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| Status |
Public on Sep 24, 2019 |
| Title |
Lin- HSPC, Stag2 KO, XA2 |
| Sample type |
SRA |
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| Source name |
Lin- HSPC
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| Organism |
Mus musculus |
| Characteristics |
cell type: Lin- HSPC
genotype: Stag2 KO
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
Sequencing librairies were prepared using 10X Chromium Single Cell 3' Solution V2
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
R1 read: contains the cell barcode (first 16 nt) and UMI (next 10 nt).
R2 read: contains the RNA sequence.
RNA-seq data was processed from raw fastq files to count matrices with SEQC (see https://github.com/ambrosejcarr/seqc.git)
SEQC provides cell (barcodes) by gene matrices as a standard format and first column (CLUSTER) represents Phenograph clustering of the data.
Genome_build: mm38
Supplementary_files_format_and_content: Cell x gene unnormalized count matrices in gzipped csv format
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| Submission date |
Jul 29, 2019 |
| Last update date |
Sep 25, 2019 |
| Contact name |
Richard Koche |
| E-mail(s) |
kocher@mskcc.org
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| Organization name |
Memorial Sloan Kettering Cancer Center
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| Street address |
417 E. 68th St.
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| City |
New York |
| State/province |
New York |
| ZIP/Postal code |
10065 |
| Country |
USA |
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| Platform ID |
GPL24247 |
| Series (2) |
| GSE134997 |
Stag1 and Stag2 regulate cell fate decisions in hematopoiesis through non-redundant topological control [II] |
| GSE135031 |
Stag1 and Stag2 regulate cell fate decisions in hematopoiesis through non-redundant topological control |
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| Relations |
| BioSample |
SAMN12389656 |
| SRA |
SRX6606894 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM3983391_XA2_dense.csv.gz |
6.8 Mb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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