NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM4613259 Query DataSets for GSM4613259
Status Public on Jun 13, 2020
Title uterine body control 1
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 SAMN15222348
SRA SRX8536838

Supplementary file Size Download File type/resource
GSM4613259_Control_1_FPKM_.xlsx 441.5 Kb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap