|
| Status |
Public on Jul 16, 2023 |
| Title |
Mouse splenic Lrig1+CD4+ T cells, rep2 |
| Sample type |
SRA |
| |
|
| Source name |
Spleen
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Spleen
cell line: Primary lymphocytes
cell type: T cells
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the RNeasy Plus Micro Kit (QIAGEN). 1ug of RNA was used for the construction of sequencing library.
RNA library construction for RNA-seq was performed by TruSeq Stranded mRNA LT Sample Prep Kit (Illumina) following manufacturer's instruction.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Sequencing reads were trimmed for adaptor sequence and low-quality sequence using Trimmomatic (v.0.38).
Trimmed sequence reads were mapped to GRCm38/mm10 using HISAT2 (v.2.1.0) through Bowtie2 aligner (v.2.3.4.1)
Read count extraction and normalization were performed by StringTie (v.2.1.3b).
Assembly: mm10
Supplementary files format and content: tab-delimited text files include FPKM values for each sample.
|
| |
|
| Submission date |
Jul 10, 2023 |
| Last update date |
Jul 16, 2023 |
| Contact name |
Chun-Chang Ho |
| E-mail(s) |
gnwnsckd93@naver.com
|
| Organization name |
Good T cells.,Inc.
|
| Street address |
189 Seongam-ro
|
| City |
Seoul |
| ZIP/Postal code |
03929 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE236988 |
RNA-seq analysis of Lrig1+ and Lrig1- CD4+ T cells in mouse spleen |
|
| Relations |
| BioSample |
SAMN36392862 |
| SRA |
SRX20969839 |
