|
| Status |
Public on Sep 24, 2017 |
| Title |
Acupuncture group Hippocampus |
| Sample type |
SRA |
| |
|
| Source name |
Acupuncture group Hippocampus
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Sprague-Dawley
tissue: Brain
tissue region: Hippocampus
gender: Male
age: 6 weeks
group: Acupuncture
|
| Treatment protocol |
The rat model of depression was established by subjecting to chronic restraint stress (6h/day) for 28 days. Rats in acupuncture group were acupunctured at GV20 (Baihui) and GV29 (Yintang) one hour before the CRS procedures every day, for 28 days. Rats in fluoxetine group were administered with fluoxetine (10mg/kg) by gavage one hour before the CRS procedures every day, for 28 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Hippocampal, frontal cortex and pituitary gland were removed, flash frozen on dry ice, and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
A_H
expressed_gene_RPKM.txt
expressed_gene_reads.txt
|
| Data processing |
Illumina Casava1.9 software used for basecalling.
3' adapter (GATCGGAAGAGC) trimmed with fastx_clipper
Clean reads assembly by trinity with default parameters
mapped using bowtie -k 2 -v 2
detecting different expression gene using edgeR
Genome_build: Rnor_5.0 (Ensembl release 79)
Supplementary_files_format_and_content: tab-delimited text files include gene RPKM values & gene reads static for each Sample
|
| |
|
| Submission date |
Sep 02, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
dong chen |
| Organization name |
ablife
|
| Street address |
GaoXin 2nd Road
|
| City |
wuhan |
| State/province |
Hubei |
| ZIP/Postal code |
430064 |
| Country |
China |
| |
|
| Platform ID |
GPL20084 |
| Series (1) |
| GSE86392 |
Genome-wide Transcriptome Analysis of Hippocampus, Frontal cortex and Pituitary gland in Rats Elucidated the Pathogenisis of Depressive Disorder Induced by Chronic Restraint |
|
| Relations |
| BioSample |
SAMN05726793 |
| SRA |
SRX2104793 |
