|
| Status |
Public on Jun 09, 2022 |
| Title |
Fin-uninjured-mutant-2 |
| Sample type |
SRA |
| |
|
| Source name |
Fin-uninjured-mutant
|
| Organism |
Danio rerio |
| Characteristics |
strain: Ekkwill
genotype: scn8ab(temca) -/-
treatment: Uninjured
protocol: 33°C for 36 hours
tissue: Uninjured fin
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Tissues were homogenized in immediately after dissection and RNA was extracted using Trizol reagent.
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 |
| |
|
| Description |
UN-MUT4_S4_L001
|
| Data processing |
Cutadapt to remove adapter sequences and short reads (less than 10bp)
HISAT2 to align to zebrafish GRCz11 reference genome
FeatureCount
Genome_build: GRCz11
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Oct 27, 2021 |
| Last update date |
Jun 10, 2022 |
| Contact name |
Junsu Kang |
| E-mail(s) |
junsu.kang@wisc.edu
|
| Phone |
(608) 262-8678
|
| Organization name |
University of Wisconsin-Madison
|
| Department |
Cell and Regenerative Biology
|
| Lab |
Junsu Kang Lab
|
| Street address |
1111 Highland Avenue
|
| City |
Madison |
| State/province |
WI |
| ZIP/Postal code |
53705 |
| Country |
USA |
| |
|
| Platform ID |
GPL24995 |
| Series (1) |
| GSE186729 |
Regulation of fin regeneration by a voltage-gated sodium channel |
|
| Relations |
| BioSample |
SAMN22612525 |
| SRA |
SRX12805806 |
