|
| Status |
Public on Jan 30, 2020 |
| Title |
ETV6-RUNX1_4 |
| Sample type |
SRA |
| |
|
| Source name |
ETV6-RUNX1
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: Childhood acute lymphoblastic leukemia
cell type: Pre-B t(12;21) [ETV6-RUNX1] acute lymphoblastic leukemia cells
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mononuclear cells were isolated from bone marrow (BM) aspirates or peripheral blood cells at diagnosis and cryopreserved in FBS with 10% DMSO
10X Genomics Chromium single cell RNA 3’ v2
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
*I1_001.fastq.gz: contains the 8 nt sample index.
*R1_001.fastq.gz: contains the cell barcode (first 16 nt) and UMI (next 10 nt)
*R2_001.fastq.gz: contains the 98 nt RNA sequence.
Reads were processed using 10x Genomics cellranger v2.1.0 on the ENSEMBL 84 gene annotation
Genome_build: ENSEMBL GRCh38.84
Supplementary_files_format_and_content: barcodes.tsv, genes.tsv, matrix.mtx
|
| |
|
| Submission date |
Jun 10, 2019 |
| Last update date |
Jun 09, 2021 |
| Contact name |
Guillaume Bourque |
| Organization name |
Mcgill university
|
| Department |
Human Genetics
|
| Street address |
740 Dr penfield
|
| City |
Montreal |
| State/province |
QC |
| ZIP/Postal code |
H3A 0G1 |
| Country |
Canada |
| |
|
| Platform ID |
GPL20301 |
| Series (1) |
| GSE132509 |
Single-cell analysis of childhood leukemia reveals a link between developmental states and ribosomal protein expression as a source of intra-individual heterogeneity |
|
| Relations |
| BioSample |
SAMN12011170 |
| SRA |
SRX6034684 |
