|
| Status |
Public on Mar 19, 2021 |
| Title |
Wt_M_DRG2 |
| Sample type |
SRA |
| |
|
| Source name |
DRG tissues from naïve males
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL
age: 3-4 month
Sex: Male
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Single cell suspension from TG and DRG tissues. Sensory neuron fraction was isolated by using Percoll gradient approach
Approximately 10-20ng Total RNA was used for RNA-seq library preparation by following kapa rRNA depletion Total RNA-se sample preparation kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Data processing |
Illumina bcl2fastq software used for base-calling
All RNA-seq Fastq reads were aligned with the reference genome (UCSC mouse genome build mm9) using TopHat2 default settings (Trapnell et al., 2012).
The BAM files obtained after alignment were processed using htseq-count to obtain the counts per gene in all samples (Anders et al., 2015).
Genome_build: UCSC mouse genome build mm9
Supplementary_files_format_and_content: The processed data files are in tabular format. The first column contains the gene symbols and the second column contain the read counts of the gene using htseq-count
|
| |
|
| Submission date |
Aug 16, 2019 |
| Last update date |
Mar 19, 2021 |
| Contact name |
YI ZOU |
| E-mail(s) |
zou@uthscsa.edu
|
| Organization name |
UTHSA-GCCRI
|
| Street address |
8403 Floyd Curl Drive
|
| City |
SAN ANTONIO |
| State/province |
TX |
| ZIP/Postal code |
78229 |
| Country |
USA |
| |
|
| Platform ID |
GPL21493 |
| Series (1) |
| GSE135909 |
DRG (dorsal root ganglia) and TG (trigeminal ganglia) fractions enriched with sensory neurons |
|
| Relations |
| BioSample |
SAMN12588302 |
| SRA |
SRX6727680 |
