|
| Status |
Public on Jan 08, 2021 |
| Title |
SgScrmbl ACTGAGCG_TCTTACGC |
| Sample type |
SRA |
| |
|
| Source name |
SgScrmbl
|
| 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 |
SAMN14051705 |
| SRA |
SRX7687396 |
