|
| Status |
Public on Dec 31, 2015 |
| Title |
Small RNAs in stress-related rice cultivars |
| Organism |
Oryza sativa |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
In this study, we sequenced small RNA content from three different rice cultivars employing Illumina technology. More than 15 million reads were generated using Illumina high-throughput sequencing platform. After pre-processing, distinct small RNA sequences were identified for each rice cultivars.
|
| |
|
| Overall design |
We collected seedlings of different rice cultivars and total RNA isolated was subjected to Illumina sequencing. The sequenced data was further filtered using NGS QC Toolkit to obtain high-quality reads. The filtered reads were pre-processed using modified perl script provided in the miRTools software. After quality control, the identical reads were collapsed into a unique read and read count for each sequence was recorded. All the filtered unique reads from each sample were mapped on the rice genome to find their location.
|
| |
|
| Contributor(s) |
Mukesh J, V Narayana C, Rama S, Rohini G |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| |
| Submission date |
Jan 05, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Mukesh Jain |
| Phone |
91-11-26704686
|
| Organization name |
Jawaharlal Nehru University
|
| Street address |
New Mehrauli Road
|
| City |
New Delhi |
| State/province |
New Delhi |
| ZIP/Postal code |
110067 |
| Country |
India |
| |
|
| Platforms (1) |
| GPL13160 |
Illumina HiSeq 2000 (Oryza sativa) |
|
| Samples (3) |
|
| Relations |
| BioProject |
PRJNA271566 |
| SRA |
SRP051685 |
