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| Status |
Public on Mar 19, 2018 |
| Title |
library 10X_P7_13 |
| Sample type |
SRA |
| |
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| Source name |
Mammary
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| Organism |
Mus musculus |
| Characteristics |
tissue: Mammary
age: 3 months
strain: C57BL/6 NIA
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| Extracted molecule |
total RNA |
| Extraction protocol |
10x Genomics single cell protocol
10x Genomics single cell protocol
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Description |
Single cell
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| 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
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| Submission date |
Mar 14, 2018 |
| Last update date |
May 14, 2019 |
| Contact name |
Angela Oliveira Pisco |
| E-mail(s) |
[email protected]
|
| Organization name |
CZ Biohub
|
| Department |
Data Sciences
|
| Street address |
499 Illinois St
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| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94103 |
| Country |
USA |
| |
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| 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 |
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| Relations |
| BioSample |
SAMN08712875 |
| SRA |
SRX3791784 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM3040911_Mammary-10X_P7_13.tar.gz |
13.3 Mb |
(ftp)(http) |
TAR |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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