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| Status |
Public on Jul 01, 2014 |
| Title |
RNA Sequencing analysis of Wild Type and HID1 mutant Transcriptomes |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Seedling photomorphogenesis is a sophisticated developmental process that is controlled by both the transcriptional and posttranscriptional regulation of gene expression. Here, we identify an Arabidopsis noncoding RNA, designated HIDDEN TREASURE 1 (HID1), as a new factor promoting photomorphogenesisin continuous red light (cR). We show that HID1 acts through PHYTOCHROME-INTERACTING FACTOR 3 (PIF3), a bHLH transcription factor known to be a key repressor of photomorphogenesis.
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| Overall design |
Total RNA was isolated from 5-day-old cR-grown WT and hid1(hidden treasure 1)seedlings using RNeasy Plant Mini Kits (Qiagen). Three biological replicates for each sample were subjected to RNA-seq. Poly (A) RNA from 1 μg total RNA was used to generate the cDNA library according to the TruSeq RNA Sample Prep Kit protocol. The library was then sequenced using a HiSeq 2000 system (Illumina). RNA-seq reads were mapped to TAIR10 using Tophat (version 2.0.9) (1). Differentially expressed genes were defined as those that differed by >2-fold with an adjusted P value ≤0.05 that was identified using Cuffdiff software (version 2.0.0)
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| Contributor(s) |
Wang Y, Zhu D, Deng X |
| Citation(s) |
24982146 |
| Submission date |
May 19, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Xuncheng Wang |
| E-mail(s) |
1706380435@pku.edu.cn
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| Organization name |
Peiking University
|
| Street address |
5 Yiheyuan Road
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| City |
Beijing |
| ZIP/Postal code |
100871 |
| Country |
China |
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| Platforms (1) |
| GPL13222 |
Illumina HiSeq 2000 (Arabidopsis thaliana) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA248132 |
| SRA |
SRP042088 |
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