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The databases of transcription factors [PDF]
Hereditas (Beijing), 2011 The control of gene transcription is a critical level of gene expression regulation. The interactions between transcription factors (TF) and their DNA binding sites (TFBS) play a key role at this level. In order to decipher the molecular mechanism of the interactions of TFs with TFBSs and construct transcription regulatory network, it is necessary to ...
Jin-Ke Wang, Hong-Fei Chen
openaire +3 more sources
mBio, 2020 Bacterial gene regulation is governed by often hundreds of transcription factors (TFs) that bind directly to targets on the chromosome. Global studies of TFs usually make assumptions that regulatory targets within model strains will be conserved between ...
James P. R. Connolly +2 more
doaj +1 more source
JASPAR 2020: update of the open-access database of transcription factor binding profiles
Nucleic Acids Res., 2019 JASPAR (http://jaspar.genereg.net) is an open-access database of curated, non-redundant transcription factor (TF)-binding profiles stored as position frequency matrices (PFMs) for TFs across multiple species in six taxonomic groups.
O. Fornes +18 more
semanticscholar +1 more source
Optimization of Transcription Factor Genetic Circuits
Biology, 2022 Transcription factors (TFs) affect the production of mRNAs. In essence, the TFs form a large computational network that controls many aspects of cellular function. This article introduces a computational method to optimize TF networks. The method extends
Steven A. Frank
doaj +1 more source
Predicting Combinatorial Binding of Transcription Factors to Regulatory Elements in the Human Genome by Association Rule Mining [PDF]
, 2007 Cis-acting transcriptional regulatory elements in mammalian genomes typically contain specific combinations of binding sites for various transcription factors. Although some cisregulatory elements have been well studied, the combinations of transcription
Iyer, Vishwanath R. +3 more
core +2 more sources
Targeted Degradation of Transcription Factors by TRAFTACs: Transcription Factor Targeting Chimeras
bioRxiv, 2020 Many diseases, including cancer, stem from aberrant activation and overexpression of oncoproteins that are associated with multiple signaling pathways. Although proteins with catalytic activity are able to be successfully drugged, the majority of other ...
Kusal T. G. Samarasinghe +4 more
semanticscholar +1 more source
Using temporal correlation in factor analysis for reconstructing transcription factor activities [PDF]
, 2008 Two-level gene regulatory networks consist of the transcription factors (TFs) in the top level and their regulated genes in the second level. The expression profiles of the regulated genes are the observed high-throughput data given by experiments such ...
Pournara, Iosifina, Wernisch, Lorenz
core +5 more sources
Human transcription factor protein interaction networks
Nature Communications, 2022 Transcription factors (TFs) interact with several other proteins in the process of transcriptional regulation. Here the authors identify 6703 and 1536 protein–protein interactions for 109 different human TFs through BioID and AP-MS analyses, respectively.
Helka Göös +8 more
doaj +1 more source
Adaptive evolution of transcription factor binding sites [PDF]
, 2004 The regulation of a gene depends on the binding of transcription factors to specific sites located in the regulatory region of the gene. The generation of these binding sites and of cooperativity between them are essential building blocks in the ...
Berg, Johannes +2 more
core +4 more sources
Re-utilization of a transcription factor
eLife, 2016 The temporal transcription factor Krüppel has a dual role in the development of neurons.
Filipe Pinto-Teixeira, Claude Desplan
doaj +1 more source