|
| Status |
Public on Feb 26, 2022 |
| Title |
RNA-seq in amphioxus, Wnt treatment, replicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
RNA-seq in amphioxus, Wnt treatment
|
| Organism |
Branchiostoma lanceolatum |
| Characteristics |
developmental stage: 15h
treatment: Wnt treatment
tissue: whole embryo
|
| Growth protocol |
Embryos were cultivated at 28°C in E3 medium until desired developmental stage
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Embryos were fixed in RNAlater (Thermo Fisher Scientific) and RNA extracted using RNeasy Mini Kit (Qiagen)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
Amphioxus (Branchiostoma lanceolatum)
Amphi_RNAseq_Wnt_rep1
|
| Data processing |
Reads were aligned against reference genome using STAR software, and assigned to genes using HTSeq.
Genome_build: Amphioxus Bl71 (Marlètaz et al., 2018. Nature 564:64-70. doi: 10.1038/s41586-018-0734-6), Zebrafish September 2014 (GRCz10/danRer10)
Supplementary_files_format_and_content: Read counts per transcript
|
| |
|
| Submission date |
Apr 16, 2020 |
| Last update date |
Feb 27, 2022 |
| Contact name |
Juan J. Tena |
| E-mail(s) |
jjtenagu@upo.es
|
| Organization name |
CABD/CSIC
|
| Street address |
Univ. Pablo Olavide, Ctra. Utrera km1
|
| City |
Sevilla |
| ZIP/Postal code |
41013 |
| Country |
Spain |
| |
|
| Platform ID |
GPL24210 |
| Series (2) |
| GSE148782 |
Gain of gene regulatory network interconnectivity at the origin of vertebrates [RNA-seq] |
| GSE148783 |
Gain of gene regulatory network interconnectivity at the origin of vertebrates |
|
| Relations |
| BioSample |
SAMN14605468 |
| SRA |
SRX8123948 |
