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Series GSE179436 Query DataSets for GSE179436
Status Public on Nov 14, 2022
Title PEAC-seq: an unbiased in vivo CRISPR off-target detection technique
Organism Homo sapiens
Experiment type Other
Summary Development of PEAC-seq for unbiased off-target detection and translocation
 
Overall design According to the screen and the tag insertion test, we attached a 21nt cytosine-depleted template to the 3’ of pegRNA. We reasoned that both the on-target and the off-target cleavage sites in the genome will incorporate the complementary sequence of the template, which could further serve as a PCR handle to enrich the unknown cleavage sites caused by Cas9. Inspired by the GUIDE-seq strategy, the genomic DNA was extracted from the cells undergone Cas9 editing and segmented by Tn5. The fragments included cleaved sites were further enriched by a pair of primers, in which one primed at the inserted PCR handle and the other primed at the Tn5 adaptor.
 
Citation(s) 36509752
Submission date Jul 04, 2021
Last update date Jan 06, 2023
Contact name Lijia Ma
E-mail(s) malabdata@westlake.edu.cn
Organization name Westlake university
Department School of Life Sciences
Lab Lijia Ma
Street address Shilongshan Road No.18, Cloud Town, Xihu District
City Hangzhou
State/province Zhejiang
ZIP/Postal code 310024
Country China
 
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (68)
GSM5418001 VEGFA TS1 PEACSeq 10F [T1.10F]
GSM5418002 VEGFA TS1 PEACSeq 15F [T1.15F]
GSM5418003 VEGFA TS1 PEACSeq 18R [T1.18R]
Relations
BioProject PRJNA743687
SRA SRP326887

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE179436_RAW.tar 1.8 Gb (http)(custom) TAR (of TDF)
GSE179436_Section3-processeddata.xlsx 68.8 Kb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file
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