|
| Status |
Public on Oct 07, 2019 |
| Title |
Sample 578_Treg_HPGD_KO |
| Sample type |
SRA |
| |
|
| Source name |
Treg_HPGD_KO
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57BL/6
genotype/variation: HPGD KO
tissue: spleen
cell type: regulatory CD4+ T cells
|
| Growth protocol |
Cells were isolated from spleens
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were isolated by cell sorting, lyzed in Qiazol and RNA isolated. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 10 ng of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Description |
Sample 578
|
| Data processing |
Illumina Casava1.8 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm10 whole genome using TopHat with default parameters.
mRNA quantification according to RefSeq Transcripts - 2014-07-30.
raw read counts were normalized by DE-Seq.
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include DE-Seq normailzed expression values for each Sample.
|
| |
|
| Submission date |
Oct 22, 2014 |
| Last update date |
Oct 07, 2019 |
| Contact name |
Joachim Schultze |
| E-mail(s) |
j.schultze@uni-bonn.de
|
| Organization name |
LIMES (Life and Medical Sciences Center Genomics and Immunoregulation)
|
| Department |
Genomics and Immunoregulation
|
| Street address |
Carl-Troll-Strasse 31
|
| City |
Bonn |
| State/province |
NRW |
| ZIP/Postal code |
53115 |
| Country |
Germany |
| |
|
| Platform ID |
GPL18480 |
| Series (1) |
| GSE62579 |
Prostaglandin E2-mediated T cell suppression requires expression of hydroxyprostaglandin dehydrogenase in regulatory T cells. |
|
| Relations |
| BioSample |
SAMN03135126 |
| SRA |
SRX738128 |
