|
| Status |
Public on Mar 23, 2021 |
| Title |
LC-DTA Croton oil rep4 |
| Sample type |
SRA |
| |
|
| Source name |
whole ear tissue
|
| Organism |
Mus musculus |
| Characteristics |
treatment: Croton Oil
genotype: DTA
sample type: mRNAseq
|
| Treatment protocol |
paint 20ul vehicle (aceton:olive oil = 4:1) or 1% croton oil in vehicle on ear (two sides) for 6 hours
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen RNeasy Kit
Illumina Truseq Stranded mRNA Library Prep kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
10797_DTA
|
| Data processing |
Adapter sequences were trimmed from raw sequencing reads using Cutadapt (Martin, 2011).
Trimmed reads were mapped to the mm10 mouse genome with HISAT2 (Kim et al., 2015).
Gene expression values (Transcripts per Million; TPM) were calculated following assignment to genomic features with Subread featurecounts (Liao et al., 2014).
Genome_build: mm10
Supplementary_files_format_and_content: TPM
|
| |
|
| Submission date |
Jan 13, 2020 |
| Last update date |
Mar 23, 2021 |
| Contact name |
Amanda Catherine Poholek |
| E-mail(s) |
poholeka@pitt.edu
|
| Organization name |
University of Pittsburgh
|
| Department |
Pediatrics
|
| Street address |
4401 Penn Ave., Rangos Research Center 8129
|
| City |
Pittsburgh |
| State/province |
Pennsylvania |
| ZIP/Postal code |
15224 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE143569 |
MrgprD-expressing neurons maintain cutaneous mast cell homeostasis |
|
| Relations |
| BioSample |
SAMN13838196 |
| SRA |
SRX7548655 |
