|
| Status |
Public on May 30, 2023 |
| Title |
85_YFP_P |
| Sample type |
SRA |
| |
|
| Source name |
spleen
|
| Organism |
Mus musculus |
| Characteristics |
mouse strain: C57BL/6 and 129SvEv mixed background
tissue: spleen
cell type: Tregs YFP+
genotype: SRC-3 KO
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Tregs were isolated from the spleens of SRC-3KO and WT animals and sorted for YFP. Total RNA was isolated from YFP+ AND YFP- Tregs using Qiagen micro RNAesy plus kit. Quality control of isolated RNA samples was checked using Agilent Bioanalyzer. Takera SMART-Seq v4 kit was used to generate the low throughput sequencing libraries.
RNA libraries were prepared using Takara Bio SMART-seq v4 plus by manufacturer recommended protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Non-tumor bearing
|
| Data processing |
Sequenced reads were trimmed for adaptor sequence using TrimGalore
Reads were mapped to the UCSC mouse reference genome mm10 using STAR
Stringtie was used to evaluate gene expression level as FPKM (Fragments per kilobase of transcript per million read pairs)
Assembly: mm10 GRCm38.101
Supplementary files format and content: tab-delimited text file includes FPKM (Fragments per kilobase of transcript per million read pairs) for each sample
|
| |
|
| Submission date |
Oct 31, 2022 |
| Last update date |
May 30, 2023 |
| Contact name |
Prashi Jain |
| E-mail(s) |
Prashi.Jain@bcm.edu
|
| Organization name |
Baylor college of Medicine
|
| Department |
Molecular and Cellular Biology
|
| Lab |
Bert W. O'Malley
|
| Street address |
1 Baylor Plaza
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE216931 |
Steroid receptor coactivator 3 is a key modulator of regulatory T cell–mediated tumor evasionT Cells |
|
| Relations |
| BioSample |
SAMN31537114 |
| SRA |
SRX18092513 |
