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Sample GSM3636568 Query DataSets for GSM3636568
Status Public on May 12, 2020
Title Foxp3-GFP+Treg_BACH2-RFP_HI_Male2_RNA-seq
Sample type SRA
 
Source name Treg cells
Organism Mus musculus
Characteristics strain: C57BL/6
tissue: spleen
age: post natal 12–13 weeks
genotype: Foxp3EGFP-DTR Bach2tdRFP/+
Extracted molecule total RNA
Extraction protocol Single-cell suspensions were purified by total CD4+ T cell enrichment followed by FACS-sorting
stored in 40 µl RNAlater™ Stabilization Solution at -80 °C
Samples were processed using the QIAshredder Kit (Qiagen) according to the manufacturer’s protocol
RNA was extracted from samples using the RNeasy Plus Mini Kit (Qiagen) according to the manufacturer’s protocol
RNA Libraries were prepared using the SmartSeq2 protocol on an automated Hamilton NGS-STAR library preparation system and sequenced using a HiSeq 2500 System (Illumina)
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description RNA-seq_Foxp3-GFP_BACH2-RFP_HI_M2
Data processing FastQ files underwent quality control with FastQC, adaptor trimming with Cutadapt and alignment to the NCBIM37 Mus musculus genome annotation with hisat2 using ClusterFlow pipelines
Differential gene expression analysis was performed using Cufflinks44 and differentially expressed genes were futher analysed using R
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include FPKM values
 
Submission date Mar 01, 2019
Last update date May 12, 2020
Contact name Mohammed-Firas Sadiyah
E-mail(s) mfs37@cam.ac.uk
Organization name University of Cambridge
Street address The Old Schools, Trinity Ln
City Cambridge
ZIP/Postal code CB2 1TN
Country United Kingdom
 
Platform ID GPL17021
Series (2)
GSE127698 Heterogeneous Bach2 expression distinguishes rTreg cells and aTreg cells
GSE128176 BACH2 is repurposed following Treg lineage commitment to drive the functional quiescence and maintenance of resting Treg cells
Relations
BioSample SAMN11106055
SRA SRX5508327

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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