|
| Status |
Public on Mar 15, 2012 |
| Title |
B. anthracis vegeative cell control (bottom strand) |
| Sample type |
SRA |
| |
|
| Source name |
Vegetative bacterial cells, control
|
| Organism |
Bacillus anthracis |
| Characteristics |
strain: Sterne 34F2
treatment: control
|
| Growth protocol |
50 ml cultures were grown to OD600 0.4-0.5 in LB before harvesting.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Phenol-chloroform extraction was used to isolate total RNA, which was enriched using the Ambion MicrobExpress kit. All RNA samples were tested for integrity on a BioRad Experion capillary electrophoresis system. Possible residual DNA was removed by addition of Ambion Turbo DNase. Library preparation for Applied Biosystems SOLiD sequencing was done according to the manufacturer’s Whole Transcriptome Library Preparation protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
AB SOLiD System 3.0 |
| |
|
| Description |
4 technical replicates.
|
| Data processing |
Raw color space data from SOLiD sequencing was mapped to the Bacillus anthracis Ames Ancestor genome (NC_007530.2, NC_007322.2, NC_007323.3) using SOCs software with a mismatch cutoff of 5 nucleotides.
Genome_build: NC_007530.2, NC_007322.2, NC_007323.3
Supplementary_files_format_and_content: *txt: Alignments to the B. anthracis genome using SOCS software.
|
| |
|
| Submission date |
Mar 14, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Tim Read |
| E-mail(s) |
tread@emory.edu
|
| Organization name |
Emory University
|
| Street address |
615 Michael Street, Suite 301
|
| City |
Atlanta |
| ZIP/Postal code |
30322 |
| Country |
USA |
| |
|
| Platform ID |
GPL15353 |
| Series (1) |
| GSE36506 |
Strand-specific RNA-seq reveals ordered patterns of sense and antisense transcription in Bacillus anthracis |
|
| Relations |
| SRA |
SRX129739 |
| BioSample |
SAMN00828645 |
