|
| Status |
Public on Dec 13, 2016 |
| Title |
Uninjured_Lung_2 |
| Sample type |
SRA |
| |
|
| Source name |
FACs sorted ILC2
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57/Bl6
tissue: Lung
stress: none
age: 10 week
genotype: Wild type
|
| Treatment protocol |
Injured group received 80Kdyn spinal cord contusion 24hr prior to sacrifice
|
| Growth protocol |
C57BL/6J mice were maintained in vivarium conditions
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using Arcturus PicoPure kit (Thermo Fisher)
Ovation RNA-Seq System V2 kit (Nugen) for initial RNA amplification. After purification, the cDNA was fragemented and further library steps performed.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
Gadani_Raw_Counts.tsv
|
| Data processing |
Base calling an quality scoring performed by real-Time Analysis (RTA) v2.
Raw FASTQ sequencing reads were chastity filtered to remove clusters having outlying intensity corresponding to bases other than the called base.
Filtered reads were assessed for quality using FastQC.
Reads were splice-aware aligned to the UCSC mm9 genome using STAR.
Reads overlapping Gencode mm9 gene regions were counted using HTSeq.
Genome_build: mm9
Supplementary_files_format_and_content: Tab-delimited text file with the raw counts.
|
| |
|
| Submission date |
Dec 05, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Christopher Overall |
| Organization name |
University of Virginia
|
| Department |
Neuroscience
|
| Street address |
409 Lane Road
|
| City |
Charlottesville |
| State/province |
Virginia |
| ZIP/Postal code |
22908 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE90908 |
Characterization of meningeal type 2 innate lymphocytes and their response to CNS injury |
|
| Relations |
| BioSample |
SAMN06111861 |
| SRA |
SRX2396680 |
