|
| Status |
Public on Feb 18, 2021 |
| Title |
AgedTreg_flu_4_RNAseq |
| Sample type |
SRA |
| |
|
| Source name |
Lung Treg cells (CD3e+CD4+CD25hiFR4+)
|
| Organism |
Mus musculus |
| Characteristics |
age: 18-months old
exposure: flu
cell type: Lung Treg cells (CD3e+CD4+CD25hiFR4+)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from sorted cells using the Qiagen AllPrep DNA/RNA Micro Kit.
NEB Next RNA Ultra, with polyA enrichment (Total, ribodRNA) and dual indexes
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Basecalls performed using Illumina RTA2 software.
BCL2FASTQ v2.17.1.14 was used to convert bcl files to fastq files (default parameters).
Fastq files were aligned to the mm10 reference genome using Tophat v.2.1.0, and SeqMonk v1.45.4 was used to generate gene and transcript expression levels for protein-coding genes.
Genome_build: GRCm38/mm10
Supplementary_files_format_and_content: Tab-delimited text file including raw counts values for each sample generated for uniquely mapped reads over exons was obtained using SeqMonk v1.45.4.
|
| |
|
| Submission date |
Jun 01, 2020 |
| Last update date |
Feb 18, 2021 |
| Contact name |
Benjamin D. Singer |
| E-mail(s) |
benjamin-singer@northwestern.edu
|
| Organization name |
Northwestern University Feinberg School of Medicine
|
| Street address |
303 E. Superior St., Simpson Querrey 5th floor
|
| City |
Chicago |
| State/province |
Illinois |
| ZIP/Postal code |
60611 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE151542 |
Aging imparts cell-autonomous dysfunction to regulatory T cells during recovery from influenza pneumonia [RNA-seq] |
| GSE151543 |
Aging imparts cell-autonomous dysfunction to regulatory T cells during recovery from influenza pneumonia |
|
| Relations |
| BioSample |
SAMN15074585 |
| SRA |
SRX8439638 |
