|
| Status |
Public on Aug 06, 2018 |
| Title |
Whole exome sequencing analyzed the off-target effect of gene editing through BE3 system. |
| Organism |
Mus musculus |
| Experiment type |
Genome variation profiling by high throughput sequencing
|
| Summary |
We used the whole exome sequencing to analyze the off-target effect of base editing system in mouse genomic DNA, which was extracted from haploid stem cells, mouse tails of semi-cloned embryos and mutant pups. The purpose of this sequencing is to find whether there exists off-target effect in the genome. By obtaining over 100 million reads of each sample from WES, we mapped the reads to the reference data base (mm10) and calculated the numbers of SNVs and indels. After filtering out naturally-occurring variants in the SNP database (dbSNP) and excluding SNPs also found in the wild-type genome, we next compared the DNA sequences at the remaining SNP sites with the on-target sequence. The results indicated that rare off-targets events happened in tested cell and embryos.
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| |
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| Overall design |
The off-target effect of 5 different sgRNAs in 11 different edited cell and tissue samples and 3 control samples.
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| |
|
| Contributor(s) |
Jinsong L, Qing L |
| Citation(s) |
30275529 |
| Submission date |
May 29, 2018 |
| Last update date |
Mar 08, 2019 |
| Contact name |
Qing Li |
| E-mail(s) |
liqing2015@sibcb.ac.cn
|
| Organization name |
Chinese Academy of Science
|
| Department |
institute of biochemistry and cell biology
|
| Lab |
Jinsong Li's Lab
|
| Street address |
320 Yueyang Road
|
| City |
Shanghai |
| ZIP/Postal code |
200031 |
| Country |
China |
| |
|
| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
|
| Samples (14)
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|
| Relations |
| BioProject |
PRJNA473524 |
| SRA |
SRP149179 |
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