|
Status |
Public on Nov 16, 2020 |
Title |
m_15733_wt |
Sample type |
SRA |
|
|
Source name |
Germinal center B cells
|
Organism |
Mus musculus |
Characteristics |
strain: C57BL/6 cell type: Germinal center B cells cell population: AID-GFP+ cells genotype: wildtype treatment: Immunized, on Day 9
|
Treatment protocol |
Immunized with NP(18)OVA + alum, splenocytes isolated on Day 9
|
Growth protocol |
AID-GFP reporter mice
|
Extracted molecule |
total RNA |
Extraction protocol |
GFP+ cells were sorted for total RNA RNA libraries were prepared for sequencing using standard Illumina protocols
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Data processing |
Illumina Casava1.7 software used for basecalling. Reads were aligned to the reference mouse genome version GRCm38 (gene annotation Ensembl v98) using STAR version 2.5 Gene expressions are obtained with featureCounts v1.5 DESeq2 version 1.14.1 was used to normalize raw counts and compute differential expression between wt and ko conditions. Genome_build: GRCm38 Supplementary_files_format_and_content: normalized count matrix from DESeq2
|
|
|
Submission date |
Apr 02, 2020 |
Last update date |
Nov 16, 2020 |
Contact name |
André Veillette |
E-mail(s) |
Andre.Veillette@ircm.qc.ca
|
Phone |
5149875605
|
Organization name |
IRCM
|
Department |
Molecular Oncology
|
Lab |
Veillette
|
Street address |
110 Des Pins Ouest Rm1065
|
City |
Montreal |
State/province |
QC |
ZIP/Postal code |
H2W 1R7 |
Country |
Canada |
|
|
Platform ID |
GPL17021 |
Series (1) |
GSE147990 |
SFR KO mice germinal center B cell RNA sequencing |
|
Relations |
BioSample |
SAMN14526326 |
SRA |
SRX8047544 |