 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Aug 10, 2021 |
| Title |
Base_ rep1 |
| Sample type |
SRA |
| |
|
| Source name |
bacteria
|
| Organism |
Pseudomonas aeruginosa PAO1 |
| Characteristics |
treatment: untreated
|
| Treatment protocol |
The cells were treated for ~16h in the absence or in the presence of antibiotics (8 μg/mL imipenem, 1 μg/mL ceftazidime, and 1 μg/mL ofloxacin).
|
| Growth protocol |
A glycerol stock of pooled P. aeruginosa CTAGE library was thawed on ice and 1:1000 diluted into 100 mL LB medium.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
The genomic DNA of each sample was extracted by the Ezup column bacteria genomic DNA purification kit (Sangon, Shanghai, China).
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence
Sequenced reads filgered to find singal sequence
Sequenced reads were trimmed for adaptor sequence
mapped to whole genome using bowtie2
analysis insertion site with python program
Genome_build: GCF_000006765.1_ASM676v1_genomic
Supplementary_files_format_and_content: Matrix table with raw UMI counts for every insertion site and every sample
|
| |
|
| Submission date |
Jan 13, 2021 |
| Last update date |
Aug 10, 2021 |
| Contact name |
ren zehui |
| E-mail(s) |
renzh6@mail2.sysu.edu.cn
|
| Organization name |
SUN YAT-SEN UNIVERSITY
|
| Street address |
No. 135, Xingang Xi Road
|
| City |
Guangzhou |
| ZIP/Postal code |
510275 |
| Country |
China |
| |
|
| Platform ID |
GPL28604 |
| Series (1) |
| GSE164797 |
Targeted transposon screening in bacteria by CRISPR/Cas12k-guided transposase |
|
| Relations |
| BioSample |
SAMN17311029 |
| SRA |
SRX9847220 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM5019726_Base_1_insertion_umicounts.txt.gz |
121.2 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
|
|
|
|
 |
