|
| Status |
Public on May 30, 2018 |
| Title |
GFPplus |
| Sample type |
SRA |
| |
|
| Source name |
Foxp3-positive CD4-positive T cells from Wild-type mice
|
| Organism |
Mus musculus |
| Characteristics |
strain/genotype: NOD-Foxp3GFP-Rag1-/-
cell type: T-cell
cd4 status: positive
foxp3 status: positive
model: T138
derivation: nuclear transfer
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Foxp3-positive and CD4-positive T cells were FACS-sorted from wild-type NOD mice. Single cells were diluted to 1000 cells /ul in 0.04% BSA/PBS
Chromium Single-cell 3’ RNA-Seq library (v1) generation was carried according to 10X Genomics protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
gene expression of single nuclear transferred T cells
|
| Data processing |
Data processing: The Cell Ranger Single Cell Software Suite v1.3 was used to perform sample demultiplexing, barcode processing, and single cell 3' gene counting (https://support.10xgenomics.com/single-cell/software/pipelines/latest/what-is-cell-ranger). Cell Ranger commands used to produce this aggregated dataset:
cellranger count (--cells=3000 ...)
cellranger aggr --id=AGG001 --csv=cellranger-aggregation.csv --normalize=mapped
Genome_build: mm10
Supplementary_files_format_and_content: Tab-deliminated text file of matrix table containing normalized expression values (UMI/cell). Each row corresponds to a gene and each column corresponds to an individual cell.
|
| |
|
| Submission date |
Apr 15, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Manching Ku |
| Organization name |
Medical Center - University of Freiburg
|
| Department |
Hematology and Oncology
|
| Street address |
Mathildenstrasse 1
|
| City |
Freiburg |
| ZIP/Postal code |
79106 |
| Country |
Germany |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE97849 |
Deconstructive SCNT reveals heterogeneity within Treg population [single-cell] |
| GSE97850 |
Deconstructive SCNT reveals heterogeneity within Treg population |
|
| Relations |
| BioSample |
SAMN06758729 |
| SRA |
SRX2741440 |
