|
| Status |
Public on Mar 01, 2018 |
| Title |
Pelo -/- Lgr6 replicate 2 |
| Sample type |
SRA |
| |
|
| Source name |
Epidermis
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: Epidermis
age: 3months
genotype: Pelo -/-
|
| Growth protocol |
Primary epidermal cell suspension was prepared from 4-OHT treated Pelofl/+; Lrig1EGFP-CreERT2, Pelofl/+; Lgr5EGFP-CreERT2, Pelofl/+; Lgr6EGFP-CreERT2 control mice and Pelofl/fl; Lrig1EGFP-CreERT2, Pelofl/fl; Lgr5EGFP-CreERT2, Pelofl/fl; Lgr6EGFP-CreERT2 Pelo mut mice.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total epidermal population was FACS sorted for GFP+ cells and 1000 GFP+ cells collected from each population for RNA-seq.
Library construction and the strategy for RNA-seq was performed as reported previously (Picelli et al. Nature Protocol 2014).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Fastq files were processed using Galaxy and aligned using RNA STAR with default options
BAM files were processed in R using “rnaseqGene” workflow
The data was analysed using the edgeR package.
Genome_build: GRCm38/Mm10
Supplementary_files_format_and_content: single csv file with count data for all samples
|
| |
|
| Submission date |
Oct 26, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Angela Oliveira Pisco |
| E-mail(s) |
angela.pisco@czbiohub.org
|
| Organization name |
CZ Biohub
|
| Department |
Data Sciences
|
| Street address |
499 Illinois St
|
| City |
San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94103 |
| Country |
USA |
| |
|
| Platform ID |
GPL21103 |
| Series (1) |
| GSE106246 |
An evolutionarily conserved ribosome-rescue pathway maintains epidermal homeostasis |
|
| Relations |
| BioSample |
SAMN07839621 |
| SRA |
SRX3333961 |
