|
Status |
Public on Aug 02, 2021 |
Title |
RNA-seq in zebrafish wild-type embryos at 24hpf, replicate 2 |
Sample type |
SRA |
|
|
Source name |
whole embryo
|
Organism |
Danio rerio |
Characteristics |
developmental stage: 24 hpf genotype: WT
|
Treatment protocol |
Injection of tp53 morpholino was performed at 1-cell stage
|
Growth protocol |
Embryos were grown at 28°C in E3 medium until desired developmental stage
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was extracted using TRIsure (Bioline) and treated with TURBO DNA free kit (Invitrogen)
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
BGISEQ-500 |
|
|
Description |
RNA_24h_wt_rep2
|
Data processing |
Reads were aligned against reference genome using STAR software Read counts per gene were calculated using htseq-count script from HTSeq tools software package Genome_build: Zebrafish September 2014 (GRCz10/danRer10) Supplementary_files_format_and_content: Individual counts files (reads per gene)
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|
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Submission date |
Aug 12, 2020 |
Last update date |
Aug 02, 2021 |
Contact name |
José M. Santos-Pereira |
Organization name |
IBiS, Universidad de Sevilla-CSIC
|
Street address |
Avda. Manuel Siurot s/n
|
City |
Seville |
ZIP/Postal code |
41013 |
Country |
Spain |
|
|
Platform ID |
GPL24776 |
Series (2) |
GSE156094 |
CTCF knockout in zebrafish induces alterations in regulatory landscapes and developmental gene expression [RNA-seq] |
GSE156099 |
CTCF knockout in zebrafish induces alterations in regulatory landscapes and developmental gene expression |
|
Relations |
BioSample |
SAMN15802239 |
SRA |
SRX8931583 |