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Sample GSM3486708 Query DataSets for GSM3486708
Status Public on Feb 12, 2019
Title Hdac1&2 cKO rep1
Sample type SRA
 
Source name cortex
Organism Mus musculus
Characteristics strain: C57BL/6
tissue: cortex
age: embryonic day 12.5
Extracted molecule total RNA
Extraction protocol Cortex were removed on ice, and RNA was harvested using Trizol reagent.
TruSeq RNA Library Prep Kit
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model HiSeq X Ten
 
Data processing Base calling was performed using bcl2fastq v1.8.4
Adapter trimming and quality filtering were performed using trim_gaplore v0.4.4
Alignment to the reference genome was performed using STAR v2.5.4b
Read counting was performed using featureCounts v1.6.1
Differential expression analysis was performed using R v3.4.1 and the R package DESeq2 v1.22.1
Genome_build: mm10
Supplementary_files_format_and_content: Tab-delimited spreadsheet, FPKM values
 
Submission date Nov 21, 2018
Last update date Jul 06, 2019
Contact name Yunli Xie
Organization name Fudan University
Department Institutes of Brain Science
Lab Xie Lab
Street address 131 Dong'an Road, Shanghai
City Shanghai
State/province Shanghai
ZIP/Postal code 200032
Country China
 
Platform ID GPL21273
Series (1)
GSE122834 Roles of HDAC1 and HDAC2 in the developing mouse brain
Relations
BioSample SAMN10461328
SRA SRX5054313

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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