Systematic interrogation of human promoters
S Weingarten-Gabbay, R Nir, S Lubliner… - Genome …, 2019 - genome.cshlp.org
Despite much research, our understanding of the architecture and cis-regulatory elements of
human promoters is still lacking. Here, we devised a high-throughput assay to quantify the …
human promoters is still lacking. Here, we devised a high-throughput assay to quantify the …
Comprehensive analysis of transcriptional promoter structure and function in 1% of the human genome
SJ Cooper, ND Trinklein, ED Anton, L Nguyen… - Genome …, 2006 - genome.cshlp.org
Transcriptional promoters comprise one of many classes of eukaryotic transcriptional
regulatory elements. Identification and characterization of these elements are vital to …
regulatory elements. Identification and characterization of these elements are vital to …
Sequence determinants of human gene regulatory elements
DNA can determine where and when genes are expressed, but the full set of sequence
determinants that control gene expression is unknown. Here, we measured the …
determinants that control gene expression is unknown. Here, we measured the …
Comparative cofactor screens show the influence of transactivation domains and core promoters on the mechanisms of transcription
CC Bell, JJ Balic, L Talarmain, A Gillespie… - Nature Genetics, 2024 - nature.com
Eukaryotic transcription factors (TFs) activate gene expression by recruiting cofactors to
promoters. However, the relationships between TFs, promoters and their associated …
promoters. However, the relationships between TFs, promoters and their associated …
Unraveling determinants of transcription factor binding outside the core binding site
Binding of transcription factors (TFs) to regulatory sequences is a pivotal step in the control
of gene expression. Despite many advances in the characterization of sequence motifs …
of gene expression. Despite many advances in the characterization of sequence motifs …
Functional analysis of transcription factor binding sites in human promoters
Background The binding of transcription factors to specific locations in the genome is
integral to the orchestration of transcriptional regulation in cells. To characterize transcription …
integral to the orchestration of transcriptional regulation in cells. To characterize transcription …
Decoupling of evolutionary changes in transcription factor binding and gene expression in mammals
ES Wong, D Thybert, BM Schmitt, K Stefflova… - Genome …, 2015 - genome.cshlp.org
To understand the evolutionary dynamics between transcription factor (TF) binding and
gene expression in mammals, we compared transcriptional output and the binding …
gene expression in mammals, we compared transcriptional output and the binding …
Wide-scale analysis of human functional transcription factor binding reveals a strong bias towards the transcription start site
Background Transcription factors (TF) regulate expression by binding to specific DNA
sequences. A binding event is functional when it affects gene expression. Functionality of a …
sequences. A binding event is functional when it affects gene expression. Functionality of a …
Benchmark and integration of resources for the estimation of human transcription factor activities
The prediction of transcription factor (TF) activities from the gene expression of their targets
(ie, TF regulon) is becoming a widely used approach to characterize the functional status of …
(ie, TF regulon) is becoming a widely used approach to characterize the functional status of …
Evolution of transcription factor binding through sequence variations and turnover of binding sites
Variations in noncoding regulatory sequences play a central role in evolution. Interpreting
such variations, however, remains difficult even in the context of defined attributes such as …
such variations, however, remains difficult even in the context of defined attributes such as …