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Homo sapiens

ABSTRACT: Highly specific epigenome editing by CRISPR-Cas9 repressors for silencing of distal regulatory elements

PROVIDER: PRJNA290036 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR2103670.fastq.gz	Fastqsanger.gz
	SRR2103671.fastq.gz	Fastqsanger.gz
	SRR2103672.fastq.gz	Fastqsanger.gz
	SRR2103673.fastq.gz	Fastqsanger.gz
	SRR2103664.fastq.gz	Fastqsanger.gz

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CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome [SKBR3 DNase]

Project description:Large genome mapping consortia and thousands of genome-wide association studies have identified non-protein coding elements in the genome as a having a central role in tissue development, cell-type specification, response to environmental or pharmacologic signals, and susceptibility to most common diseases. However, decoding the function of the millions of putative regulatory elements discovered in these studies remains a primary challenge. New CRISPR/Cas9-based epigenome editing technologies have enabled the precise perturbation of the activity of specific regulatory elements. Here we describe CRISPR/Cas9-based Epigenomic Regulatory Element Screening (CERES) for high-throughput screening of regulatory element activity within the native genomic context. We perform both loss- and gain-of-function screens with complementary epigenome editing tools to identify known and unknown regulatory elements of medically relevant genes in human cells. The high-throughput functional annotation of putative regulatory elements by CERES constitutes a new platform for screening biological mechanisms that cannot be perturbed by traditional methods.

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CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome [CERES]

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dHyperCas12a enables multiplexed CRISPRi screens

Project description:Interactions between multiple genes or cis-regulatory elements (CREs) underlie a wide range of biological processes in both health and disease. Here, we combine a hyper-efficient version of Lachnospiraceae bacterium dCas12a (dHyperLbCas12a) with RNA Polymerase II expression of long CRISPR RNA (crRNA) arrays to enable efficient highly-multiplexed epigenome editing. We demonstrate that the dCas12a system is highly effective for high-throughput screens. We use four different dCas12a repressors and a ~900-member library of crRNA arrays containing four crRNAs each to target the promoters of essential genes or cell surface negative controls. This fitness screen allows us to compare the activity of different dCas12a repressors across many genomic loci.

2025-10-28 | GSE278336 | GEO

CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome

Project description:This SuperSeries is composed of the SubSeries listed below. Large genome mapping consortia and thousands of genome-wide association studies have identified non-protein coding elements in the genome as a having a central role in tissue development, cell-type specification, response to environmental or pharmacologic signals, and susceptibility to most common diseases. However, decoding the function of the millions of putative regulatory elements discovered in these studies remains a primary challenge. New CRISPR/Cas9-based epigenome editing technologies have enabled the precise perturbation of the activity of specific regulatory elements. Here we describe CRISPR/Cas9-based Epigenomic Regulatory Element Screening (CERES) for high-throughput screening of regulatory element activity within the native genomic context. We perform both loss- and gain-of-function screens with complementary epigenome editing tools to identify known and unknown regulatory elements of medically relevant genes in human cells. The high-throughput functional annotation of putative regulatory elements by CERES constitutes a new platform for screening biological mechanisms that cannot be perturbed by traditional methods.

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CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome

Project description:CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome

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Project description:CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome [CERES]

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miRNA-seq of HEK293 cell lines on Illumina iSeq100 instrument

Project description:A validation experiment performed on HEK293 cell lines after genome editing. The design contains three duplicate runs consisted of: HEK293 wild type cell line HEK293 with MIR484 gene knockdown using CRISPR-Cas9 HEK293 with MIR185 gene knockout using CRISPR-Cas9

2023-06-16 | E-MTAB-13009 | biostudies-arrayexpress

Homo sapiens

Project description:CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome [SKBR3 DNase]

| PRJNA379975 | ENA

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