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Sample GSM4475103 Query DataSets for GSM4475103
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

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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