|
Status |
Public on Jan 08, 2021 |
Title |
SgStat1 TGCAGCTA_CTTAATAG |
Sample type |
SRA |
|
|
Source name |
SgStat1
|
Organism |
Mus musculus |
Characteristics |
Sex: F age: 12-13 weeks
|
Treatment protocol |
Induction of EAE in mice. EAE was induced by injecting 150 µg of MOG35-55 diluted in 100 µL of PBS emulsified in 100 µL of CFA per mouse.
|
Growth protocol |
N/A
|
Extracted molecule |
total RNA |
Extraction protocol |
Each CNS was isolated per mouse. A cell suspension was generated by papain digestion, neutralization, and 70um filtration of cell extract. Cells were centrifuged, resuspended in 30% Percoll, centrifuged, and washed in PBS. Cells were sorted by flow cytometry based on a negative selection strategy for astrocytes. Libraries were prepared by the Broad Institute according to Smart-seq 2 protocol as described (Picelli et al., 2014)
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NextSeq 500 |
|
|
Data processing |
Reads were aligned against the GRCm38 mouse transcriptome using kallisto (v0.46.1) Genome_build: GRCm38 Supplementary_files_format_and_content: run_info.json: Alignment QC; abundance.tsv: count file compatible with Excel; abundance.h5: count table for downstream analysis, same as abundance.tsv.
|
|
|
Submission date |
Feb 06, 2020 |
Last update date |
Jan 08, 2021 |
Contact name |
Michael Wheeler |
E-mail(s) |
mwheeler0@bwh.harvard.edu
|
Organization name |
Brigham and Women's Hospital
|
Department |
Neurology
|
Street address |
60 Fenwood Rd.
|
City |
Boston |
State/province |
MA |
ZIP/Postal code |
02115 |
Country |
USA |
|
|
Platform ID |
GPL19057 |
Series (2) |
GSE144859 |
IFN-gamma+ NK cells control TRAIL+ anti-inflammatory astrocytes |
GSE144872 |
Analysis of astrocyte interferon gamma signaling during EAE. |
|
Relations |
BioSample |
SAMN14051688 |
SRA |
SRX7687411 |