FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2610479249> ?p ?o ?g. }

• W2610479249 abstract "Abstract Processing of transcripts at the 3’-end involves cleavage at a polyadenylation site followed by the addition of a poly(A)-tail. By selecting which polyadenylation site is cleaved, alternative polyadenylation enables genes to produce transcript isoforms with different 3’-ends. To facilitate the identification and treatment of disease-causing mutations that affect polyadenylation and to understand the underlying regulatory processes, a computational model that can accurately predict polyadenylation patterns based on genomic features is desirable. Previous works have focused on identifying candidate polyadenylation sites and classifying sites which may be tissue-specific. What is lacking is a predictive model of the underlying mechanism of site selection, competition, and processing efficiency in a tissue-specific manner. We develop a deep learning model that trains on 3’-end sequencing data and predicts tissue-specific site selection among competing polyadenylation sites in the 3’ untranslated region of the human genome. Two neural network architectures are evaluated: one built on hand-engineered features, and another that directly learns from the genomic sequence. The hand-engineered features include polyadenylation signals, cis-regulatory elements, n-mer counts, nucleosome occupancy, and RNA-binding protein motifs. The direct-from-sequence model is inferred without prior knowledge on polyadenylation, based on a convolutional neural network trained with genomic sequences surrounding each polyadenylation site as input. Both models are trained using the TensorFlow library. The proposed polyadenylation code can predict site selection among competing polyadenylation sites in different tissues. Importantly, it does so without relying on evolutionary conservation. The model can distinguish pathogenic from benign variants that appear near annotated polyadenylation sites in ClinVar and inspect the genome to find candidate polyadenylation sites. We also provide an analysis on how different features affect the model’s performance." @default.
• W2610479249 created "2017-05-12" @default.
• W2610479249 creator A5003361977 @default.
• W2610479249 creator A5046317049 @default.
• W2610479249 creator A5053794788 @default.
• W2610479249 date "2017-04-27" @default.
• W2610479249 modified "2023-10-03" @default.
• W2610479249 title "Inference of the Human Polyadenylation Code" @default.
• W2610479249 cites W1019830208 @default.
• W2610479249 cites W1743864981 @default.
• W2610479249 cites W1973850164 @default.
• W2610479249 cites W1976007281 @default.
• W2610479249 cites W1976604734 @default.
• W2610479249 cites W1982675984 @default.
• W2610479249 cites W1985267020 @default.
• W2610479249 cites W1991161040 @default.
• W2610479249 cites W1997699426 @default.
• W2610479249 cites W2018300670 @default.
• W2610479249 cites W2019815305 @default.
• W2610479249 cites W2032009534 @default.
• W2610479249 cites W2036144270 @default.
• W2610479249 cites W2074871118 @default.
• W2610479249 cites W2080532845 @default.
• W2610479249 cites W2083996291 @default.
• W2610479249 cites W2087789109 @default.
• W2610479249 cites W2088338354 @default.
• W2610479249 cites W2096465161 @default.
• W2610479249 cites W2099305989 @default.
• W2610479249 cites W2105545925 @default.
• W2610479249 cites W2105879579 @default.
• W2610479249 cites W2112132489 @default.
• W2610479249 cites W2112796928 @default.
• W2610479249 cites W2114504176 @default.
• W2610479249 cites W2118834857 @default.
• W2610479249 cites W2126456089 @default.
• W2610479249 cites W2129429612 @default.
• W2610479249 cites W2138336970 @default.
• W2610479249 cites W2140303894 @default.
• W2610479249 cites W2142952635 @default.
• W2610479249 cites W2144015117 @default.
• W2610479249 cites W2145191876 @default.
• W2610479249 cites W2151562469 @default.
• W2610479249 cites W2154866190 @default.
• W2610479249 cites W2160995259 @default.
• W2610479249 cites W2161978970 @default.
• W2610479249 cites W2163741321 @default.
• W2610479249 cites W2167852161 @default.
• W2610479249 cites W2172208515 @default.
• W2610479249 cites W2221443338 @default.
• W2610479249 cites W2261527505 @default.
• W2610479249 cites W2318484973 @default.
• W2610479249 cites W2339995329 @default.
• W2610479249 cites W2525507785 @default.
• W2610479249 cites W2555364622 @default.
• W2610479249 cites W2919115771 @default.
• W2610479249 cites W3029457946 @default.
• W2610479249 doi "https://doi.org/10.1101/130591" @default.
• W2610479249 hasPublicationYear "2017" @default.
• W2610479249 type Work @default.
• W2610479249 sameAs 2610479249 @default.
• W2610479249 citedByCount "1" @default.
• W2610479249 countsByYear W26104792492018 @default.
• W2610479249 crossrefType "posted-content" @default.
• W2610479249 hasAuthorship W2610479249A5003361977 @default.
• W2610479249 hasAuthorship W2610479249A5046317049 @default.
• W2610479249 hasAuthorship W2610479249A5053794788 @default.
• W2610479249 hasBestOaLocation W26104792491 @default.
• W2610479249 hasConcept C104317684 @default.
• W2610479249 hasConcept C142575336 @default.
• W2610479249 hasConcept C154945302 @default.
• W2610479249 hasConcept C2776214188 @default.
• W2610479249 hasConcept C41008148 @default.
• W2610479249 hasConcept C54355233 @default.
• W2610479249 hasConcept C62531158 @default.
• W2610479249 hasConcept C67705224 @default.
• W2610479249 hasConcept C70721500 @default.
• W2610479249 hasConcept C86803240 @default.
• W2610479249 hasConceptScore W2610479249C104317684 @default.
• W2610479249 hasConceptScore W2610479249C142575336 @default.
• W2610479249 hasConceptScore W2610479249C154945302 @default.
• W2610479249 hasConceptScore W2610479249C2776214188 @default.
• W2610479249 hasConceptScore W2610479249C41008148 @default.
• W2610479249 hasConceptScore W2610479249C54355233 @default.
• W2610479249 hasConceptScore W2610479249C62531158 @default.
• W2610479249 hasConceptScore W2610479249C67705224 @default.
• W2610479249 hasConceptScore W2610479249C70721500 @default.
• W2610479249 hasConceptScore W2610479249C86803240 @default.
• W2610479249 hasLocation W26104792491 @default.
• W2610479249 hasLocation W26104792492 @default.
• W2610479249 hasLocation W26104792493 @default.
• W2610479249 hasOpenAccess W2610479249 @default.
• W2610479249 hasPrimaryLocation W26104792491 @default.
• W2610479249 hasRelatedWork W1972484052 @default.
• W2610479249 hasRelatedWork W1997569498 @default.
• W2610479249 hasRelatedWork W2006563243 @default.
• W2610479249 hasRelatedWork W2009700107 @default.
• W2610479249 hasRelatedWork W2018300670 @default.
• W2610479249 hasRelatedWork W2092590107 @default.
• W2610479249 hasRelatedWork W2142574026 @default.
• W2610479249 hasRelatedWork W2151562469 @default.

• next