|
| Status |
Public on Apr 10, 2019 |
| Title |
LSK-VEcad-Dll4I3COIN |
| Sample type |
SRA |
| |
|
| Source name |
bone marrow
|
| Organism |
Mus musculus |
| Characteristics |
genotype: VEcad-Dll4I3COIN
source: bone marrow
cell type: hematopoietic progenitors
age: 10 weeks
|
| Treatment protocol |
1,000 μg tamoxifen (Sigma, T5648) intraperitoneally every day for 10 days
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNeasy Micro Kit - QIAGEN
Single Cell 3’ Reagent Kits v2: Chromium™ Single Cell 3’ Library & Gel Bead Kit v2, PN-120237; Single Cell 3’ Chip Kit v2 PN-120236 and i7 Multiplex Kit PN-120262" (10x Genomics)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Base calling and demultiplexing was performed using Illumina bcl2fastq software.
Additional cell-level demultiplexing and alignment was performed with 10x Cell Ranger software.
Genome_build: mm10
Supplementary_files_format_and_content: Indexed BAM files containing position-sorted reads aligned to the genome and gene-barcode matrices.
|
| |
|
| Submission date |
Aug 12, 2018 |
| Last update date |
Apr 11, 2019 |
| Contact name |
Igor Dolgalev |
| Organization name |
NYU Grossman School of Medicine
|
| Street address |
550 1st Ave
|
| City |
New York |
| State/province |
New York |
| ZIP/Postal code |
10016 |
| Country |
USA |
| |
|
| Platform ID |
GPL21103 |
| Series (2) |
| GSE108892 |
Bone marrow niche |
| GSE118436 |
Single cell transcriptome profiling of LSKs in the absence of vascular Dll4. |
|
| Relations |
| BioSample |
SAMN09811619 |
| SRA |
SRX4547597 |
