|
| Status |
Public on May 15, 2017 |
| Title |
RNAseq_Tfam-KO2 |
| Sample type |
SRA |
| |
|
| Source name |
Mouse E13.5 fetal liver erythroid cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
cell type: CD71+Ter119+ fetal liver erythroid cells
developmental stage: fetal liver
|
| Extracted molecule |
total RNA |
| Extraction protocol |
For RNA-seq analysis using the illumina NextSeq500, 0.1-2 ug of total RNA was processed for library generation using the TruSeq RNA Sample Preparation v2 Kit (illumina) following the manufacturer’s protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Sequencing reads were aligned to mouse genome assembly mm9 by TopHat.
The number of reads aligned to RefSeq annotated genes' exons were counted and further normalized to be of unit RPKM (number of reads per kilo base pair per million total reads).
Differential gene expression analyses were performed using Cufflinks.
Genome_build: mm9
Supplementary_files_format_and_content: text file of gene RPKM values
|
| |
|
| Submission date |
Sep 13, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Jian Xu |
| E-mail(s) |
Jian.Xu@UTSouthwestern.edu
|
| Phone |
214-648-6125
|
| Organization name |
UT Southwestern Medical Center
|
| Department |
Children's Research Institute
|
| Street address |
6000 Harry Hines Blvd. NL12.138B
|
| City |
Dallas |
| State/province |
TX |
| ZIP/Postal code |
75235 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE86865 |
RNA-seq transcriptonal profiling in E13.5 fetal liver erythroid cells from Tfam WT and KO mice |
| GSE86912 |
Quantitative Proteomic and Transcriptomic Analysis Reveals Post-Transcriptional Regulation of Mitochondrial Biogenesis during Erythropoiesis |
|
| Relations |
| BioSample |
SAMN05768183 |
| SRA |
SRX2162001 |
