FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W3207128141> ?p ?o ?g. }

• W3207128141 abstract "Abstract Background Enhancers are distal cis -regulatory elements required for cell-specific gene expression and cell fate determination. In cancer, enhancer variation has been proposed as a major cause of inter-patient heterogeneity—however, most predicted enhancer regions remain to be functionally tested. Methods We analyzed 132 epigenomic histone modification profiles of 18 primary gastric cancer (GC) samples, 18 normal gastric tissues, and 28 GC cell lines using Nano-ChIP-seq technology. We applied Capture-based Self-Transcribing Active Regulatory Region sequencing (CapSTARR-seq) to assess functional enhancer activity. An Activity-by-contact (ABC) model was employed to explore the effects of histone acetylation and CapSTARR-seq levels on enhancer-promoter interactions. Results We report a comprehensive catalog of 75,730 recurrent predicted enhancers, the majority of which are GC-associated in vivo (> 50,000) and associated with lower somatic mutation rates inferred by whole-genome sequencing. Applying CapSTARR-seq to the enhancer catalog, we observed significant correlations between CapSTARR-seq functional activity and H3K27ac/H3K4me1 levels. Super-enhancer regions exhibited increased CapSTARR-seq signals compared to regular enhancers, even when decoupled from native chromatin contexture. We show that combining histone modification and CapSTARR-seq functional enhancer data improves the prediction of enhancer-promoter interactions and pinpointing of germline single nucleotide polymorphisms (SNPs), somatic copy number alterations (SCNAs), and trans -acting TFs involved in GC expression. We identified cancer-relevant genes ( ING1 , ARL4C ) whose expression between patients is influenced by enhancer differences in genomic copy number and germline SNPs, and HNF4α as a master trans -acting factor associated with GC enhancer heterogeneity. Conclusions Our results indicate that combining histone modification and functional assay data may provide a more accurate metric to assess enhancer activity than either platform individually, providing insights into the relative contribution of genetic ( cis ) and regulatory ( trans ) mechanisms to GC enhancer functional heterogeneity." @default.
• W3207128141 created "2021-10-25" @default.
• W3207128141 creator A5003116163 @default.
• W3207128141 creator A5003742732 @default.
• W3207128141 creator A5006842195 @default.
• W3207128141 creator A5009877131 @default.
• W3207128141 creator A5009903472 @default.
• W3207128141 creator A5012410958 @default.
• W3207128141 creator A5017137833 @default.
• W3207128141 creator A5025969144 @default.
• W3207128141 creator A5025979527 @default.
• W3207128141 creator A5030379979 @default.
• W3207128141 creator A5037229273 @default.
• W3207128141 creator A5037592012 @default.
• W3207128141 creator A5049766408 @default.
• W3207128141 creator A5053619368 @default.
• W3207128141 creator A5054477769 @default.
• W3207128141 creator A5057659333 @default.
• W3207128141 creator A5058260498 @default.
• W3207128141 creator A5059995755 @default.
• W3207128141 creator A5065787609 @default.
• W3207128141 creator A5066912525 @default.
• W3207128141 creator A5072434302 @default.
• W3207128141 creator A5085940065 @default.
• W3207128141 creator A5089341402 @default.
• W3207128141 creator A5091162504 @default.
• W3207128141 date "2021-10-11" @default.
• W3207128141 modified "2023-10-18" @default.
• W3207128141 title "Integrative epigenomic and high-throughput functional enhancer profiling reveals determinants of enhancer heterogeneity in gastric cancer" @default.
• W3207128141 cites W1611935912 @default.
• W3207128141 cites W1757407923 @default.
• W3207128141 cites W1963740134 @default.
• W3207128141 cites W1964963969 @default.
• W3207128141 cites W1965425724 @default.
• W3207128141 cites W1971578941 @default.
• W3207128141 cites W1973064777 @default.
• W3207128141 cites W1977308882 @default.
• W3207128141 cites W1981030303 @default.
• W3207128141 cites W1983522454 @default.
• W3207128141 cites W1992033675 @default.
• W3207128141 cites W2004966039 @default.
• W3207128141 cites W2018838463 @default.
• W3207128141 cites W2029492292 @default.
• W3207128141 cites W2033308373 @default.
• W3207128141 cites W2036619779 @default.
• W3207128141 cites W2037886921 @default.
• W3207128141 cites W2038774969 @default.
• W3207128141 cites W2044826047 @default.
• W3207128141 cites W2049086297 @default.
• W3207128141 cites W2049397238 @default.
• W3207128141 cites W2060484997 @default.
• W3207128141 cites W2077874719 @default.
• W3207128141 cites W2080251115 @default.
• W3207128141 cites W2091533196 @default.
• W3207128141 cites W2091688007 @default.
• W3207128141 cites W2103441770 @default.
• W3207128141 cites W2115717891 @default.
• W3207128141 cites W2117792884 @default.
• W3207128141 cites W2119180969 @default.
• W3207128141 cites W2127779221 @default.
• W3207128141 cites W2128151873 @default.
• W3207128141 cites W2136091734 @default.
• W3207128141 cites W2137291580 @default.
• W3207128141 cites W2138204412 @default.
• W3207128141 cites W2138746692 @default.
• W3207128141 cites W2141820415 @default.
• W3207128141 cites W2144067586 @default.
• W3207128141 cites W2145144631 @default.
• W3207128141 cites W2152505144 @default.
• W3207128141 cites W2154746182 @default.
• W3207128141 cites W2158934466 @default.
• W3207128141 cites W2165154206 @default.
• W3207128141 cites W2168602111 @default.
• W3207128141 cites W2212528563 @default.
• W3207128141 cites W2224894504 @default.
• W3207128141 cites W2231478755 @default.
• W3207128141 cites W2257525665 @default.
• W3207128141 cites W2269026928 @default.
• W3207128141 cites W2280504966 @default.
• W3207128141 cites W2337209831 @default.
• W3207128141 cites W2338408645 @default.
• W3207128141 cites W2464000940 @default.
• W3207128141 cites W2469912802 @default.
• W3207128141 cites W2524890297 @default.
• W3207128141 cites W2561961480 @default.
• W3207128141 cites W2569325224 @default.
• W3207128141 cites W2607363971 @default.
• W3207128141 cites W2702680930 @default.
• W3207128141 cites W2725576187 @default.
• W3207128141 cites W2742000848 @default.
• W3207128141 cites W2754569966 @default.
• W3207128141 cites W2761545097 @default.
• W3207128141 cites W2765741842 @default.
• W3207128141 cites W2765809583 @default.
• W3207128141 cites W2767743008 @default.
• W3207128141 cites W2769418303 @default.
• W3207128141 cites W2772841828 @default.
• W3207128141 cites W2777472005 @default.
• W3207128141 cites W2780843582 @default.
• W3207128141 cites W2799593901 @default.

• next