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Targeted DNA-seq of Human HepG2 cells following editing with CRISPR/Cas9

ABSTRACT: Targeted DNA-seq of Human HepG2 cells following editing with CRISPR/Cas9

PROVIDER: PRJEB28007 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR2720640_1.fastq.gz	Fastqsanger.gz
	ERR2720640_2.fastq.gz	Fastqsanger.gz
	ERR2720631_1.fastq.gz	Fastqsanger.gz
	ERR2720631_2.fastq.gz	Fastqsanger.gz
	ERR2720632_1.fastq.gz	Fastqsanger.gz

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Targeted DNA-seq of Human HepG2 cells following editing with CRISPR/Cas9

Project description:We performed a large-scale genome-wide characterisation of indels generated following editing with CRISPR/Cas9. We used pools of sgRNAs and performed targeted capture and sequencing of the edited regions in HepG2 cells.

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Targeted DNA-seq of Human HepG2 cells following editing with CRISPR/Cas9 upon chromatin modulation with TSA and EZH2i

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Project description:CRISPRs and TALENs are efficient systems for gene editing in many organisms including plants. In many cases the CRISPR-Cas or TALEN modules are expressed in the plant cell only transiently. Theoretically, transient expression of the editing modules should limit unexpected effects compared to stable transformation. However, very few studies have measured the off-target and unpredicted effects of editing strategies on the plant genome, and none of them have compared these two major editing systems. We conducted a comprehensive genome-wide investigation of off-target mutations using either a CRISPR-Cas9 or a TALEN strategy. We observed a similar number of SNVs and InDels for the two editing strategies compared to control non-transfected plants, with an average of 8.25 SNVs and 19.5 InDels for the CRISPR-edited plants, and an average of 17.5 SNVs and 32 InDels for the TALEN-edited plants. Interestingly, a comparable number of SNVs and InDels could be detected in the PEG-treated control plants. This shows that except for the on-target modifications, the gene editing tools used in this study did not show a significant off-target activity nor unpredicted effects on the genome, and that the PEG treatment in itself was probably the main source of mutations found in the edited plants.

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