|
| Status |
Public on Oct 09, 2017 |
| Title |
DDL3431_1 |
| Sample type |
SRA |
| |
|
| Source name |
TctR mutant
|
| Organism |
Burkholderia pseudomallei |
| Characteristics |
strain: K96243::delta(tctR)
genotype: TctR mutant
|
| Growth protocol |
Burkholderia pseudomallei were gronw in liquid LB broth at 37C for 4 hours, 4 independent times.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using Zymo Research ZR Fungal/Bacterial RNA miniprep kit following manufacturer's instructions.
Sequencing libraries were generating using standard Illumina ScripSeq v2 library preparation kit and sequenced on Illumina HiSeq2000 at Ambry Genetics (Aliso Viejo, CA)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Reads were mapped to the Burkholderia pseudomallei K96243 genome using CLC Genomics Workbench v 6.0.2, using default settings.
Reads that aligned to the ribosomal RNA loci were removed after mapping, and not accounted in the gene expression analysis.
Genome_build: Burkholderia_pseudomallei_K96243
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample.
|
| |
|
| Submission date |
Oct 08, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Liliana Losada |
| E-mail(s) |
lililo.brown@gmail.com
|
| Organization name |
JCVI
|
| Street address |
9704 Medical Center Dr
|
| City |
Rockville |
| State/province |
MD |
| ZIP/Postal code |
20850 |
| Country |
USA |
| |
|
| Platform ID |
GPL24097 |
| Series (1) |
| GSE104716 |
RNAseq of Burkholderia pseudomallei TctR mutant, a regulator of type VI secretion |
|
| Relations |
| BioSample |
SAMN07759024 |
| SRA |
SRX3260008 |
