|
| Status |
Public on Jun 04, 2020 |
| Title |
Spl9_GCB_9A_minus |
| Sample type |
SRA |
| |
|
| Source name |
Spleen
|
| Organism |
Mus musculus |
| Characteristics |
individual: Spl9
genotype: CD19CreI/+
cell type: germinal center (GC) B cells
tissue: spleen
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was cleaned-up from the lysate (TCL buffer; Qiagen) using magnetic beads (GC Biotech) and mRNA was directly eluted in reverse transcription master mix.
bulk SCRB-seq (Soumillon et al., 2014; Parekh et al., 2016)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Description |
Spl9 CD19CreI/+ GCB
|
| Data processing |
Raw data was processed with Dropseq tools v1.12
reads were mapped to the genome using STAR (Dobin et al., 2013)
Gene models from Ensembl release GRCm38.87 were used
Counts were collapsed to molecules using the UMI tag (appended to the readID of each read)
Genome_build: GRCm38p5
Supplementary_files_format_and_content: Gene and sample wise UMI counts
|
| |
|
| Submission date |
Jan 06, 2020 |
| Last update date |
Jun 04, 2020 |
| Contact name |
Christoph Ziegenhain |
| E-mail(s) |
[email protected]
|
| Organization name |
Ludwig-Maximilians University Munich
|
| Department |
Department Biology II
|
| Lab |
Anthropology & Human genomics
|
| Street address |
Großhaderner Str. 2
|
| City |
Martinsried |
| State/province |
Bavaria |
| ZIP/Postal code |
82152 |
| Country |
Germany |
| |
|
| Platform ID |
GPL18480 |
| Series (1) |
| GSE143156 |
c-Rel gain in B cells dose-dependently drives germinal center reactions and autoantibody production in mice |
|
| Relations |
| BioSample |
SAMN13739193 |
| SRA |
SRX7505359 |
