|
| Status |
Public on Jan 01, 2017 |
| Title |
node |
| Sample type |
SRA |
| |
|
| Source name |
node
|
| Organism |
Oryza sativa |
| Characteristics |
tissue: nodes I and II
|
| Growth protocol |
Rice was grown at 29ºC with a 12-h light (~ 80000 Lux) and 12-h dark photoperiod in the greenhouse or plant chamber.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction using Trizol protocols
paired-end library
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
The rna-seq data was monitored by the Fast-QC software
The rna-seq reads were alignment by the TopHat software
The rna-seq reads were assembled by the Cufflink software. The expression levels were estimated by Cufflink software.
Genome_build: MSU Rice Genome Annotation, Release 7
Supplementary_files_format_and_content: The processed data contained the FPKM calculated by TopHat
|
| |
|
| Submission date |
Jan 28, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Lin XU |
| E-mail(s) |
xulin01@sibs.ac.cn
|
| Phone |
86-21-54924101
|
| Organization name |
Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences
|
| Department |
Chinese Academy of Sciences
|
| Street address |
300 Fenglin Road
|
| City |
Shanghai |
| ZIP/Postal code |
200032 |
| Country |
China |
| |
|
| Platform ID |
GPL13160 |
| Series (1) |
| GSE65377 |
RNA-seq analysis of rice leaves, nodes and stems |
|
| Relations |
| BioSample |
SAMN03299205 |
| SRA |
SRX856969 |
