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Sample GSM8163411 Query DataSets for GSM8163411
Status Public on Mar 25, 2024
Title plasmid DNA fragments, amplified, before screening
Sample type SRA
Source name PO1f
Organism synthetic construct
Characteristics cell line: PO1f
cell type: yeast cell
Growth protocol Y. lipolytica transformed with the whole-genome sgRNA plasmid library was inoculated in SD-Leu medium. When cell growth reached the late exponential phase (after approximately 36 hours), 1 mL of culture was collected for plasmid extraction.
Extracted molecule other
Extraction protocol Plasmid extraction was performed using ZymoprepTM Yeast Plasmid Miniprep II (Zymo Research Corporation).
Sequences containing spacers in sgRNA plasmids were amplified via PCR, purified, fragmented, and their ends were repaired and reformed to become clusters.
Library strategy OTHER
Library source other
Library selection other
Instrument model HiSeq X Ten
Data processing The original data of sequencing results were subjected to image Base calling by using the software CASAVA(v1.8.2), and the quality was preliminarily analyzed.
The overlap regions of paired-end sequencing results were merged.
Through sequences alignment, the abundance of spacer of every sgRNA plasmid could be determined.
Assembly: YarliW29
Supplementary files format and content: of sgRNA spacers before screening
Supplementary files format and content: of sgRNA spacers after acetic acid screening
Supplementary files format and content: of sgRNA spacers after furfural screening
Library strategy: CRISPR screen
Submission date Mar 24, 2024
Last update date Mar 25, 2024
Contact name Qianxi He
Organization name Tianjin University
Street address Yaguan road 135
City Tianjin
ZIP/Postal code 300000
Country China
Platform ID GPL26697
Series (1)
GSE262333 Mining novel gene targets for improving tolerance to furfural and acetic acid in Yarrowia lipolytica using whole-genome clustered regularly interspaced short palindromic repeats interference library [CRISPR screen]
BioSample SAMN40594208
SRA SRX24035273

Supplementary file Size Download File type/resource
GSM8163411_ngs_before.xlsx 39.8 Mb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA

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