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Series GSE130621 Query DataSets for GSE130621
Status Public on May 13, 2019
Title Mapping of microhomologies at CRISPR/Cas9 deletions
Organism Mus musculus
Experiment type Other
Summary The CRISPR system is widely used in genome editing for biomedical research. Here, using either dual paired Cas9D10A nickases or paired Cas9 nuclease we characterise unintended larger deletions at on-target sites that frequently evade common genotyping practices. We found that unintended larger deletions are prevalent at multiple distinct loci on different chromosomes, in cultured cells and mouse embryos alike. We observed a high frequency of microhomologies at larger deletion breakpoint junctions, suggesting the involvement of microhomology-mediated end joining in their generation. In populations of edited cells, the distribution of larger deletion sizes is dependent on proximity to sgRNAs and cannot be predicted by microhomology sequences alone.
Overall design Targeted amplicon sequencing at two sites targeted using CRISPR/Cas9
Contributor(s) Owens DD, de Bruijn M
Citation(s) 31127293
Submission date May 02, 2019
Last update date Jun 07, 2019
Contact name Dominic Owens
Organization name University of Oxford
Department MRC WIMM
Street address John Radcliffe Hospital
City Oxford
ZIP/Postal code OX3 9DS
Country United Kingdom
Platforms (1)
GPL16417 Illumina MiSeq (Mus musculus)
Samples (4)
GSM3744938 E14 mESCs CRISPR/Cas9 Site 7 replicate 1
GSM3744939 E14 mESCs CRISPR/Cas9 Site 7 replicate 2
GSM3744940 E14 mESCs CRISPR/Cas9 Site 9 replicate 1
BioProject PRJNA540816
SRA SRP194544

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GSE130621_RAW.tar 1000.0 Kb (http)(custom) TAR (of TXT)
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