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Sample GSM4874175 Query DataSets for GSM4874175
Status Public on Feb 04, 2021
Title p46
Sample type SRA
 
Source name Nucleus accumbens brain tissue
Organism Rattus norvegicus
Characteristics strain: Long-evans
Sex: F
treatment: LBN
Extracted molecule polyA RNA
Extraction protocol Nucleus accumbens tissue was dissected and flash frozen on dry ice. RNA was extracted using trizol reagent followed by the Qiagen micro RNAeasy kit
Library preps were created using the NEBNext Ultra library prep kit for illumina
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Description 5p46
Data processing Evaluating quality of samples with FastQC ver 0.11.9
Remove adapters and unpaired reads using Trimmomatic ver 0.39
Mapping to the geonome by HISAT 2.2.0 release 2/6/2020
Making sorted bam files using SAMtools ver 1.11
Counting number of reads by Stringtie v2.1.2
Finding diffrenetinally expressed genes applying Deseq2 ver 1.28.1
Genome_build: Rnor_6.0
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample
Supplementary_files_format_and_content: gtf file
 
Submission date Oct 30, 2020
Last update date Feb 04, 2021
Contact name Mathieu Wimmer
E-mail(s) mathieu.wimmer@temple.edu
Organization name Temple University
Street address 1701 N 13th Street
City Philadelphia
State/province PA
ZIP/Postal code 19122
Country USA
 
Platform ID GPL14844
Series (1)
GSE160495 Early life adversity promotes sex-specific resilience to opioid addiction-related phenotypes
Relations
BioSample SAMN16605695
SRA SRX9405768

Supplementary file Size Download File type/resource
GSM4874175_5p46.gtf.gz 12.3 Mb (ftp)(http) GTF
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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