|
| Status |
Public on Feb 04, 2021 |
| Title |
p16 |
| 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 |
2p16
|
| 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 |
SAMN16605711 |
| SRA |
SRX9405760 |
