|
| Status |
Public on Mar 17, 2021 |
| Title |
WT DRG 1D 2 |
| Sample type |
SRA |
| |
|
| Source name |
L3-L5 DRGs
|
| Organism |
Mus musculus |
| Characteristics |
tissue: dorsal root ganglia (DRG)
sample type: 1 day following sciatic nerve injury
injury condition: mid-thigh sciatic nerve crush
strain: C57BL/6
sample storage: DRGs stored in Trizol
|
| Extracted molecule |
total RNA |
| Extraction protocol |
L3-L5 DRGs were removed from PBS perfused mice, flash frozen on dry ice, and RNA was harvested using Trizol reagent.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Basecalls/demultiplexing performed using Illumina CASAVA 1.8.2
Aligned to mm10 using STAR2.4.0
Count read using HT-seq0.6.1 using Ensembl GRCm38 as reference
Normalization (VST), removed unwanted variation (k=1) by RUVseq, quantitation and differential expression analysis using limma
Genome_build: mm10
Supplementary_files_format_and_content: raw and normalized read count
|
| |
|
| Submission date |
Jun 25, 2020 |
| Last update date |
Mar 17, 2021 |
| Contact name |
Riki Kawaguchi |
| E-mail(s) |
rkawaguchi@mednet.ucla.edu
|
| Phone |
4244424783
|
| Organization name |
University of California Los Angeles
|
| Department |
Department of Neurology and Department of Psychiatry
|
| Lab |
Informatics Center for Neurogenetics and Neurogenomics (ICNN).
|
| Street address |
760 Westwood Plaza, Room 37-420
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095-1759 |
| Country |
USA |
| |
|
| Platform ID |
GPL21103 |
| Series (2) |
| GSE153240 |
Sciatic Nerve Injury Triggered Inflammation: Insights into Conditioning-Lesion Induced Axon Regeneration [bulk RNA-seq] |
| GSE153896 |
Sciatic Nerve Injury Triggered Inflammation: Insights into Conditioning-Lesion Induced Axon Regeneration |
|
| Relations |
| BioSample |
SAMN15367911 |
| SRA |
SRX8615948 |
