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Sample GSM5557642 Query DataSets for GSM5557642
Status Public on Aug 14, 2024
Title B3_Ischemia 6 h + Veh_rep3
Sample type SRA
 
Source name Ischemia 6 h + Veh_brain tissue
Organism Mus musculus
Characteristics strain: C57BL/6
tissue: brain
age: 8 wks
disease state: cerebral ischemia
treatment: Vehicle
Treatment protocol Cerebral ischemic mice were preconditiong treated with lactate or vehicle.
Extracted molecule total RNA
Extraction protocol Brains 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
 
Description ONT_BMK210602-AK229-01O0007-01
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).
Genome_build: GRCm38
Supplementary_files_format_and_content: gene expression of all sample
 
Submission date Sep 04, 2021
Last update date Aug 14, 2024
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)
GSE183439 RNA Sequencing Analysis of Brain Transcriptomes of Ischemic Stroke Treated With or Without Lactate
Relations
BioSample SAMN21221895
SRA SRX12015943

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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