|
Status |
Public on Mar 19, 2018 |
Title |
library 10X_P7_11 |
Sample type |
SRA |
|
|
Source name |
Thymus
|
Organism |
Mus musculus |
Characteristics |
tissue: Thymus age: 3 months strain: C57BL/6 NIA
|
Extracted molecule |
total RNA |
Extraction protocol |
10x Genomics single cell protocol 10x Genomics single cell protocol
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Description |
Single cell
|
Data processing |
Sequences from the NovaSeq were demultiplexed using CellRanger version 2.0.1, with bcl2fastq 2.19.0.316. Reads were aligned using to a copy of the mm10 genome augmented with ERCC sequences using CellRanger and STAR version 2.5.2b cellranger mkfastq --localmem 60 cellranger count --localmem 240 --nosecondary --cells=3000 --transcriptome=MM10-Plus Genome_build: mm10 Supplementary_files_format_and_content: output of 10X CellRanger: gene lists, barcode lists and UMI count files in mtx format
|
|
|
Submission date |
Mar 14, 2018 |
Last update date |
May 14, 2019 |
Contact name |
Angela Oliveira Pisco |
E-mail(s) |
angela.pisco@czbiohub.org
|
Organization name |
CZ Biohub
|
Department |
Data Sciences
|
Street address |
499 Illinois St
|
City |
San Francisco |
State/province |
CA |
ZIP/Postal code |
94103 |
Country |
USA |
|
|
Platform ID |
GPL24247 |
Series (2) |
GSE109774 |
Tabula Muris: Transcriptomic characterization of 20 organs and tissues from Mus musculus at single cell resolution |
GSE132042 |
Tabula Muris |
|
Relations |
BioSample |
SAMN08712877 |
SRA |
SRX3791782 |