|
| Status |
Public on Feb 17, 2014 |
| Title |
HB27-3 |
| Sample type |
SRA |
| |
|
| Source name |
Cells
|
| Organism |
Thermus thermophilus HB27 |
| Characteristics |
genotype: wt
temperature: 65
od600: 0.5
strain: HB27
|
| Treatment protocol |
Cells harvested by centrifugation
|
| Growth protocol |
OD600=0.5 --> RNA isolation
|
| Extracted molecule |
total RNA |
| Extraction protocol |
miRVana isolation kit (Ambion)
Libraries were prepared using standard illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Description |
Linker has barcode GGCTAC
RNA-seq, BaseClear B.V., The Netherlands
|
| Data processing |
Linkers removed by BaseClear B.V., The Netherlands
Reads mapped on Thermus thermophilus HB27 chromosome AND Thermus thermophilus HB27 pTT27 megaplasmid using Rockhopper
Relative expression of genes calculated by comparing averages of total counts for each gene
Genome_build: AE017221 and AE017222
Supplementary_files_format_and_content: Text file with counts per annotated gene. Relative expression of genes in each strain calculated using averages of counts.
|
| |
|
| Submission date |
Nov 26, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
daan christianus swarts |
| E-mail(s) |
daan.swarts@wur.nl
|
| Organization name |
Wageningen UR
|
| Department |
Agrotechnology and Food Sciences Group
|
| Lab |
Microbiology
|
| Street address |
Dreijenplein 10
|
| City |
Wageningen |
| ZIP/Postal code |
6703HB |
| Country |
Netherlands |
| |
|
| Platform ID |
GPL17995 |
| Series (1) |
| GSE52738 |
Thermus thermophilus HB27 WT vs HB27Δago RNAseq |
|
| Relations |
| BioSample |
SAMN02422474 |
| SRA |
SRX383902 |
