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Sample GSM3753243 Query DataSets for GSM3753243
Status Public on May 07, 2019
Title Astro-mem KO1
Sample type SRA
 
Source name Motor cortex
Organism Mus musculus
Characteristics strain: C57BL/6
tissue: Motor cortex
age: postnatal day 22
genotype: membralin astrocyte conditional knockout
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from postnatal day 22 mouse motor cortex tissue using the RNA Extraction from Tissue kit (Kurabo, RT-S2).
NEBNext® UltraTM RNA library construction
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description fpkm_genename.txt (G2)
Data processing Illumina CASAVA1.8 used for base calling.
Sequenced reads were trimmed for adaptor sequence, reads containing N > 10% (N represents base that cannot be determined) were removed; remove low quality reads: the quality value of over 50% bases of the read is <=20.
Differential expression significant analysis of two conditions/groups by using the DESeq2 R package, while the significant criterion is padj<0.05
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text file include FPKM values for each sample
 
Submission date May 06, 2019
Last update date May 07, 2019
Contact name Timothy Huang
E-mail(s) thuang@sbpdiscovery.org
Phone 858-646-3100
Organization name Sanford Burnham Prebys Medical Discovery Institute
Lab Huang/Xu Lab
Street address 10901 N Torrey Pines Rd.
City La Jolla
State/province CA
ZIP/Postal code 92037
Country USA
 
Platform ID GPL24247
Series (1)
GSE130763 Membralin deficiency dysregulates astrocytic glutamate homeostasis leading to ALS-like impairment
Relations
BioSample SAMN11582867
SRA SRX5797690

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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