FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2009458183> ?p ?o ?g. }

• W2009458183 endingPage "1551" @default.
• W2009458183 startingPage "1543" @default.
• W2009458183 abstract "High-throughput sequencing of cDNA (RNA-seq) is a widely deployed transcriptome profiling and annotation technique, but questions about the performance of different protocols and platforms remain. We used a newly developed pool of 96 synthetic RNAs with various lengths, and GC content covering a 2(20) concentration range as spike-in controls to measure sensitivity, accuracy, and biases in RNA-seq experiments as well as to derive standard curves for quantifying the abundance of transcripts. We observed linearity between read density and RNA input over the entire detection range and excellent agreement between replicates, but we observed significantly larger imprecision than expected under pure Poisson sampling errors. We use the control RNAs to directly measure reproducible protocol-dependent biases due to GC content and transcript length as well as stereotypic heterogeneity in coverage across transcripts correlated with position relative to RNA termini and priming sequence bias. These effects lead to biased quantification for short transcripts and individual exons, which is a serious problem for measurements of isoform abundances, but that can partially be corrected using appropriate models of bias. By using the control RNAs, we derive limits for the discovery and detection of rare transcripts in RNA-seq experiments. By using data collected as part of the model organism and human Encyclopedia of DNA Elements projects (ENCODE and modENCODE), we demonstrate that external RNA controls are a useful resource for evaluating sensitivity and accuracy of RNA-seq experiments for transcriptome discovery and quantification. These quality metrics facilitate comparable analysis across different samples, protocols, and platforms." @default.
• W2009458183 created "2016-06-24" @default.
• W2009458183 creator A5017507323 @default.
• W2009458183 creator A5027637320 @default.
• W2009458183 creator A5029421561 @default.
• W2009458183 creator A5038529785 @default.
• W2009458183 creator A5066048688 @default.
• W2009458183 creator A5067538373 @default.
• W2009458183 creator A5071773009 @default.
• W2009458183 creator A5091471463 @default.
• W2009458183 date "2011-08-04" @default.
• W2009458183 modified "2023-10-16" @default.
• W2009458183 title "Synthetic spike-in standards for RNA-seq experiments" @default.
• W2009458183 cites W107998980 @default.
• W2009458183 cites W1973838650 @default.
• W2009458183 cites W1984708728 @default.
• W2009458183 cites W1987470886 @default.
• W2009458183 cites W2013947447 @default.
• W2009458183 cites W2017728350 @default.
• W2009458183 cites W2023621259 @default.
• W2009458183 cites W2026112119 @default.
• W2009458183 cites W2034226898 @default.
• W2009458183 cites W2037064308 @default.
• W2009458183 cites W2046498307 @default.
• W2009458183 cites W2084191969 @default.
• W2009458183 cites W2085212890 @default.
• W2009458183 cites W2097065948 @default.
• W2009458183 cites W2097117811 @default.
• W2009458183 cites W2097337885 @default.
• W2009458183 cites W2097576025 @default.
• W2009458183 cites W2100448568 @default.
• W2009458183 cites W2103903744 @default.
• W2009458183 cites W2112001233 @default.
• W2009458183 cites W2114012664 @default.
• W2009458183 cites W2118526609 @default.
• W2009458183 cites W2121211805 @default.
• W2009458183 cites W2122343121 @default.
• W2009458183 cites W2124985265 @default.
• W2009458183 cites W2131072552 @default.
• W2009458183 cites W2131088968 @default.
• W2009458183 cites W2131307178 @default.
• W2009458183 cites W2135277858 @default.
• W2009458183 cites W2137839234 @default.
• W2009458183 cites W2141458291 @default.
• W2009458183 cites W2145416275 @default.
• W2009458183 cites W2150904790 @default.
• W2009458183 cites W2153515666 @default.
• W2009458183 cites W2154431984 @default.
• W2009458183 cites W2154537630 @default.
• W2009458183 cites W2155804510 @default.
• W2009458183 cites W2156631105 @default.
• W2009458183 cites W2160697532 @default.
• W2009458183 cites W2163965551 @default.
• W2009458183 cites W2167364244 @default.
• W2009458183 doi "https://doi.org/10.1101/gr.121095.111" @default.
• W2009458183 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/3166838" @default.
• W2009458183 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/21816910" @default.
• W2009458183 hasPublicationYear "2011" @default.
• W2009458183 type Work @default.
• W2009458183 sameAs 2009458183 @default.
• W2009458183 citedByCount "559" @default.
• W2009458183 countsByYear W20094581832012 @default.
• W2009458183 countsByYear W20094581832013 @default.
• W2009458183 countsByYear W20094581832014 @default.
• W2009458183 countsByYear W20094581832015 @default.
• W2009458183 countsByYear W20094581832016 @default.
• W2009458183 countsByYear W20094581832017 @default.
• W2009458183 countsByYear W20094581832018 @default.
• W2009458183 countsByYear W20094581832019 @default.
• W2009458183 countsByYear W20094581832020 @default.
• W2009458183 countsByYear W20094581832021 @default.
• W2009458183 countsByYear W20094581832022 @default.
• W2009458183 countsByYear W20094581832023 @default.
• W2009458183 crossrefType "journal-article" @default.
• W2009458183 hasAuthorship W2009458183A5017507323 @default.
• W2009458183 hasAuthorship W2009458183A5027637320 @default.
• W2009458183 hasAuthorship W2009458183A5029421561 @default.
• W2009458183 hasAuthorship W2009458183A5038529785 @default.
• W2009458183 hasAuthorship W2009458183A5066048688 @default.
• W2009458183 hasAuthorship W2009458183A5067538373 @default.
• W2009458183 hasAuthorship W2009458183A5071773009 @default.
• W2009458183 hasAuthorship W2009458183A5091471463 @default.
• W2009458183 hasBestOaLocation W20094581831 @default.
• W2009458183 hasConcept C104317684 @default.
• W2009458183 hasConcept C107397762 @default.
• W2009458183 hasConcept C150194340 @default.
• W2009458183 hasConcept C162317418 @default.
• W2009458183 hasConcept C54355233 @default.
• W2009458183 hasConcept C67705224 @default.
• W2009458183 hasConcept C70721500 @default.
• W2009458183 hasConcept C86803240 @default.
• W2009458183 hasConceptScore W2009458183C104317684 @default.
• W2009458183 hasConceptScore W2009458183C107397762 @default.
• W2009458183 hasConceptScore W2009458183C150194340 @default.
• W2009458183 hasConceptScore W2009458183C162317418 @default.
• W2009458183 hasConceptScore W2009458183C54355233 @default.
• W2009458183 hasConceptScore W2009458183C67705224 @default.
• W2009458183 hasConceptScore W2009458183C70721500 @default.

• next