FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W4285799853> ?p ?o ?g. }

• W4285799853 abstract "Abstract Transcription factors (TFs) bind to different parts of the genome in different types of cells. These differences may be due to alterations in the DNA-binding preferences of a TF itself, or mechanisms such as chromatin accessibility, steric hindrance, or competitive binding, that result in a DNA “signature” of differential binding. We propose a method called SigTFB (Signatures of TF Binding), based on deep learning, to detect and quantify cell type specificity in a TF’s DNA-binding signature. We conduct a wide scale investigation of 194 distinct TFs across various cell types. We demonstrate the existence of cell type specificity in approximately 30% of the TFs. We stratify our analysis by different antibodies for the same TF, to rule out the possibility of certain technical artifacts, yet we find that cell type specificity estimates are largely consistent when the same TF is assayed with different antibodies. To further explain the biology behind a TF’s cell type specificity, or lack thereof, we conduct a wide scale motif enrichment analysis of all TFs in question. We show that the presence of alternate motifs correlates with a higher degree of cell type specificity in TFs, such as ATF7, while finding consistent motifs throughout is usually associated with the absence of cell type specificity in a TF, such as CTCF. In particular, we observe that several important TFs show distinct DNA binding signatures in different cancer cell types, which may point to important differences in modes of action. Moreover, we find that motif enrichment sometimes correlates with gene expression in TFs with higher cell type specificity. Our comprehensive investigation provides a basis for further study of the mechanisms behind differences in TF-DNA binding in different cell types." @default.
• W4285799853 created "2022-07-19" @default.
• W4285799853 creator A5009680404 @default.
• W4285799853 creator A5011549216 @default.
• W4285799853 creator A5016281244 @default.
• W4285799853 date "2022-07-18" @default.
• W4285799853 modified "2023-09-28" @default.
• W4285799853 title "Cell Type Specific DNA Signatures of Transcription Factor Binding" @default.
• W4285799853 cites W1019830208 @default.
• W4285799853 cites W1506343731 @default.
• W4285799853 cites W1963821864 @default.
• W4285799853 cites W1966413945 @default.
• W4285799853 cites W1978279515 @default.
• W4285799853 cites W1980316914 @default.
• W4285799853 cites W1989419347 @default.
• W4285799853 cites W1994150489 @default.
• W4285799853 cites W1997836203 @default.
• W4285799853 cites W2000626262 @default.
• W4285799853 cites W2008051478 @default.
• W4285799853 cites W2021536610 @default.
• W4285799853 cites W2026690931 @default.
• W4285799853 cites W2042392223 @default.
• W4285799853 cites W2045273474 @default.
• W4285799853 cites W2050879870 @default.
• W4285799853 cites W2063815548 @default.
• W4285799853 cites W2072034951 @default.
• W4285799853 cites W2073149136 @default.
• W4285799853 cites W2082181177 @default.
• W4285799853 cites W2092019611 @default.
• W4285799853 cites W2095312050 @default.
• W4285799853 cites W2096745936 @default.
• W4285799853 cites W2097795961 @default.
• W4285799853 cites W2102819831 @default.
• W4285799853 cites W2103555733 @default.
• W4285799853 cites W2107032654 @default.
• W4285799853 cites W2111919654 @default.
• W4285799853 cites W2118608526 @default.
• W4285799853 cites W2119795320 @default.
• W4285799853 cites W2122097157 @default.
• W4285799853 cites W2123463963 @default.
• W4285799853 cites W2123734813 @default.
• W4285799853 cites W2125508747 @default.
• W4285799853 cites W2134622777 @default.
• W4285799853 cites W2135030836 @default.
• W4285799853 cites W2140952049 @default.
• W4285799853 cites W2152121035 @default.
• W4285799853 cites W2155844132 @default.
• W4285799853 cites W2166103265 @default.
• W4285799853 cites W2172697812 @default.
• W4285799853 cites W2198606573 @default.
• W4285799853 cites W2259938310 @default.
• W4285799853 cites W2328985298 @default.
• W4285799853 cites W2336509392 @default.
• W4285799853 cites W2341502025 @default.
• W4285799853 cites W2345512687 @default.
• W4285799853 cites W2554247923 @default.
• W4285799853 cites W2558496162 @default.
• W4285799853 cites W2584985680 @default.
• W4285799853 cites W2589838901 @default.
• W4285799853 cites W2608458533 @default.
• W4285799853 cites W2767749844 @default.
• W4285799853 cites W2791178241 @default.
• W4285799853 cites W2806518464 @default.
• W4285799853 cites W2888687250 @default.
• W4285799853 cites W2895064298 @default.
• W4285799853 cites W2904110212 @default.
• W4285799853 cites W2948878452 @default.
• W4285799853 cites W2949152404 @default.
• W4285799853 cites W2950993016 @default.
• W4285799853 cites W2951410692 @default.
• W4285799853 cites W2960370523 @default.
• W4285799853 cites W2979576817 @default.
• W4285799853 cites W2980777527 @default.
• W4285799853 cites W2998998607 @default.
• W4285799853 cites W3002671441 @default.
• W4285799853 cites W3007172120 @default.
• W4285799853 cites W3020625813 @default.
• W4285799853 cites W3036060453 @default.
• W4285799853 cites W3046196569 @default.
• W4285799853 cites W3049103650 @default.
• W4285799853 cites W3088687225 @default.
• W4285799853 cites W3112234048 @default.
• W4285799853 cites W3119507732 @default.
• W4285799853 cites W3135625811 @default.
• W4285799853 cites W3137533336 @default.
• W4285799853 cites W3138674704 @default.
• W4285799853 cites W3168120332 @default.
• W4285799853 cites W3215596355 @default.
• W4285799853 cites W4248318091 @default.
• W4285799853 cites W4251165697 @default.
• W4285799853 doi "https://doi.org/10.1101/2022.07.15.500259" @default.
• W4285799853 hasPublicationYear "2022" @default.
• W4285799853 type Work @default.
• W4285799853 citedByCount "0" @default.
• W4285799853 crossrefType "posted-content" @default.
• W4285799853 hasAuthorship W4285799853A5009680404 @default.
• W4285799853 hasAuthorship W4285799853A5011549216 @default.
• W4285799853 hasAuthorship W4285799853A5016281244 @default.
• W4285799853 hasBestOaLocation W42857998531 @default.
• W4285799853 hasConcept C101762097 @default.

• next