|
| Status |
Public on Dec 26, 2018 |
| Title |
pHM4T |
| Sample type |
SRA |
| |
|
| Source name |
E. coli_pHM4T
|
| Organism |
Escherichia coli str. K-12 substr. MG1655 |
| Characteristics |
genotype/variation: containing an IPTG-inducible pHM4T RNA expression vector
treated with: 1 mM (final concentration)
time point: 10 min before the cell harvest
|
| Growth protocol |
E. coli cells containing SdsR or SdsR(45-103) were grown for 3 h post-inoculation (OD600 of 1.5~1.7) and induced with 1mM IPTG for 10 min before the cell harvest.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
pHM4T_RLE_normalized
|
| Data processing |
The sequence data for the reference genome were retrieved from the NCBI database.
Qualityfiltered reads were aligned to the reference‐genome sequence using Bowtie2.
The relative transcript abundance was measured in RLE.
Genome_build: NC_000913.3
Supplementary_files_format_and_content: For all processed data files, the relative transcript abundance was measured in RLE.
|
| |
|
| Submission date |
Jun 29, 2018 |
| Last update date |
Dec 26, 2018 |
| Contact name |
Younghoon Lee |
| E-mail(s) |
[email protected]
|
| Phone |
+82-42-350-2832
|
| Organization name |
KAIST
|
| Department |
Chemistry
|
| Lab |
Biochemistry Lab
|
| Street address |
KAIST 291 Daehak-ro, Yuseong-gu
|
| City |
Daejeon |
| ZIP/Postal code |
34141 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL18956 |
| Series (1) |
| GSE116435 |
Deregulation of growth-phase-dependent expression of SdsR causes cell death in Escherichia coli |
|
| Relations |
| BioSample |
SAMN09519116 |
| SRA |
SRX4325347 |
