FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2888553721> ?p ?o ?g. }

• W2888553721 abstract "In embryonic stem cells (ESCs), a core network of transcription factors establish and maintain the gene expression program necessary to grow indefinitely in cell culture and generate all three primary germ layers. To understand how interactions between four key pluripotency transcription factors (TFs), SOX2, POU5F1 (OCT4), KLF4, and ESRRB, contribute to cis-regulation in mouse ESCs, we assayed two massively parallel reporter assay (MPRA) libraries composed of different combinations of binding sites for these TFs. One library was an exhaustive set of synthetic cis-regulatory elements and the second was a set of genomic sequences with comparable configurations of binding sites. Comparisons between the libraries allowed us to determine the regulatory grammar requirements for these binding sites in constrained synthetic contexts versus genomic sequence contexts. We found that binding site quality is a common attribute for active elements in both the synthetic and genomic contexts. For synthetic regulatory elements, the level of expression is mostly determined by the number of binding sites but is tuned by a grammar that includes position effects. Surprisingly, this grammar appears to only play a small role in setting the output levels of genomic sequences. The relative activity of genomic sequences is best explained by the predicted affinity of binding sites, regardless of identity, and optimized spacing between sites. Our findings highlight the need for detailed examinations of complex sequence space when trying to understand cis-regulatory grammar in the genome." @default.
• W2888553721 created "2018-08-31" @default.
• W2888553721 creator A5039532116 @default.
• W2888553721 creator A5040130962 @default.
• W2888553721 creator A5047315369 @default.
• W2888553721 date "2018-08-22" @default.
• W2888553721 modified "2023-10-18" @default.
• W2888553721 title "Synthetic and genomic regulatory elements reveal aspects of cis regulatory grammar in Mouse Embryonic Stem Cells" @default.
• W2888553721 cites W1683181063 @default.
• W2888553721 cites W1979119703 @default.
• W2888553721 cites W1980253661 @default.
• W2888553721 cites W1988294855 @default.
• W2888553721 cites W1988581590 @default.
• W2888553721 cites W1989004527 @default.
• W2888553721 cites W1990718295 @default.
• W2888553721 cites W1993425307 @default.
• W2888553721 cites W2002344964 @default.
• W2888553721 cites W2005437050 @default.
• W2888553721 cites W2010122622 @default.
• W2888553721 cites W2015396326 @default.
• W2888553721 cites W2017011812 @default.
• W2888553721 cites W2018219462 @default.
• W2888553721 cites W2023508819 @default.
• W2888553721 cites W2027368464 @default.
• W2888553721 cites W2031285837 @default.
• W2888553721 cites W2045362835 @default.
• W2888553721 cites W204955802 @default.
• W2888553721 cites W2051006651 @default.
• W2888553721 cites W2058944050 @default.
• W2888553721 cites W2063114480 @default.
• W2888553721 cites W2069885986 @default.
• W2888553721 cites W2069969538 @default.
• W2888553721 cites W2076439598 @default.
• W2888553721 cites W2082874386 @default.
• W2888553721 cites W2084620487 @default.
• W2888553721 cites W2086876386 @default.
• W2888553721 cites W2091374137 @default.
• W2888553721 cites W2094814523 @default.
• W2888553721 cites W2102619694 @default.
• W2888553721 cites W2112500061 @default.
• W2888553721 cites W2117623697 @default.
• W2888553721 cites W2118608526 @default.
• W2888553721 cites W2121806138 @default.
• W2888553721 cites W2125233822 @default.
• W2888553721 cites W2125987139 @default.
• W2888553721 cites W2132522861 @default.
• W2888553721 cites W2136091734 @default.
• W2888553721 cites W2140425768 @default.
• W2888553721 cites W2140538490 @default.
• W2888553721 cites W2140952049 @default.
• W2888553721 cites W2143855992 @default.
• W2888553721 cites W2151464048 @default.
• W2888553721 cites W2151754128 @default.
• W2888553721 cites W2154855927 @default.
• W2888553721 cites W2157009395 @default.
• W2888553721 cites W2159664283 @default.
• W2888553721 cites W2161072900 @default.
• W2888553721 cites W2163421223 @default.
• W2888553721 cites W2166691503 @default.
• W2888553721 cites W2167300924 @default.
• W2888553721 cites W2172215983 @default.
• W2888553721 cites W2259938310 @default.
• W2888553721 cites W2327770660 @default.
• W2888553721 cites W2337928212 @default.
• W2888553721 cites W2338148720 @default.
• W2888553721 cites W2413629639 @default.
• W2888553721 cites W2536763320 @default.
• W2888553721 cites W2581468399 @default.
• W2888553721 cites W2731142262 @default.
• W2888553721 cites W2781855674 @default.
• W2888553721 cites W2808637518 @default.
• W2888553721 cites W2809204666 @default.
• W2888553721 cites W4246645317 @default.
• W2888553721 cites W622583719 @default.
• W2888553721 doi "https://doi.org/10.1101/398107" @default.
• W2888553721 hasPublicationYear "2018" @default.
• W2888553721 type Work @default.
• W2888553721 sameAs 2888553721 @default.
• W2888553721 citedByCount "3" @default.
• W2888553721 countsByYear W28885537212019 @default.
• W2888553721 countsByYear W28885537212020 @default.
• W2888553721 crossrefType "posted-content" @default.
• W2888553721 hasAuthorship W2888553721A5039532116 @default.
• W2888553721 hasAuthorship W2888553721A5040130962 @default.
• W2888553721 hasAuthorship W2888553721A5047315369 @default.
• W2888553721 hasBestOaLocation W28885537211 @default.
• W2888553721 hasConcept C104317684 @default.
• W2888553721 hasConcept C107824862 @default.
• W2888553721 hasConcept C111936080 @default.
• W2888553721 hasConcept C141231307 @default.
• W2888553721 hasConcept C145103041 @default.
• W2888553721 hasConcept C190796033 @default.
• W2888553721 hasConcept C21592294 @default.
• W2888553721 hasConcept C2777933648 @default.
• W2888553721 hasConcept C54355233 @default.
• W2888553721 hasConcept C70721500 @default.
• W2888553721 hasConcept C86339819 @default.
• W2888553721 hasConcept C86803240 @default.
• W2888553721 hasConceptScore W2888553721C104317684 @default.
• W2888553721 hasConceptScore W2888553721C107824862 @default.

• next