|
| Status |
Public on May 29, 2019 |
| Title |
L6382_9 |
| Sample type |
SRA |
| |
|
| Source name |
purified CD49f+ epidermal cells
|
| Organism |
Mus musculus |
| Characteristics |
cell type: purified CD49f+ epidermal cells
rnaseh2b genotype: flox/flox
cre-genotpye: K14-Cre-
|
| Treatment protocol |
n.a.
|
| Growth protocol |
n.a.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
epidermal cells were isolated accoring to Jensen et al., Nat Protoc. 2010 May;5(5):898-911. doi: 10.1038/nprot.2010.39.
Samples were prepared according to the NEBNext I Ultra Direction RNA KIT manual
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
6samples_featureCounts.mm10.E75.csv
|
| Data processing |
[Alignment] Alignment of the samples with GSNAP to the mm10 reference, and using Ensembl 75 for the support of splicesite detection
[Gene counting] Featurecounts was used to assign the reads to genes with the help of Ensembl 75 annotation
Genome_build: mm10
Supplementary_files_format_and_content: 6samples_featureCounts.mm10.E75.csv This is a ";" separated text file, containing the following files: GeneID, Strand, Length, Chromosome, Start, End position, followed by the six samples
|
| |
|
| Submission date |
May 29, 2018 |
| Last update date |
May 29, 2019 |
| Contact name |
Axel Roers |
| E-mail(s) |
Axel.Roers@med.uni-heidelberg.de
|
| Organization name |
Heidelberg University Hospital
|
| Department |
Institute of Immunology
|
| Lab |
Roers Lab
|
| Street address |
Im Neuenheimer Feld 305
|
| City |
Heidelberg |
| ZIP/Postal code |
69120 |
| Country |
Germany |
| |
|
| Platform ID |
GPL17021 |
| Series (2) |
| GSE115003 |
Ribonucleotide excision repair is essential to prevent skin cancer [CD49f+ epidermal cells] |
| GSE115005 |
Ribonucleotide excision repair is essential to prevent skin cancer |
|
| Relations |
| BioSample |
SAMN09274465 |
| SRA |
SRX4135267 |
