|
| Status |
Public on Nov 01, 2016 |
| Title |
MG8 VR_p5_268 |
| Sample type |
SRA |
| |
|
| Source name |
Postnatal P5 full cortex
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
genotype: Uhrf1 -/-
age: P5
tissue: full cortex
|
| Growth protocol |
dissection of the entire cortex in P5 mice
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol and RNA clean and concentrator kit (Zymo research), Ribozero gold (Illumina MRZG126)
NEB Ultradirectional RNA library prep kit (E7530S)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Data processing |
Paired end RNA-seq reads were mapped to the mouse genome (mm10) using tophat2 (Kim et al., 2013). Expression of genes in FPKM was calculated with cuffdiff and cummerbund (Trapnell et al., 2013).
Genome_build: mm10
Supplementary_files_format_and_content: Uhrf1_P5_repFpkmMatrix.txt file
|
| |
|
| Submission date |
Jul 19, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Gunnar Schotta |
| E-mail(s) |
gunnar.schotta@bmc.med.lmu.de
|
| Phone |
089218075422
|
| Organization name |
LMU Munich
|
| Department |
Biomedical Center
|
| Street address |
Grosshaderner Strasse 9
|
| City |
Planegg-Martinsried |
| ZIP/Postal code |
82152 |
| Country |
Germany |
| |
|
| Platform ID |
GPL18480 |
| Series (2) |
| GSE84548 |
Loss of Uhrf1 in neural stem cells leads to activation of retroviral elements and delayed neurodegeneration [P5] |
| GSE84550 |
Loss of Uhrf1 in neural stem cells leads to activation of retroviral elements and delayed neurodegeneration |
|
| Relations |
| BioSample |
SAMN05415202 |
| SRA |
SRX1959630 |
