|
| Status |
Public on Jan 24, 2022 |
| Title |
RNA_Ctrl_19hpf_1 |
| Sample type |
SRA |
| |
|
| Source name |
ecodermal explants
|
| Organism |
Branchiostoma lanceolatum |
| Characteristics |
developmental timing: 19 hpf
treatment: Control
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA was extracted from frozen explants by using the QIAGEN RNeasy Plus Micro Kit
polyA-selected standard Illumina libraries
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
RNAseq_19h_DEG.tsv.gz
|
| Data processing |
Alignment with HISAT2
Filtering of duplicated and not valid reads
Read count per gene with featureCounts
Differential gene expression analysis with EdgeR
Genome_build: Amphioxus Bl71nemr (Genomic sequencing data was submitted to ENA under the master PRJEB13665 accession)
Supplementary_files_format_and_content: Tabular format, differential expressed genes
|
| |
|
| Submission date |
Feb 09, 2021 |
| Last update date |
Jan 24, 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) |
| GSE166497 |
RNA-seq data of control and Activin-treated amphioxus ectodermal explants at 11 hpf and 19 hpf. |
| GSE166498 |
Control and Activin-treated amphioxus ectodermal explants at 11 hpf and 19 hpf. |
|
| Relations |
| BioSample |
SAMN17845694 |
| SRA |
SRX10063060 |
