|
| Status |
Public on Sep 30, 2024 |
| Title |
AD_t1_K2_1 |
| Sample type |
SRA |
| |
|
| Source name |
whole embryo
|
| Organism |
Danio rerio |
| Characteristics |
tissue: whole embryo
timepoint: t1
genotype: K2
treatment: AD
|
| Treatment protocol |
Embryos were exposed to gamma-IR of 20 Gy at 24 hpf
|
| Growth protocol |
Zebrafish embryos after collection were maintained at 28.5C in E2 medium at a density ⋜ 50 embryos
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using RNeasy Mini Kit (QIAGEN)
rRNA depletion (Rio-Zero Plus rRNA Depletion Kit (Ilumina), then library prep using KAPA mRNA HyperPrep Kit for Ilumina Platforms
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Cutadapt 1.9.1
rsem 1.3.0
star 2.5.2a
Assembly: GRCz11 assembly
Supplementary files format and content: *.genes.results are rsem count files
|
| |
|
| Submission date |
Sep 28, 2023 |
| Last update date |
Sep 30, 2024 |
| Contact name |
Rebecca Ann Jones |
| E-mail(s) |
rj2787@princeton.edu
|
| Organization name |
Princeton University
|
| Department |
Molecular Biology
|
| Lab |
Devenport
|
| Street address |
Lewis Thomas Laboratory
|
| City |
Princeton |
| State/province |
New Jersey |
| ZIP/Postal code |
08544 |
| Country |
USA |
| |
|
| Platform ID |
GPL21741 |
| Series (1) |
| GSE244291 |
Zebrafish reveal new roles for Fam83f in hatching and DNA damage-mediated autophagic responses |
|
| Relations |
| BioSample |
SAMN37594024 |
| SRA |
SRX21920612 |
