NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM6205002 Query DataSets for GSM6205002
Status Public on Sep 15, 2023
Title Vehicle treated ICH mice, Day 5_3
Sample type SRA
 
Source name perihematomal brain tissue
Organism Mus musculus
Characteristics tissue: perihematomal brain tissue
cell type: WT
treatment: Vehicle
time point: Day 5
Treatment protocol Mice were treated with TEPP-46 or vehicle for 5 consective days after ICH.
Extracted molecule total RNA
Extraction protocol perihematomal brain tissues were removed, flash frozen on dry ice, and total RNA was extracted using TRIzol reagent (Takara, Kyoto, Japan) according to the manufacturer’s instructions
cDNA libraries were constructed from 1 μg of total RNA by using a cDNA-PCR Sequencing Kit (SQK-PCS109) according to the protocol.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model PromethION
 
Data processing Raw reads were first filtered with minimum average read quality score=7 and minimum read length=500bp.
full-length, non-chemiric (FLNC) transcripts were determined by searching for primer at both ends of reads.
Clusters of FLNC transcripts were obtained after mapping to reference genome with mimimap2.
Differential expression analysis of two conditions/groups was performed using the DESeq R package (1.10.1).
Assembly: GRCm38
Supplementary files format and content: gene expression of all sample
 
Submission date May 30, 2022
Last update date Sep 15, 2023
Contact name Xiao-Yi Xiong
E-mail(s) xiongxy1989@hotmail.com
Organization name Chengdu University of Traditional Chinese Medicine
Street address 37 Shierqiao Road, 610075, Chengdu, China
City Chengdu
ZIP/Postal code 610075
Country China
 
Platform ID GPL26624
Series (1)
GSE205082 Expression profiles of perihematomal brain tissues of intracerebral hemorrhage (ICH) mice treated with or without TEPP-46
Relations
BioSample SAMN28766655
SRA SRX15499128

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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap