GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM988446 Query DataSets for GSM988446
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
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
SRA SRX179286
BioSample SAMN01120956

Supplementary file Size Download File type/resource
GSM988446_B_cell_RNASeq_analysis.txt.gz 86.4 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap