|
| Status |
Public on Sep 01, 2015 |
| Title |
S. enterica transcriptome analysis in mouse B cells FACS sorted from the spleen |
| Sample type |
SRA |
| |
|
| Source name |
RNA extracted from FACS sorted B cells infected with S. enterica 14028
|
| Organism |
Mus musculus |
| Characteristics |
infection: Samonella enterica strain 14028
tissue: spleen
|
| Treatment protocol |
none
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mice were infected with S. enterica strain 14028. Spleens were collected, homogenized and cells FACS sorted. Total RNA was extracted using the Ambion mirVana RNA isolation kit. Purified RNA was depleted of rRNA utilizing the epicentre ribozero metabacteria and eukaryotic kits. Illumina standard HISeq library construction.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
none
|
| Data processing |
CLC workbench
RNASeq analysis protocol
Mapping was limited to a minimum length franction of 0.8, and minimum similarity fraction of 0.8 and a maximum hit of 10.
Genome_build: reference mapping genome S. enterica 14028
Supplementary_files_format_and_content: tab text-delimited with total and unique reads. Also contains RPKM values, chromosomal coordinates and feature ID.
|
| |
|
| Submission date |
Aug 17, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Marcus Jones |
| E-mail(s) |
mjones@jcvi.org
|
| Organization name |
JCVI
|
| Street address |
4120 Torrey Pines Road
|
| City |
San Diego |
| State/province |
CA |
| ZIP/Postal code |
92037 |
| Country |
USA |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE40211 |
RNASeq analysis of Salmonella B cell infection model |
|
| Relations |
| SRA |
SRX179286 |
| BioSample |
SAMN01120956 |
