|
| Status |
Public on Oct 04, 2019 |
| Title |
GA-CFP 282 |
| Sample type |
SRA |
| |
|
| Source name |
spinal cord
|
| Organism |
Mus musculus |
| Characteristics |
strain/background: C57BL6
tissue: spinal cord T8-T13
genotype/variation: TG
treatment: OVA
|
| Treatment protocol |
WT or GA-CFP transgenic mice treated with either PBS or OVA-(GA)10 at age of 32 weeks.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Spinal cord from thoracic segment T8 to T13 were dissected, snap frozen on dry ice, and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Data processing |
Demultiplexed fastq files using Illumina Index file (Version 1.0) in Galaxy.
Adaptor sequence trimmed using Clip adaptor sequence (Version 1.0.0) in Galaxy.
Alignment using RNA STAR Gapped-read mapper (Version 2.5.2b-0) in Galaxy.
Count table generated using HTSeq-count (Version 1.0.0) in Galaxy.
Genome_build: mm10 (GRCm38)
Supplementary_files_format_and_content: *.tabular.txt: Tab-delimited count tables generated using HTSeq-count.
|
| |
|
| Submission date |
Oct 03, 2019 |
| Last update date |
Oct 04, 2019 |
| Contact name |
Qihui Zhou |
| Organization name |
German Center for Neurodegenerative Diseases
|
| Street address |
Feodor-Lynen-Str. 17
|
| City |
Munich |
| ZIP/Postal code |
81377 |
| Country |
Germany |
| |
|
| Platform ID |
GPL18480 |
| Series (1) |
| GSE138413 |
Transcriptome analysis on OVA-GA(10) immunized GA-CFP mice |
|
| Relations |
| BioSample |
SAMN12911160 |
