|
| Status |
Public on May 29, 2017 |
| Title |
SAM24313603 Skin CD34+ cells control NaCl |
| Sample type |
SRA |
| |
|
| Source name |
RNA
|
| Organism |
Mus musculus |
| Characteristics |
sample_id: SAM24313603
inventory_sample_name: CD34+ cells control
tissue: skin
treatment: NaCl
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
After FACS, RNA was extracted from samples using the RNeasy Micro kit (cat # 74004; Qiagen) according to the manufacturer's instructions including the on-column DNase digestion. RNA quality was evaluated using Bioanalyzer.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Reads were aligned to the GRCm38 genome using GSNAP and genes were counted using the HTSeqGenie Bioconductor package. Gene models were from our internal database and available in the manuscript supplementary material. "nRPKM" normalization was performed. This is similar to "RPKM" normalization but includes an extra step for sizeFactor adjustment and is described in the Methods of the manuscript. Supplementary files use Entrez Gene IDs, counts and nRPKM statistics.
Genome_build: GRCm38
Supplementary_files_format_and_content: raw counts + RPKM
|
| |
|
| Submission date |
Sep 15, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Robert Piskol |
| E-mail(s) |
[email protected]
|
| Organization name |
Genentech Inc.
|
| Department |
gRED Computational Sciences
|
| Street address |
1 DNA Way
|
| City |
South San Francisco |
| State/province |
CA |
| ZIP/Postal code |
94080 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE86962 |
Profiling of CD34+ hair follicle stem cells |
|
| Relations |
| BioSample |
SAMN05773404 |
| SRA |
SRX2164892 |
