|
| Status |
Public on Mar 27, 2019 |
| Title |
9 months APP/PS1 whole brain |
| Sample type |
SRA |
| |
|
| Source name |
brain
|
| Organism |
Mus musculus |
| Characteristics |
genotype/variation: APP/PS1
tissue: whole brain
strain: APPPS1 B6-Tg(Thy1-APPswe; Thy1-PS1 L166P)
platform: 10x Genomics
number of cells: 3637
|
| Extracted molecule |
total RNA |
| Extraction protocol |
All Methods listed in Van Hove et al. A single-cell atlas of non-parenchymal brain macrophages reveals unique transcriptional identities that are shaped by ontogeny and tissue environment. Nature Neuroscience. 2019.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
9 months APP/PS1 whole brain of APPPS1 B6-Tg(Thy1-APPswe; Thy1-PS1 L166P) mice
|
| Data processing |
Raw data bcl files were first demultiplexed using Cell Ranger mkfastq
Demultiplexed data was then processed using the Cell Ranger count pipeline
8bp I7 sample barcode
26bp read1 (16bp Chromium barcode and 10bp UMI)
98bp read2 (transcript)
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files including raw counts (output CellRanger Count) for each sample
|
| |
|
| Submission date |
Mar 26, 2019 |
| Last update date |
Mar 28, 2019 |
| Contact name |
Liesbet Martens |
| E-mail(s) |
liesbet.martens@irc.vib-ugent.be
|
| Organization name |
VIB-University of Ghent
|
| Department |
VIB Inflammation Research Center
|
| Street address |
Technologiepark 927
|
| City |
Zwijnaarde |
| ZIP/Postal code |
9052 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL21103 |
| Series (2) |
| GSE128854 |
A single-cell atlas of mouse brain macrophages reveals unique transcriptional identities shaped by ontogeny and tissue environment. [scRNA-Seq] |
| GSE128855 |
A single-cell atlas of mouse brain macrophages reveals unique transcriptional identities shaped by ontogeny and tissue environment. |
|
| Relations |
| BioSample |
SAMN11257853 |
| SRA |
SRX5584532 |
