|
| Status |
Public on Jun 25, 2015 |
| Title |
Pool_Col_Cvi_1_NS |
| Sample type |
SRA |
| |
|
| Source name |
3-week old plants
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
treatment: Control
sample type: pool of plants
age: 3 wk
genetic background: Pool of equal amounts of cDNA from parental Col-0 and Cvi-0 plants
tissue: whole plant
|
| Treatment protocol |
Water was automatically controlled and images were taken every day.
|
| Growth protocol |
Samples were grown in the Phenoscope platform for 21 days under short day periods.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNeasy Plant mini kit (Qiagen kit #74904)
Libraries were prepared according to Illumina's protocol for HiSeq2000
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Aligment was peformed using Palmapper v.0.4 using Col-0 and seudo-Cvi-0 genomes as references
Reads were called as either Col or Cvi based on SNP data from the re-sequencing of Cvi-0
Genome_build: TAIR10
Supplementary_files_format_and_content: allele specific expression ASE of Col-0 vs. Cvi-0
|
| |
|
| Submission date |
Jan 16, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Francisco A. Cubillos |
| E-mail(s) |
fcocubillos@gmail.com
|
| Organization name |
INRA-IJPB
|
| Street address |
Route de St Cyr
|
| City |
Versailles |
| ZIP/Postal code |
78026 |
| Country |
France |
| |
|
| Platform ID |
GPL13222 |
| Series (1) |
| GSE43560 |
Allele-specific expression in A. thaliana hybrids grown under control and drought stress conditions |
|
| Relations |
| SRA |
SRX217942 |
| BioSample |
SAMN01888266 |
