|
Status |
Public on Aug 04, 2016 |
Title |
aTr_rep1 (Sample 4) |
Sample type |
SRA |
|
|
Source name |
aTr
|
Organism |
Mus musculus |
Characteristics |
tissue: Spleen and peripheral lymph nodes cell type: Activated Treg cells source: mixed bone marrow chimeras generated with 90% Foxp3-GFP-DTR /10% Foxp3-GFP-CRE-ERT2XR26Y bone marrow activating stimulus: Transient Treg cell depletion days post-stimulus: 11 days
|
Extracted molecule |
total RNA |
Extraction protocol |
Sorted cells were lysed with TRIzol and stored at -80 degree. RNA was extracted according to the manufacturer’s manual (Life Technologies). cDNA libraries were generated using SMARTer amplification (Clontech) and individually indexed. Libraries were sequenced on HiSeq 2000 platform (Illumina).
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Description |
YFP+ GFP+ Treg cells were isolated from animals treated with tamoxifen and diphtheria toxin
|
Data processing |
Sequences mapped using STAR 2.5.0 Expression level was quantified with refGene annotation DESeq2 analysis was run with q-value cutoff of 0.05 Genome_build: mm9 Supplementary_files_format_and_content: [htseq.txt and bam-genes.txt] DESeq2-normalized read counts for RNA-Seq samples Supplementary_files_format_and_content: [countsatatacseqpeaks.txt] peaks for ATAC-Seq and ChIP-Seq samples
|
|
|
Submission date |
Jun 13, 2016 |
Last update date |
May 15, 2019 |
Contact name |
Hyein Sophia Cho |
E-mail(s) |
[email protected]
|
Organization name |
Memorial Sloan Kettering Cancer Center
|
Department |
Developmental Biology
|
Street address |
430 E 67th St
|
City |
New York |
State/province |
NY |
ZIP/Postal code |
10065 |
Country |
USA |
|
|
Platform ID |
GPL13112 |
Series (1) |
GSE83315 |
Memory of inflammation in regulatory T cells |
|
Relations |
BioSample |
SAMN05240601 |
SRA |
SRX1842231 |