|
| Status |
Public on Mar 27, 2018 |
| Title |
PAK_AR2A |
| Sample type |
SRA |
| |
|
| Source name |
Bacteria
|
| Organism |
Pseudomonas aeruginosa |
| Characteristics |
family: Pseudomonas
strain: PAK-AR2
genotype: wild type
|
| Treatment protocol |
P. aeruginosa PAK-AR2 and 1-9 cells were grown to OD600 of 0.8 before harvesting。
|
| Growth protocol |
Bacterial cultures were routinely incubated in LB medium supplemented with appropriate antibiotics at 37℃
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The collected cells were treated with RNAprotect Bacteria Reagent (Qiagen) and subjected to snap freezing in liquid nitrogen and delivered to BGI in dry ice for transcriptome resequencing analysis.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Quality control of raw data。
Use SOAPaligner/SOAP2 software to compare with reference sequence
By counting the distribution and coverage of reads on the reference sequence, it is judged whether the comparison result passes the QC of alignment
Differentially expressed genes between samples were screened based on differentially expressed genes.Perform GO function enrichment analysis and pathway significant enrichment analysis
Genome_build: P. aeruginosa PAO1 (NC_002516.2)
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample ...
|
| |
|
| Submission date |
Mar 26, 2018 |
| Last update date |
Mar 28, 2018 |
| Contact name |
jia jia You |
| E-mail(s) |
jiajiayouhnlg2014@163.com
|
| Organization name |
Tianjin University of Science & Technology
|
| Department |
College of Biotechnology
|
| Lab |
Key Laboratory of Industrial Microbiology
|
| Street address |
29 13th Street, TEDA
|
| City |
Tianjin |
| ZIP/Postal code |
300457 |
| Country |
China |
| |
|
| Platform ID |
GPL18644 |
| Series (1) |
| GSE112354 |
Transcriptome analysis of gene expression of PAK-AR2 and 1-9 |
|
| Relations |
| BioSample |
SAMN08797772 |
| SRA |
SRX3849506 |
