|
Status |
Public on Jan 15, 2019 |
Title |
P310.ms3. |
Sample type |
SRA |
|
|
Source name |
brain
|
Organism |
Mus musculus |
Characteristics |
strain: C57BL/6 developmental age: P308
|
Extracted molecule |
total RNA |
Extraction protocol |
OPCs were isolated from wild-type mice using magnetic cell sorting (MACS, Miltenyi Biotec). OPCs were enriched using microbeads conjugated to monoclonal PDGFRα (#130-101-502, Miltenyi). After OPC enrichment RNA was extracted using RNeasy Micro Kit (Qiagen) according to manufacturer’s instructions. RNA libraries were prepared for sequencing using the SMARTer® Stranded Total RNA-Seq Kit v2 - Pico Input Mammalian kit, according to manufacturer's instructions.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Description |
Myelin debris were removed from single-cell suspension by myelin removal beads (#130-096-733, Miltenyi) prior to OPC enrichment.
|
Data processing |
RNA-seq reads were pre-processed and quality-trimmed using Trim Galore ! https://www.bioinformatics.babraham.ac.uk/projects/trim_galore). Reads were aligned to the mouse reference genome GRCm38/mm10 using Tophat (version 2.1.1, https://ccb.jhu.edu/software/tophat/index.shtml) allowing for one mismatch and selecting uniquely mapping reads only. Read counts per ENSEMBL (version 92) were obtained by featureCounts (http://bioinf.wehi.edu.au/featureCounts). Supplementary_files_format_and_content: Read counts per ENSEMBL transcript (version 92) obtained by featureCounts.
|
|
|
Submission date |
Oct 10, 2018 |
Last update date |
Jan 15, 2019 |
Contact name |
Sabine Dietmann |
Organization name |
Washington University School of Medicine
|
Street address |
4565 McKinley Avenue
|
City |
St Louis |
State/province |
MO |
ZIP/Postal code |
63110 |
Country |
USA |
|
|
Platform ID |
GPL13112 |
Series (1) |
GSE121083 |
Oligodendrocyte progenitor cells become regionally diverse and heterogeneous with age |
|
Relations |
BioSample |
SAMN10228451 |
SRA |
SRX4824738 |