|
| Status |
Public on May 11, 2019 |
| Title |
Next-generation Sequencing Facilitates Quantitative Analysis of Wild Type and EED cKO mice Hippocampus Dentate Gyrus Transcriptomes |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Purpose:Quantification differentially expressed genes and find target genes. The goals of this study are to compare Wild Type and EED cKO hippocampus dentate gyrus transcriptome profiling (RNA-seq) to quantitative reverse transcription polymerase chain reaction (qRT–PCR) differentially expressed genes and find target genes
Methods: Hippocampus dentate gyrus mRNA profiles of 14-day-old wild-type (WT) and Embryonic Ectoderm Development conditional knockout (EED cKO) mice were generated by deep sequencing, in two biological replicates,using BGISEQ-500 platform.All RNA-Seq data were aligned to mouse genome version mm10 using HISAT.We use cluster software and Euclidean distance matrix for the hierarchical clustering analysis of the expressed gene and sample program at the same time, the clustering results can be viewed with javaTreeview. qRT–PCR validation was performed using SYBR Green assays.
Results:Only transcripts that showed more than 2-fold differential expression compared to control were subjected to relevance network analysis. 1047 candidate genes that were differentially expressed with biological functional groups as compared between WT and EED cKO mice .
Conclusions: Our study represents the first detailed analysis of Wild Type and EED cKO mice hippocampus dentate gyrus transcriptomes, with two biologic replicates, generated by RNA-seq technology.
|
| |
|
| Overall design |
Hippocampus dentate gyrus mRNA profiles of 14-day-old WT and EED cKO mice were generated by deep sequencing, in two biological replicates, using BGISEQ-500 platform.
|
| |
|
| Contributor(s) |
Liu P, Liu C |
| Citation(s) |
31204298 |
| Submission date |
May 10, 2019 |
| Last update date |
Jul 29, 2019 |
| Contact name |
Peipei liu |
| E-mail(s) |
strawberrylpp@163.com
|
| Phone |
13041069075
|
| Organization name |
institute of zoology,Chinese academy of sciences
|
| Department |
State Key Laboratory of Stem cells and Reproductive Biology
|
| Lab |
Group of Stem Cell and Neurological Diseases
|
| Street address |
No. 25-1 West Beisihuan Rd, Haidian District, Beijing
|
| City |
beijing |
| ZIP/Postal code |
100101 |
| Country |
China |
| |
|
| Platforms (1) |
|
| Samples (4)
|
|
| Relations |
| BioProject |
PRJNA542355 |
| SRA |
SRP197595 |
Less...
More...