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| Status |
Public on Aug 23, 2012 |
| Title |
Identification of long ncRNAs using RNA-seq in Arabidopsis |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We profiled Arabidopsis transcriptom using RNA-seq. Each RNA library yielded 223-250 million 101-bp single-end reads (235M on average). Using Tophat and Cufflinks, 30,199~30,650 assembled transcripts were identified in each of 4 samples. Of them, 1340 ones were derived from intergenic regions including 278 long intergenic ncRNAs (LincRNAs). Comparing with the 6,480 lincRNAs we identified by analysis of 200 tiling array data sets, 2,708 lincRNAs were also detected by RNA-seq.
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| Overall design |
Transcriptom profiling in roots, leaves, flowers and siliques.
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| |
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| Contributor(s) |
Liu J, Deng S, Wang H, Chua N |
| Citation(s) |
23136377 |
| |
| Submission date |
Jun 08, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Jun Liu |
| E-mail(s) |
liujun@caas.cn
|
| Organization name |
Institute of Crop Science
|
| Department |
Chinese Academy of Agricultural Sciences
|
| Lab |
Jun Liu lab
|
| Street address |
1230 York Avenue
|
| City |
No.12 Zhongguancun South Street, Haidian |
| State/province |
Beijing |
| ZIP/Postal code |
100081 |
| Country |
China |
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| Platforms (1) |
| GPL13222 |
Illumina HiSeq 2000 (Arabidopsis thaliana) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA168212 |
| SRA |
SRP013631 |
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