Deciphering eukaryotic gene-regulatory logic with 100 million random promoters
How transcription factors (TFs) interpret cis-regulatory DNA sequence to control gene
expression remains unclear, largely because past studies using native and engineered …
expression remains unclear, largely because past studies using native and engineered …
Inferring gene regulatory logic from high-throughput measurements of thousands of systematically designed promoters
E Sharon, Y Kalma, A Sharp, T Raveh-Sadka… - Nature …, 2012 - nature.com
Despite extensive research, our understanding of the rules according to which cis-regulatory
sequences are converted into gene expression is limited. We devised a method for …
sequences are converted into gene expression is limited. We devised a method for …
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 …
[HTML][HTML] 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 …
Manipulating nucleosome disfavoring sequences allows fine-tune regulation of gene expression in yeast
Understanding how precise control of gene expression is specified within regulatory DNA
sequences is a key challenge with far-reaching implications. Many studies have focused on …
sequences is a key challenge with far-reaching implications. Many studies have focused on …
High-resolution DNA-binding specificity analysis of yeast transcription factors
Transcription factors (TFs) regulate the expression of genes through sequence-specific
interactions with DNA-binding sites. However, despite recent progress in identifying in vivo …
interactions with DNA-binding sites. However, despite recent progress in identifying in vivo …
[HTML][HTML] A synthetic biology framework for programming eukaryotic transcription functions
Eukaryotic transcription factors (TFs) perform complex and combinatorial functions within
transcriptional networks. Here, we present a synthetic framework for systematically …
transcriptional networks. Here, we present a synthetic framework for systematically …
[HTML][HTML] Curated collection of yeast transcription factor DNA binding specificity data reveals novel structural and gene regulatory insights
Abstract Background Transcription factors (TFs) play a central role in regulating gene
expression by interacting with cis-regulatory DNA elements associated with their target …
expression by interacting with cis-regulatory DNA elements associated with their target …
TATA is a modular component of synthetic promoters
I Mogno, F Vallania, RD Mitra, BA Cohen - Genome research, 2010 - genome.cshlp.org
The expression of most genes is regulated by multiple transcription factors. The interactions
between transcription factors produce complex patterns of gene expression that are not …
between transcription factors produce complex patterns of gene expression that are not …
Promoter architecture dictates cell-to-cell variability in gene expression
Variability in gene expression among genetically identical cells has emerged as a central
preoccupation in the study of gene regulation; however, a divide exists between the …
preoccupation in the study of gene regulation; however, a divide exists between the …