|
| Status |
Public on Sep 06, 2016 |
| Title |
WT Isolated_PFC_Rep_1 |
| Sample type |
SRA |
| |
|
| Source name |
Prefrontal cortex
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: prefrontal cortex
age: 8-10 weeks
genotype: wild type
housing: single
|
| Treatment protocol |
6 days group or single housed
|
| Growth protocol |
C57BL/6J mice 8 weeks old
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using RNAeasy mini kit (Qiagen)
cDNA library was generated with a TruSeq Stranded mRNA Library Prep Kit (Illumina) with Agencourt AMPure XP beads for PCR cleanup.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| 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 UCSC mm9 gene regions were counted using featureCounts.
Genome_build: mm9
Supplementary_files_format_and_content: Tab-delimited text file with the raw counts.
|
| |
|
| Submission date |
May 23, 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 |
GPL19057 |
| Series (1) |
| GSE81783 |
Unexpected role of interferon-g in regulating neuronal connectivity and social behavior |
|
| Relations |
| BioSample |
SAMN05163846 |
| SRA |
SRX1793921 |
