|
| Status |
Public on Jun 30, 2021 |
| Title |
Prasanna_Seedlings-Root_0 |
| Sample type |
RNA |
| |
|
| Source name |
root
|
| Organism |
Oryza sativa |
| Characteristics |
variety: Prasanna
developmental stage: 14 days seedling
treatment: No nitrogen
tissue: root
|
| Growth protocol |
Hydroponics 14 days old seedling root
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The seeds of two varieties viz, Prasanna amd Varadan were washed with sodium hypochlorite followed by five washes of one min each. The seeds were kept in petri plates lined with moistened filter paper for germination. After seven days the seedlings were transferred to Yoshida medium with nitrogen for 10 days. Then the seedlings were transferred in Yoshida media with supplemented N and without N to observed the response of genotypes under N supplementation and without N supplementation. Total RNA was isolated from roots in replication
|
| Label |
biotin
|
| Label protocol |
Standard Affymetrix protocol
|
| |
|
| Hybridization protocol |
Amount of signal from the 3’ probe set to either the mid or 5’ probe sets, a measure of the quality of the RNA hybridized to the chip
|
| Scan protocol |
Standard Affymetrix protocol
.CEL files obtained for each sample were processed through MAS 5 algorithm
|
| Description |
NMA9
|
| Data processing |
Present/Marginal/Absent calls were generated for each probe-set, using MAS 5.0 algorithm recommended by Affymetrix. % Present calls should be studied for each sample and if they are greater than 40%, the sample is considered as qualified for the downstream analysis.
|
| |
|
| Submission date |
Dec 01, 2020 |
| Last update date |
Jun 30, 2021 |
| Contact name |
C N Neeraja |
| E-mail(s) |
cnneeraja@gmail.com
|
| Organization name |
ICAR-Indian Institute of Rice Research
|
| Department |
Crop improvement
|
| Lab |
Biotechnology
|
| Street address |
Principal Scientist, ICAR-IIRR, Rajendranagar, Hyderabad 500030
|
| City |
Hyderabad |
| State/province |
Telangana |
| ZIP/Postal code |
500030 |
| Country |
India |
| |
|
| Platform ID |
GPL2025 |
| Series (1) |
| GSE162412 |
Differential expression of genes in roots of rice seedlings with contrasting response under low nitrogen |
|
