|
| Status |
Public on Dec 22, 2021 |
| Title |
Brain WT 2 |
| Sample type |
SRA |
| |
|
| Source name |
Brain
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Brain
strain: C57BL/6
age: P0
genotype: wild type
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted from the brain, the liver, and the skin of P0 newborns was purified using a RNeasy Mini Kit (QIAGEN, Hiden Germany).
RNA libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Next-generation sequencing was performed using an Illumina Novaseq 6000 platform to obtain 101-bp paired-end reads. Reads were adapter-trimmed using our in-house script and aligned to the mm9 reference genome using TopHat2 (https://ccb.jhu.edu/software/tophat/).
Reads per kilobase of exon per million mapped reads (RPKM) values were calculated using GFOLD.
Genome_build: mm9
Supplementary_files_format_and_content: htseq (DESeq) output
|
| |
|
| Submission date |
Dec 13, 2020 |
| Last update date |
Dec 22, 2021 |
| Contact name |
Takuya Takeichi |
| E-mail(s) |
takeichi@med.nagoya-u.ac.jp
|
| Phone |
+81-52-744-2314
|
| Organization name |
Nagoya University Graduate of School
|
| Street address |
65 Tsurumai-cho, Showa-ku
|
| City |
Nagoya |
| ZIP/Postal code |
466-8550 |
| Country |
Japan |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE163100 |
Autoinflammatory keratinization disease with hepatitis and autism reveals roles for JAK1 kinase hyperactivity in autoinflammation. |
|
| Relations |
| BioSample |
SAMN17071929 |
| SRA |
SRX9679476 |
