|
| Status |
Public on Jun 13, 2020 |
| Title |
uterine body LPS 3 |
| Sample type |
SRA |
| |
|
| Source name |
rabbit uterine body
|
| Organism |
Oryctolagus cuniculus |
| Characteristics |
tissue: uterine body
breed: New Zealand White
body weight: 2.56±0.13 kg
|
| Treatment protocol |
After synchronization of estrus and ovulation cycles using eCG and hCG-induction, the animals were randomly divided into four groups (n = 3). Half (n = 6) were intravaginally infused with saline, the LPS vehicle, and half (n = 6) with 4 mg/kg of LPS (055: B5, Sigma-Aldrich, USA). Three animals from the saline (n = 3) and three from the LPS (n = 3) group were intramuscularly injected with 20 mg/kg of CsA (BBI Life Sciences, UK), and the remaining three animals in each group were injected i.m. with saline three hours after infusion. After 3 hours of treatment tissue samples were taken from the uterine body.
|
| Growth protocol |
All rabbits were fed in individual cages under a 14-h light and 10-h dark regimen and at temperatures ranging from 16°C to 25°C. All animals were fed ad libitum on a standard diet.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
uterine body were removed, flash frozen on liquid nitrogen, and RNA was harvested using Trizol reagent. Illumina 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 HiSeq 2000 |
| |
|
| Data processing |
Clean Reads was sequenced to the reference genome using TopHat2
The Mapped notes were pieced together using Cufflinks software and compared with the original genome annotation information to search for previously unannotated transcriptional areas and to excavate new transcripts and new genes of the species to complement and refine the original genome annotation information.
Cuffquant and Cuffnorm used FPKM (Fragments Per Kilobase of transcript Per Million Fragments mapped) as an indicator to measure transcription or gene expression level.
The set of genes obtained by differential expression analysis is called differential expression gene set and is named "A_vs_B".Differentially expressed genes can be classified into up-regulated and down-regulated genes, depending on the relative level of expression between the two samples.
Genome_build: ftp://ftp.ensembl.org/pub/release-84/fasta/oryctolagus_cuniculus/dna/
|
| |
|
| Submission date |
Jun 12, 2020 |
| Last update date |
Jun 13, 2020 |
| Contact name |
Ling xu |
| E-mail(s) |
xuling1114684263@126.com
|
| Organization name |
Sichuan Agricultural University
|
| Department |
College of animal science and technology
|
| Street address |
No. 211 Huimin road
|
| City |
Chengdu |
| State/province |
Sichuan |
| ZIP/Postal code |
611130 |
| Country |
China |
| |
|
| Platform ID |
GPL18453 |
| Series (1) |
| GSE152343 |
RNA-Sequencing Reveals the Changes of Gene Expression Profile in the Lipopolysaccharide-induced Immunoresponsed Uterine Body after the Immunosuppressant Cyclosporine A-treatment |
|
| Relations |
| BioSample |
SAMN15222343 |
| SRA |
SRX8536843 |
