|
| Status |
Public on Apr 22, 2021 |
| Title |
Itgam sgSema4d 2 |
| Sample type |
SRA |
| |
|
| Source name |
Flow cytometry sorted astrocytes
|
| Organism |
Mus musculus |
| Characteristics |
strain: WT C57Bl/6
Sex: Female
|
| 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 |
polyA 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 created according to the manufacturer's protocol for the NEB kit (#E6420)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 550 |
| |
|
| Data processing |
The reads are aligned to GrCM38 mouse genome using STAR (2.7.3)
The aligned reads were quantified using RSEM (v1.3)
Genome_build: GrCM38
Supplementary_files_format_and_content: Tab delimited gene expression table
|
| |
|
| Submission date |
Aug 24, 2020 |
| Last update date |
Apr 22, 2021 |
| Contact name |
Michael Wheeler |
| E-mail(s) |
[email protected]
|
| 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 |
GPL21626 |
| Series (2) |
| GSE150858 |
Barcoded viral tracing of single-cell interactions in CNS inflammation |
| GSE156757 |
Microglial Semaphorin4D and astrocyte PlexinB1-B2 knockdown in EAE |
|
| Relations |
| BioSample |
SAMN15893790 |
| SRA |
SRX8998625 |
