|
| Status |
Public on Feb 09, 2017 |
| Title |
CTRL Rep1 |
| Sample type |
SRA |
| |
|
| Source name |
CTRL
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6 x 129Sv
tissue: Cerebellum
developmental stage: post natal day 4
genotype/variation: CitK +/-, P53 +/-
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Samples were harvested and flash frozen in liquid nitrogen. Total RNA was extracted using RNeasy Mini Kit (QIAGEN). RNA quality was checked by using the Bioanalyzer instrument.
Libraries were prepared from total RNA using TruSeq RNA Sample Preparation v2 according to the Illumina's protocol and sequenced
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiScanSQ |
| |
|
| Data processing |
Sequencing reads were trimmed out of the low-quality bases with Fastx Toolkit.
Filtered sequences were mapped on mm9 genome assembly by using TopHat v2.0.8b (67)
mRNAs quantification were performed using CuffLinks v2.2.0
mRNA differential expression quantifications were performed using Cuffdiff v2.2.0
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include gene name, genomic coordinates and FPKM values and status for each sample
|
| |
|
| Submission date |
Jun 17, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Ugo Ala |
| Organization name |
University of Torino
|
| Department |
Dept. of Molecular Biotechnology and Health Sciences
|
| Lab |
Molecular Biotechnology Center
|
| Street address |
Via Nizza 52
|
| City |
Torino |
| ZIP/Postal code |
10126 |
| Country |
Italy |
| |
|
| Platform ID |
GPL16173 |
| Series (1) |
| GSE83465 |
Expression profiling analysis of mouse P4 cerebellum in CitK mutant mice proficient or knockout for P53 |
|
| Relations |
| BioSample |
SAMN05257188 |
| SRA |
SRX1852458 |
