|
| Status |
Public on May 01, 2009 |
| Title |
Mid-log_CO2_rep1_Illumina |
| Sample type |
SRA |
| |
|
| Source name |
vegetative cells
|
| Organism |
Bacillus anthracis |
| Characteristics |
strain: Sterne34F2
growth phase: mid-log
optical density: 0.4
|
| Growth protocol |
Standard growth in Modified G medium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Samples were enriched for mRNA by depleting the 16S and 23S ribosomal RNAs and converted to cDNA.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Description |
variable = atmosphere: 15% CO2
|
| Data processing |
Reads were aligned to B. anthracis Ames ancestor using SOAP and sequence census of the reference genome was calculated using ad hoc Perl scripts.
SOAP output files with README are attached. The Combined Census files are attached - in these files, each line corresponds to a single nucleotide in the reference genome (NC_007530.2 and pxO1 plasmid NC_007322.2). The first column is the position (counting from 1... using the FASTA reference sequence), and the second column is the number of times that position is represented in the data set being mapped (i.e., the sequence coverage depth).
|
| |
|
| Submission date |
Nov 10, 2008 |
| Last update date |
May 15, 2019 |
| Contact name |
Nicholas Bergman |
| E-mail(s) |
nickbergman@gatech.edu
|
| Phone |
404 894 8418
|
| Organization name |
Georgia Institute of Technology
|
| Department |
Biology
|
| Street address |
310 Ferst Dr., Rm 231
|
| City |
Atlanta |
| State/province |
GA |
| ZIP/Postal code |
30332 |
| Country |
USA |
| |
|
| Platform ID |
GPL9410 |
| Series (1) |
| GSE13543 |
B. anthracis transcriptome analysis using Illumina and SOLiD sequencing |
|
| Relations |
| SRA |
SRX011820 |
| BioSample |
SAMN00004020 |
