Matches in SemOpenAlex for { <https://semopenalex.org/work/W4386306073> ?p ?o ?g. }
- W4386306073 abstract "Several studies suggested that transcription factor (TF) binding to DNA may be impaired or enhanced by DNA methylation. We present MeDeMo, a toolbox for TF motif analysis that combines information about DNA methylation with models capturing intra-motif dependencies. In a large-scale study using ChIP-seq data for 335 TFs, we identify novel TFs that show a binding behaviour associated with DNA methylation. Overall, we find that the presence of CpG methylation decreases the likelihood of binding for the majority of methylation-associated TFs. For a considerable subset of TFs, we show that intra-motif dependencies are pivotal for accurately modelling the impact of DNA methylation on TF binding. We illustrate that the novel methylation-aware TF binding models allow to predict differential ChIP-seq peaks and improve the genome-wide analysis of TF binding. Our work indicates that simplistic models that neglect the effect of DNA methylation on DNA binding may lead to systematic underperformance for methylation-associated TFs." @default.
- W4386306073 created "2023-09-01" @default.
- W4386306073 creator A5004883555 @default.
- W4386306073 creator A5027512813 @default.
- W4386306073 creator A5080725960 @default.
- W4386306073 date "2023-08-31" @default.
- W4386306073 modified "2023-10-15" @default.
- W4386306073 title "Widespread effects of DNA methylation and intra-motif dependencies revealed by novel transcription factor binding models" @default.
- W4386306073 cites W1498410508 @default.
- W4386306073 cites W1602702667 @default.
- W4386306073 cites W1699926620 @default.
- W4386306073 cites W1768880427 @default.
- W4386306073 cites W1841647688 @default.
- W4386306073 cites W1900337607 @default.
- W4386306073 cites W1966354073 @default.
- W4386306073 cites W1979273476 @default.
- W4386306073 cites W1984521378 @default.
- W4386306073 cites W1984996540 @default.
- W4386306073 cites W1987557775 @default.
- W4386306073 cites W1989568035 @default.
- W4386306073 cites W1992223383 @default.
- W4386306073 cites W1992848596 @default.
- W4386306073 cites W1995926348 @default.
- W4386306073 cites W1997834806 @default.
- W4386306073 cites W2004855923 @default.
- W4386306073 cites W2024543465 @default.
- W4386306073 cites W2029201460 @default.
- W4386306073 cites W2033169664 @default.
- W4386306073 cites W2039053594 @default.
- W4386306073 cites W2042392223 @default.
- W4386306073 cites W2057000344 @default.
- W4386306073 cites W2059099579 @default.
- W4386306073 cites W2076486660 @default.
- W4386306073 cites W2078641190 @default.
- W4386306073 cites W2097175728 @default.
- W4386306073 cites W2098211567 @default.
- W4386306073 cites W2098412979 @default.
- W4386306073 cites W2102619694 @default.
- W4386306073 cites W2103777723 @default.
- W4386306073 cites W2105249891 @default.
- W4386306073 cites W2112741367 @default.
- W4386306073 cites W2118608526 @default.
- W4386306073 cites W2121967239 @default.
- W4386306073 cites W2128059998 @default.
- W4386306073 cites W2134868027 @default.
- W4386306073 cites W2138160712 @default.
- W4386306073 cites W2139533668 @default.
- W4386306073 cites W2142410561 @default.
- W4386306073 cites W2145091349 @default.
- W4386306073 cites W2148760132 @default.
- W4386306073 cites W2149655654 @default.
- W4386306073 cites W2150029909 @default.
- W4386306073 cites W2151945801 @default.
- W4386306073 cites W2154929782 @default.
- W4386306073 cites W2162530919 @default.
- W4386306073 cites W2163107106 @default.
- W4386306073 cites W2163311832 @default.
- W4386306073 cites W2163964975 @default.
- W4386306073 cites W2167296922 @default.
- W4386306073 cites W2168341872 @default.
- W4386306073 cites W2168642461 @default.
- W4386306073 cites W2170962119 @default.
- W4386306073 cites W2219596071 @default.
- W4386306073 cites W2267666909 @default.
- W4386306073 cites W2273976338 @default.
- W4386306073 cites W2401562190 @default.
- W4386306073 cites W2413160504 @default.
- W4386306073 cites W2547834322 @default.
- W4386306073 cites W2561988220 @default.
- W4386306073 cites W2610903912 @default.
- W4386306073 cites W2617450865 @default.
- W4386306073 cites W2625488274 @default.
- W4386306073 cites W2767749844 @default.
- W4386306073 cites W2770001620 @default.
- W4386306073 cites W2770182290 @default.
- W4386306073 cites W2771671371 @default.
- W4386306073 cites W2773818982 @default.
- W4386306073 cites W2792170325 @default.
- W4386306073 cites W2800247524 @default.
- W4386306073 cites W2807907133 @default.
- W4386306073 cites W2896364049 @default.
- W4386306073 cites W2899379544 @default.
- W4386306073 cites W2912321349 @default.
- W4386306073 cites W2949171083 @default.
- W4386306073 cites W2951214768 @default.
- W4386306073 cites W2952054550 @default.
- W4386306073 cites W2952255603 @default.
- W4386306073 cites W2964685281 @default.
- W4386306073 cites W2977415384 @default.
- W4386306073 cites W2978688742 @default.
- W4386306073 cites W2983170455 @default.
- W4386306073 cites W2990086739 @default.
- W4386306073 cites W3212111676 @default.
- W4386306073 doi "https://doi.org/10.1093/nar/gkad693" @default.
- W4386306073 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/37650641" @default.
- W4386306073 hasPublicationYear "2023" @default.
- W4386306073 type Work @default.
- W4386306073 citedByCount "0" @default.
- W4386306073 crossrefType "journal-article" @default.
- W4386306073 hasAuthorship W4386306073A5004883555 @default.