|
| Status |
Public on Sep 06, 2023 |
| Title |
ABC-TC1 |
| 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 |
SAMN31018864 |
| SRA |
SRX17707320 |
