|
| Status |
Public on Jul 18, 2024 |
| Title |
WT5 |
| Sample type |
SRA |
| |
|
| Source name |
colon
|
| Organism |
Mus musculus |
| Characteristics |
tissue: colon
strain: C57BL/6
cell type: regulatory T cell
genotype: WT
Sex: male
age: 16 weeks old
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Tregs (CD45+CD3+CD4+CD25+GFP+) were sort-purified from Apc Min/+ Foxp3 DTR colon tumor or Foxp3 DTR mice.
Sorted cells were used to prepare RNA sequencing libraries using the TruePrep® DNA Library Prep Kit V2 for Illumina following manufacturer's protocols..
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Smart-seq2
|
| Data processing |
Clean reads were obtained by removing reads containing adapter, N base and low quality from raw data.
Paired-end clean reads were aligned to the reference genome (mm10) using Hisat2 (v2.0.5).
featureCounts (v1.5.0-p3) was used to count the reads numbers mapped to each gene. And then FPKM of each gene was calculated based on the length of the geneand reads count mapped to this gene.
Assembly: mm10
Supplementary files format and content: tab-delimited text files include count values for each sample
|
| |
|
| Submission date |
Jun 05, 2023 |
| Last update date |
Jul 18, 2024 |
| Contact name |
Shuqin Li |
| E-mail(s) |
shuqin@stu.xmu.edu.cn
|
| Organization name |
Xiamen University
|
| Department |
Life Science
|
| Lab |
Kairui Mao Lab
|
| Street address |
Xiang'an south rd, Xiang'an district
|
| City |
Xiamen |
| State/province |
Fujian Province |
| ZIP/Postal code |
361000 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE234180 |
Lymphatic-localized Treg-mregDC crosstalk limits antigen trafficking and restrains anti-tumor immunity [RNA-seq] |
| GSE234186 |
Lymphatic-localized Treg-mregDC crosstalk limits antigen trafficking and restrains anti-tumor immunity |
|
| Relations |
| BioSample |
SAMN35637074 |
| SRA |
SRX20598205 |
