FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2800281346> ?p ?o ?g. }

• W2800281346 abstract "Today, it is well-known that in eukaryotic cells the complex interplay of transcription factors (TFs) bound to the DNA of promoters and enhancers is the basis for precise and specific control of transcription. Computational methods have been developed for the identification of potentially cooperating TFs through the co-occurrence of their binding sites (TFBSs). One challenge of these methods is the differentiation of TFBS pairs that are specific for a given sequence set from those that are ubiquitously appearing, rendering the results highly dependent on the choice of a proper background set. Here, we present an extension of our previous PC-TraFF approach that estimates the background co-occurrence of any TF pair by preserving the (oligo-) nucleotide composition and, thus, the core of TFBSs in the sequences of interest. Applying our approach to a simulated data set with implanted TFBS pairs, we could successfully identify them as sequence-set specific under a variety of conditions. When we analyzed the gene expression data sets of five breast cancer associated subtypes, the number of overlapping pairs could be dramatically reduced in comparison to our previous approach. As a result, we could identify potentially cooperating transcriptional regulators that are characteristic for each of the five breast cancer subtypes. This indicates that our approach is able to discriminate specific potential TF cooperations against ubiquitously occurring combinations. The results obtained with our method may help to understand the genetic programs governing specific biological processes such as the development of different tumor types." @default.
• W2800281346 created "2018-05-17" @default.
• W2800281346 creator A5021701501 @default.
• W2800281346 creator A5029172959 @default.
• W2800281346 creator A5085199270 @default.
• W2800281346 date "2018-05-29" @default.
• W2800281346 modified "2023-10-16" @default.
• W2800281346 title "Removing Background Co-occurrences of Transcription Factor Binding Sites Greatly Improves the Prediction of Specific Transcription Factor Cooperations" @default.
• W2800281346 cites W1976917060 @default.
• W2800281346 cites W1999928217 @default.
• W2800281346 cites W2011189193 @default.
• W2800281346 cites W2013241680 @default.
• W2800281346 cites W2042252096 @default.
• W2800281346 cites W2044797259 @default.
• W2800281346 cites W2058832897 @default.
• W2800281346 cites W2061674320 @default.
• W2800281346 cites W2071665699 @default.
• W2800281346 cites W2076985742 @default.
• W2800281346 cites W2094036688 @default.
• W2800281346 cites W2096003410 @default.
• W2800281346 cites W2096192964 @default.
• W2800281346 cites W2107575419 @default.
• W2800281346 cites W2108011868 @default.
• W2800281346 cites W2110503722 @default.
• W2800281346 cites W2140128422 @default.
• W2800281346 cites W2146891463 @default.
• W2800281346 cites W2156885385 @default.
• W2800281346 cites W2157840751 @default.
• W2800281346 cites W2160426928 @default.
• W2800281346 cites W2162098540 @default.
• W2800281346 cites W2162778212 @default.
• W2800281346 cites W2184124585 @default.
• W2800281346 cites W2325948191 @default.
• W2800281346 cites W2518862125 @default.
• W2800281346 cites W2770211859 @default.
• W2800281346 cites W2915975108 @default.
• W2800281346 cites W2952615074 @default.
• W2800281346 cites W3099544432 @default.
• W2800281346 doi "https://doi.org/10.3389/fgene.2018.00189" @default.
• W2800281346 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/5986914" @default.
• W2800281346 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/29896218" @default.
• W2800281346 hasPublicationYear "2018" @default.
• W2800281346 type Work @default.
• W2800281346 sameAs 2800281346 @default.
• W2800281346 citedByCount "8" @default.
• W2800281346 countsByYear W28002813462019 @default.
• W2800281346 countsByYear W28002813462020 @default.
• W2800281346 countsByYear W28002813462021 @default.
• W2800281346 countsByYear W28002813462022 @default.
• W2800281346 crossrefType "journal-article" @default.
• W2800281346 hasAuthorship W2800281346A5021701501 @default.
• W2800281346 hasAuthorship W2800281346A5029172959 @default.
• W2800281346 hasAuthorship W2800281346A5085199270 @default.
• W2800281346 hasBestOaLocation W28002813461 @default.
• W2800281346 hasConcept C101762097 @default.
• W2800281346 hasConcept C104317684 @default.
• W2800281346 hasConcept C111936080 @default.
• W2800281346 hasConcept C124101348 @default.
• W2800281346 hasConcept C150194340 @default.
• W2800281346 hasConcept C3662595 @default.
• W2800281346 hasConcept C41008148 @default.
• W2800281346 hasConcept C54355233 @default.
• W2800281346 hasConcept C70721500 @default.
• W2800281346 hasConcept C86339819 @default.
• W2800281346 hasConcept C86803240 @default.
• W2800281346 hasConceptScore W2800281346C101762097 @default.
• W2800281346 hasConceptScore W2800281346C104317684 @default.
• W2800281346 hasConceptScore W2800281346C111936080 @default.
• W2800281346 hasConceptScore W2800281346C124101348 @default.
• W2800281346 hasConceptScore W2800281346C150194340 @default.
• W2800281346 hasConceptScore W2800281346C3662595 @default.
• W2800281346 hasConceptScore W2800281346C41008148 @default.
• W2800281346 hasConceptScore W2800281346C54355233 @default.
• W2800281346 hasConceptScore W2800281346C70721500 @default.
• W2800281346 hasConceptScore W2800281346C86339819 @default.
• W2800281346 hasConceptScore W2800281346C86803240 @default.
• W2800281346 hasLocation W28002813461 @default.
• W2800281346 hasLocation W28002813462 @default.
• W2800281346 hasLocation W28002813463 @default.
• W2800281346 hasLocation W28002813464 @default.
• W2800281346 hasLocation W28002813465 @default.
• W2800281346 hasOpenAccess W2800281346 @default.
• W2800281346 hasPrimaryLocation W28002813461 @default.
• W2800281346 hasRelatedWork W1558256369 @default.
• W2800281346 hasRelatedWork W1977620504 @default.
• W2800281346 hasRelatedWork W2118212175 @default.
• W2800281346 hasRelatedWork W2248477675 @default.
• W2800281346 hasRelatedWork W2516309520 @default.
• W2800281346 hasRelatedWork W2516911135 @default.
• W2800281346 hasRelatedWork W2761295272 @default.
• W2800281346 hasRelatedWork W3033164748 @default.
• W2800281346 hasRelatedWork W3177876754 @default.
• W2800281346 hasRelatedWork W2526796631 @default.
• W2800281346 isParatext "false" @default.
• W2800281346 isRetracted "false" @default.
• W2800281346 magId "2800281346" @default.
• W2800281346 workType "article" @default.