due to allele frequency error. Although testing so far is limited to low density SNP arrays the approach was developed to generalize to other SNP genotyping technologies. Keywords—Machine learning, DNA" @default.
- W2047622162 created "2016-06-24" @default.
- W2047622162 creator A5000151716 @default.
- W2047622162 creator A5033538273 @default.
- W2047622162 creator A5037100552 @default.
- W2047622162 creator A5057840369 @default.
- W2047622162 creator A5081269012 @default.
- W2047622162 date "2014-07-01" @default.
- W2047622162 modified "2023-10-06" @default.
- W2047622162 title "A hierarchical learning approach to calibrate allele frequencies for SNP based genotyping of DNA pools" @default.
- W2047622162 cites W1514925303 @default.
- W2047622162 cites W1856707437 @default.
- W2047622162 cites W1970761420 @default.
- W2047622162 cites W1981981738 @default.
- W2047622162 cites W1985866597 @default.
- W2047622162 cites W1989427963 @default.
- W2047622162 cites W1996284475 @default.
- W2047622162 cites W1999790144 @default.
- W2047622162 cites W2020524637 @default.
- W2047622162 cites W2034093453 @default.
- W2047622162 cites W2062772087 @default.
- W2047622162 cites W2068425665 @default.
- W2047622162 cites W2076831307 @default.
- W2047622162 cites W2087111030 @default.
- W2047622162 cites W2121308112 @default.
- W2047622162 cites W2130007527 @default.
- W2047622162 cites W2133990480 @default.
- W2047622162 cites W2146948473 @default.
- W2047622162 cites W2170592981 @default.
- W2047622162 doi "https://doi.org/10.1109/ijcnn.2014.6889697" @default.
- W2047622162 hasPublicationYear "2014" @default.
- W2047622162 type Work @default.
- W2047622162 sameAs 2047622162 @default.
- W2047622162 citedByCount "3" @default.
- W2047622162 countsByYear W20476221622015 @default.
- W2047622162 countsByYear W20476221622016 @default.
- W2047622162 crossrefType "proceedings-article" @default.
- W2047622162 hasAuthorship W2047622162A5000151716 @default.
- W2047622162 hasAuthorship W2047622162A5033538273 @default.
- W2047622162 hasAuthorship W2047622162A5037100552 @default.
- W2047622162 hasAuthorship W2047622162A5057840369 @default.
- W2047622162 hasAuthorship W2047622162A5081269012 @default.
- W2047622162 hasConcept C104317684 @default.
- W2047622162 hasConcept C135763542 @default.
- W2047622162 hasConcept C139275648 @default.
- W2047622162 hasConcept C153209595 @default.
- W2047622162 hasConcept C154945302 @default.
- W2047622162 hasConcept C157410074 @default.
- W2047622162 hasConcept C180754005 @default.
- W2047622162 hasConcept C31467283 @default.
- W2047622162 hasConcept C37463918 @default.
- W2047622162 hasConcept C41008148 @default.
- W2047622162 hasConcept C54355233 @default.
- W2047622162 hasConcept C70721500 @default.
- W2047622162 hasConcept C86803240 @default.
- W2047622162 hasConceptScore W2047622162C104317684 @default.
- W2047622162 hasConceptScore W2047622162C135763542 @default.
- W2047622162 hasConceptScore W2047622162C139275648 @default.
- W2047622162 hasConceptScore W2047622162C153209595 @default.
- W2047622162 hasConceptScore W2047622162C154945302 @default.
- W2047622162 hasConceptScore W2047622162C157410074 @default.
- W2047622162 hasConceptScore W2047622162C180754005 @default.
- W2047622162 hasConceptScore W2047622162C31467283 @default.
- W2047622162 hasConceptScore W2047622162C37463918 @default.
- W2047622162 hasConceptScore W2047622162C41008148 @default.
- W2047622162 hasConceptScore W2047622162C54355233 @default.
- W2047622162 hasConceptScore W2047622162C70721500 @default.
- W2047622162 hasConceptScore W2047622162C86803240 @default.
- W2047622162 hasLocation W20476221621 @default.
- W2047622162 hasOpenAccess W2047622162 @default.
- W2047622162 hasPrimaryLocation W20476221621 @default.
- W2047622162 hasRelatedWork W2032428058 @default.
- W2047622162 hasRelatedWork W2035947278 @default.
- W2047622162 hasRelatedWork W2107222606 @default.
- W2047622162 hasRelatedWork W2110514036 @default.
- W2047622162 hasRelatedWork W2143437537 @default.
- W2047622162 hasRelatedWork W2159735195 @default.
- W2047622162 hasRelatedWork W2182699003 @default.
- W2047622162 hasRelatedWork W2185010072 @default.
- W2047622162 hasRelatedWork W2471838566 @default.
- W2047622162 hasRelatedWork W2518115394 @default.
- W2047622162 hasRelatedWork W2581775327 @default.
- W2047622162 hasRelatedWork W2767571853 @default.
- W2047622162 hasRelatedWork W2786514596 @default.
- W2047622162 hasRelatedWork W2800473864 @default.
- W2047622162 hasRelatedWork W2802104200 @default.
- W2047622162 hasRelatedWork W2972253628 @default.
- W2047622162 hasRelatedWork W3009697564 @default.
- W2047622162 hasRelatedWork W3087366082 @default.
- W2047622162 hasRelatedWork W3100955153 @default.
- W2047622162 hasRelatedWork W2185478701 @default.
- W2047622162 isParatext "false" @default.
- W2047622162 isRetracted "false" @default.
- W2047622162 magId "2047622162" @default.
- W2047622162 workType "article" @default.