|
| Status |
Public on Sep 07, 2020 |
| Title |
sep1sep2sep3 SEP3 line 2 |
| Sample type |
SRA |
| |
|
| Source name |
flower
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
tissue: infloresence meristem flower buds
developmental stage: stages 10-11
genotype: sep1sep2sep3 expressing SEP3
|
| Growth protocol |
Description of the Arabidopsis lines , growth condition and RNA extraction protocoles are found in the following paper: Hugouvieux et al, Nucleic Acid Research, 2018:1;46(10):4966-4977. doi: 10.1093/nar/gky205.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Poly A selection, Construction of the libraries and sequencing were perfomed by Genewiz
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
triple mutant expressing SEP3 line2
|
| Data processing |
Mapping onto the Arabidopsis genome was done using STAR (no multimapping mismatch < 10), available in the Galaxy platform.
Read count per gene was done using FeatureCount (default parameters) available in the Galaxy platform.
Statistical analysis were done using EdgeR (default parameters), available in the Galaxy platform.
Genome_build: Arabidopsis_thaliana_TAIR10
Supplementary_files_format_and_content: comparison data
|
| |
|
| Submission date |
May 14, 2020 |
| Last update date |
Sep 08, 2020 |
| Contact name |
Veronique Hugouvieux |
| E-mail(s) |
veronique.hugouvieux@cea.fr, vhugouvieux@gmail.com
|
| Organization name |
CEA Grenoble
|
| Department |
IRIG
|
| Lab |
LPCV
|
| Street address |
17 rue des Martyrs
|
| City |
Grenoble |
| ZIP/Postal code |
38054 |
| Country |
France |
| |
|
| Platform ID |
GPL21785 |
| Series (1) |
| GSE150605 |
Identification of genes regulated by the MADS transcription factor (TF), SEPALLATA3, in the context of the double sep1sep2 and triple sep1sep2sep3 mutant background, by RNA-Seq analysis |
|
| Relations |
| BioSample |
SAMN14927599 |
| SRA |
SRX8343275 |
