|
Status |
Public on Jun 03, 2021 |
Title |
Male_Saline_3_24h |
Sample type |
SRA |
|
|
Source name |
Saline_24h_Male
|
Organism |
Mus musculus |
Characteristics |
stimulation: Saline time point: 24h Sex: Male tissue: Cortical astrocytes age: P30-35 genotype: Aldh1l1egfp
|
Treatment protocol |
Female or male Aldh1l1egfp mice were either injected with 5 mg/kg LPS or saline for 3h, 24h or 72h
|
Extracted molecule |
total RNA |
Extraction protocol |
Astrocyte were FACS-purified and RNA extracted using the Agilent Absolutely Total RNA Purification Kit cDNA was generated using the SMART-seq HT kit and libraries were generated using the Nextera XT kit (Takara Bio).
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Data processing |
Sequenced reads were trimmed for adaptor sequences, aligned to the mm10 reference genome using HISAT2 followed by transcript assembly and quantification using StringTie Differential gene expression was assessed using DESeq2. Expression values are given as FPKM. Genome_build: mm10 Supplementary_files_format_and_content: xlxs file with FPKM values for each sample and adjusted p-values for differential gene expression calculated using DESeq2
|
|
|
Submission date |
Apr 14, 2020 |
Last update date |
Jun 03, 2021 |
Contact name |
Philip Hasel |
E-mail(s) |
philip.hasel@nyulangone.org
|
Organization name |
NYU Langone Medical Centre
|
Street address |
435 E 30th St
|
City |
New York |
ZIP/Postal code |
10016 |
Country |
USA |
|
|
Platform ID |
GPL24247 |
Series (2) |
GSE148610 |
Neuroinflammatory astrocyte subtypes in the mouse brain [bulk RNA-seq] |
GSE148612 |
Neuroinflammatory astrocyte subtypes in the mouse brain |
|
Relations |
BioSample |
SAMN14595052 |
SRA |
SRX8111440 |