Abstract
Using deep sequencing (deepCAGE), the FANTOM4 study measured
the genome-wide dynamics of transcription-start-site usage in
the human monocytic cell line THP-1 throughout a time course
of growth arrest and differentiation. Modeling the expression
dynamics in terms of predicted cis-regulatory sites, we
identified the key transcription regulators, their
time-dependent activities and target genes. Systematic siRNA
knockdown of 52 transcription factors confirmed the roles of
individual factors in the regulatory network. Our results
indicate that cellular states are constrained by complex
networks involving both positive and negative regulatory
interactions among substantial numbers of transcription
factors and that no single transcription factor is both
necessary and sufficient to drive the differentiation process.
Links
BibTeX (Download)
@article{FANTOM_Consortium2009-hl,
title = {The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line},
author = {FANTOM Consortium and Harukazu Suzuki and Alistair R R Forrest and ... and Geoffrey J Faulkner and ... and Yukari Takahashi and Jun Kawai and Yoshihide Hayashizaki},
url = {https://www.ncbi.nlm.nih.gov/pubmed/19377474},
doi = {10.1038/ng.375},
year = {2009},
date = {2009-01-01},
journal = {Nat. Genet.},
volume = {41},
number = {5},
pages = {553--562},
abstract = {Using deep sequencing (deepCAGE), the FANTOM4 study measured
the genome-wide dynamics of transcription-start-site usage in
the human monocytic cell line THP-1 throughout a time course
of growth arrest and differentiation. Modeling the expression
dynamics in terms of predicted cis-regulatory sites, we
identified the key transcription regulators, their
time-dependent activities and target genes. Systematic siRNA
knockdown of 52 transcription factors confirmed the roles of
individual factors in the regulatory network. Our results
indicate that cellular states are constrained by complex
networks involving both positive and negative regulatory
interactions among substantial numbers of transcription
factors and that no single transcription factor is both
necessary and sufficient to drive the differentiation process.},
keywords = {Faulknerlab;New Folder},
pubstate = {published},
tppubtype = {article}
}