|
| Status |
Public on May 12, 2023 |
| Title |
WT_2 [atac-seq] |
| Sample type |
SRA |
| |
|
| Source name |
head
|
| Organism |
Danio rerio |
| Characteristics |
developmental stage: 18 hpf
genotype: WT
|
| Growth protocol |
zebrafish embryos were kept in E3 medium at 28°C until 18 hpf stage
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA tagmented as in Buenrostro et al., 2015
Library prepared as in Buenrostro et al., 2015
|
| |
|
| Library strategy |
ATAC-seq |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
data aligned with Bowtie2 (Langmead et al., 2012)
peakcalling with MACS2 (Zhang et al., 2008)
Genome_build: danRer10
Supplementary_files_format_and_content: narrowPeak files (MACS2 output)
|
| |
|
| Submission date |
Nov 28, 2021 |
| Last update date |
May 14, 2023 |
| Contact name |
Lorena Buono |
| E-mail(s) |
lor.buono@gmail.com
|
| Organization name |
IRCSS-SDN
|
| Street address |
via Emanuele Gianturco 32
|
| City |
Napoli |
| ZIP/Postal code |
80121 |
| Country |
Italy |
| |
|
| Platform ID |
GPL21741 |
| Series (2) |
| GSE189738 |
Mutation of Vsx genes in zebrafish highlights the robustness of the retinal specification network [ATAC-Seq] |
| GSE189739 |
Mutation of Vsx genes in zebrafish highlights the robustness of the retinal specification network |
|
| Relations |
| BioSample |
SAMN23481924 |
| SRA |
SRX13244630 |
