|
| Status |
Public on Aug 15, 2021 |
| Title |
WT3 |
| Sample type |
SRA |
| |
|
| Source name |
Bacteria
|
| Organism |
Escherichia coli |
| Characteristics |
strain: PCN033
genotype: WT
|
| Growth protocol |
The bacteria were grown in LB medium at 37 ℃ with shaking for 2 hours
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Bacteria were harvested and mRNA extracted using Trizol reagent.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
The raw RNA-seq data of fastq format were processed by Trimmomatic v.0.36 to remove adaptor sequences.
Clean reads were mapped to the reference genome by Hisat2 (v2.1.0) .
HTSeq-count (v0.9.1) was used to obtain the read count and function information of each gene according to the result of the mapping.
Genome_build: CP006632
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene
|
| |
|
| Submission date |
Aug 12, 2021 |
| Last update date |
Aug 15, 2021 |
| Contact name |
Qi Huang |
| E-mail(s) |
huangqidream@126.com
|
| Phone |
+862787281878
|
| Organization name |
Huazhong Agricultural University
|
| Street address |
No.1 Shizishan Street, Hongshan District, Wuhan 430007, China
|
| City |
Wuhan |
| State/province |
Hubei Province |
| ZIP/Postal code |
430070 |
| Country |
China |
| |
|
| Platform ID |
GPL25368 |
| Series (1) |
| GSE181969 |
mRNA-seq analysis of the Tat mutant of extra-intestinal pathogenic E. coli |
|
| Relations |
| BioSample |
SAMN20741747 |
| SRA |
SRX11726727 |
