Identification of non-coding silencer elements and their regulation of gene expression

B Pang, JH van Weerd, FL Hamoen… - … Reviews Molecular Cell …, 2023 - nature.com
Cell type-and differentiation-specific gene expression is precisely controlled by genomic non-
coding regulatory elements (NCREs), which include promoters, enhancers, silencers and …

SilencerDB: a comprehensive database of silencers

W Zeng, S Chen, X Cui, X Chen, Z Gao… - Nucleic acids …, 2021 - academic.oup.com
Gene regulatory elements, including promoters, enhancers, silencers, etc., control
transcriptional programs in a spatiotemporal manner. Though these elements are known to …

Identification of human silencers by correlating cross-tissue epigenetic profiles and gene expression

D Huang, HM Petrykowska, BF Miller, L Elnitski… - Genome …, 2019 - genome.cshlp.org
Compared to enhancers, silencers are notably difficult to identify and validate
experimentally. In search for human silencers, we utilized H3K27me3-DNase I …

Transcriptional silencers: driving gene expression with the brakes on

JA Segert, SS Gisselbrecht, ML Bulyk - Trends in Genetics, 2021 - cell.com
Silencers are regulatory DNA elements that reduce transcription from their target promoters;
they are the repressive counterparts of enhancers. Although discovered decades ago, and …

[HTML][HTML] Candidate silencer elements for the human and mouse genomes

N Doni Jayavelu, A Jajodia, A Mishra… - Nature …, 2020 - nature.com
The study of gene regulation is dominated by a focus on the control of gene activation or
increase in the level of expression. Just as critical is the process of gene repression or …

DeepICSH: a complex deep learning framework for identifying cell-specific silencers and their strength from the human genome

T Zhang, L Li, H Sun, D Xu, G Wang - Briefings in Bioinformatics, 2023 - academic.oup.com
Silencers are noncoding DNA sequence fragments located on the genome that suppress
gene expression. The variation of silencers in specific cells is closely related to gene …

Systematic identification of silencers in human cells

B Pang, MP Snyder - Nature genetics, 2020 - nature.com
The majority of the human genome does not encode proteins. Many of these noncoding
regions contain important regulatory sequences that control gene expression. To date, most …

Detection and characterization of silencers and enhancer-blockers in the greater CFTR locus

HM Petrykowska, CM Vockley, L Elnitski - Genome research, 2008 - genome.cshlp.org
Silencers and enhancer-blockers (EBs) are cis-acting, negative regulatory elements (NREs)
that control interactions between promoters and enhancers. Although relatively …

Enhancer–silencer transitions in the human genome

D Huang, I Ovcharenko - Genome Research, 2022 - genome.cshlp.org
Dual-function regulatory elements (REs), acting as enhancers in some cellular contexts and
as silencers in others, have been reported to facilitate the precise gene regulatory response …

Transcriptional gene silencing in humans

MS Weinberg, KV Morris - Nucleic acids research, 2016 - academic.oup.com
It has been over a decade since the first observation that small non-coding RNAs can
functionally modulate epigenetic states in human cells to achieve functional transcriptional …