|
| Status |
Public on Feb 19, 2024 |
| Title |
scRNA_CK |
| Sample type |
SRA |
| |
|
| Source name |
spleen
|
| Organism |
Mus musculus |
| Characteristics |
tissue: spleen
cell type: B220+IgD-
genotype: CK_het_DKO
|
| Treatment protocol |
Mice (WT, C, K, and CK) were immunized with SRBC for 10 days before sorting splenic B220+IgD- cells.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
B220+IgD- cells are sorted from spleens of SRBC-immunized mice by FACS.
Single-cell RNA-seq libraries were prepared using the Chromium Single Cell 3' Reagent Kit according to 10x Genomics specifications.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Cellranger 3.0
Seurat 4.0
Slingshot 2.4.0
Assembly: mm10
Supplementary files format and content: cellranger 3.0 barcode / features / matrix files
Supplementary files format and content: Seurat object with all cells and celltype metadata
Supplementary files format and content: Table of cells used for pseudotime with pseudotime values and deciles
|
| |
|
| Submission date |
Feb 07, 2023 |
| Last update date |
Feb 19, 2024 |
| Contact name |
Christopher Russell Chin |
| E-mail(s) |
chc2077@med.cornell.edu
|
| Phone |
3393640514
|
| Organization name |
Weill Cornell
|
| Lab |
Melnick Lab
|
| Street address |
413 E 69th Street, Belfer Building, BB-1462
|
| City |
New York City |
| State/province |
NY |
| ZIP/Postal code |
10021 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE224513 |
Cooperative super-enhancer inactivation caused by heterozygous loss of CREBBP and KMT2D skews B-cell fate decisions and accelerates development of T-cell depleted lymphomas. |
| GSE224782 |
Cooperative super-enhancer inactivation caused by heterozygous loss of CREBBP and KMT2D skews B-cell fate decisions and accelerates development of T-cell depleted lymphomas (scRNA-Seq) |
|
| Relations |
| BioSample |
SAMN33193484 |
| SRA |
SRX19305849 |
