|
| Status |
Public on Jul 01, 2022 |
| Title |
Retina from WT adult fish, replicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
Adult retina
|
| Organism |
Danio rerio |
| Characteristics |
genotype: WT
developmental stage: Adult
tissue: Retina
|
| Growth protocol |
Zebrafish were grown at 28°C 14 h light/10 h dark cycle.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Adult fish retinae were removed and five retinae per genotype were pulled for RNA extraction using RNA RNeasy Mini kit (QIAGEN). Larvae eyes were removed and twenty eyes per genotype were pulled for RNA extraction using RNA RNeasy Mini kit (QIAGEN).
RNA libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
Retina_Adult_a
PolyA-selected stranded RNA-seq.
|
| Data processing |
Raw reads were mapped with vast-tools align v2.5.1.
Genome_build: danRer10
Supplementary_files_format_and_content: *.cRPKM.txt: Tab-delimited text files with raw read counts and cRPKMs.
|
| |
|
| Submission date |
Jul 25, 2021 |
| Last update date |
Jul 01, 2022 |
| Contact name |
Manuel Irimia |
| E-mail(s) |
mirimia@gmail.com
|
| Phone |
+34933160212
|
| Organization name |
Centre for Genomic Regulation
|
| Department |
Systems Biology Unit
|
| Street address |
88 Dr. Aiguader
|
| City |
Barcelona |
| State/province |
Barcelona |
| ZIP/Postal code |
08003 |
| Country |
Spain |
| |
|
| Platform ID |
GPL18413 |
| Series (2) |
| GSE180778 |
Regulation of retina microexons by srrm3 in zebrafish |
| GSE180781 |
Regulation of retina microexons by srrm3 in zebrafish and by SRRM3, SRRM4 and MSI1 in human cell lines |
|
| Relations |
| BioSample |
SAMN20378379 |
| SRA |
SRX11547916 |
