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Sample GSM6600760 Query DataSets for GSM6600760
Status Public on Sep 06, 2023
Title ABC-TC4
Sample type SRA
 
Source name age associated B cells
Organism Mus musculus
Characteristics cell type: age associated B cells
genotype: Sle 1/2/3 triple congenic mice
age: 8 months
Extracted molecule polyA RNA
Extraction protocol CD11c+ ABCs (CD19+B220+CD11c+CD21-CD23-AA4.1-) and FO B cells ( CD19+B220+CD11c-AA4.1-CD21-CD23+) were freshly isolated and snap-frozen
RNA purification, library preparation and sequencing were performed by Azenta (AZENTA life sciences). Library construction was performed by Azenta. Total RNA was purified, and mRNA was selected with polyA selection. QC of purified RNA and amplified cDNA were confirmed, and only high quality of samples were used for the sequencing.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Data processing QC for fastq files was performed with FastQC.
Reads were mapped to the mouse genome (GRCm39) using STAR2 and aligned reads were quantified with htseq-counts to the M29 annotation.
Assembly: GRCm39
Supplementary files format and content: tab delimited read count files
 
Submission date Sep 26, 2022
Last update date Sep 06, 2023
Contact name Andrew Shih
E-mail(s) ashih@northwell.edu
Phone 516-562-2960
Organization name Feinstein Institute - Northwell Health
Street address 350 Community Dirive
City Mahasset
State/province NY
ZIP/Postal code 11030
Country USA
 
Platform ID GPL17021
Series (1)
GSE214185 CD11c+ autoimmune-associated B cells have an increased phagocytosis activity and T cell activation which is regulated by metabolic intervention in lupus mice
Relations
BioSample SAMN31018862
SRA SRX17707322

Supplementary file Size Download File type/resource
GSM6600760_ABC-TC4Aligned.htseq_count.txt.gz 216.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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