|
| Status |
Public on Jul 01, 2023 |
| Title |
A.baumannii polymyxin B rep2 |
| Sample type |
SRA |
| |
|
| Source name |
bacteria
|
| Organism |
Acinetobacter baumannii |
| Characteristics |
cell line: bacteria
cell type: A. baumannii
genotype: WT
treatment: polymyxin B
time: 4h
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Rneasy mini plus kit (Qiagen). 1.3 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries for RNA-seq were prepared using SMARTER mRNA-Seq Library Prep Kit following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Data Filtering criteria: 1) Use Cutadapt to remove the sequence of 3' end band connectors; 2) Reads with average quality scores lower than Q20 were removed.
Alignment software: Bowtie2
Supplementary files format and content: tab-delimited text files include FPKM values for each Sample
|
| |
|
| Submission date |
Nov 17, 2022 |
| Last update date |
Jul 01, 2023 |
| Contact name |
Xingchen Bian |
| E-mail(s) |
19111030053@fudan.edu.cn
|
| Phone |
02152888193
|
| Organization name |
Huashan hospital, Fudan University
|
| Street address |
Fudan university, Huashan hospital
|
| City |
Shanghai |
| State/province |
Shanghai |
| ZIP/Postal code |
200040 |
| Country |
China |
| |
|
| Platform ID |
GPL28641 |
| Series (1) |
| GSE218219 |
Transcriptomic investigation of the modes of action of polymyxins and colistin/sulbactam combination against carbapenem-resistant Acinetobacter baumannii |
|
| Relations |
| BioSample |
SAMN31773462 |
| SRA |
SRX18295490 |
