NF-Y is a trimeric Transcription Factor -TF- which binds with high selectivity to the conserved CCAAT element. Individual ChIP-seq analysis as well as ENCODE have progressively identified locations shared by other TFs. Here, we have analyzed data introduced by ENCODE over the last five years in K562, HeLa-S3 and GM12878, including several chromatin features, as well RNA-seq profiling of HeLa-S3 cells after NF-Y inactivation. We double the number of sequence-specific TFs and co-factors reported. We catalogue them in 4 classes based on co-association criteria, infer target genes categorizations, identify positional bias of binding sites and gene expression changes. Larger and novel co-associations emerge, specifically concerning subunits of repressive complexes as well as RNA-binding proteins. On the one hand, these data better define NF-Y association with single members of major classes of TFs, on the other, they suggest that it might have a wider role in the control of mRNA production.
On the NF-Y regulome as in ENCODE (2019) / M. Ronzio, A. Bernardini, G. Pavesi, R. Mantovani, D. Dolfini. - In: PLOS COMPUTATIONAL BIOLOGY. - ISSN 1553-734X. - 16:12(2020).
|Titolo:||On the NF-Y regulome as in ENCODE (2019)|
RONZIO, MIRKO (Primo)
BERNARDINI, ANDREA (Secondo)
MANTOVANI, ROBERTO (Penultimo)
DOLFINI, DILETTA (Ultimo)
|Parole Chiave:||CCAAT-Binding Factor; Chromatin; Chromatin Immunoprecipitation; Datasets as Topic; HeLa Cells; Humans; Sequence Analysis, RNA|
|Settore Scientifico Disciplinare:||Settore BIO/18 - Genetica|
Settore BIO/11 - Biologia Molecolare
Settore INF/01 - Informatica
|Data di pubblicazione:||2020|
|Data ahead of print / Data di stampa:||28-dic-2020|
|Digital Object Identifier (DOI):||http://dx.doi.org/10.1371/journal.pcbi.1008488|
|Appare nelle tipologie:||01 - Articolo su periodico|