Gene Expression NebulasSummary: We performed poly(A)+, poly(A)-, nuclear, small RNA-seq analysis on Oryza sativa japonica WT plants.
Overall Design: We treated the seedlings under the stress conditions, including cold, drought, heat, high-salt, and high-light. Also, we choose two tissues, roots and panicles for RNA sequencing.
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| Growth Protocol: | We plant the Oryza sativa japonica on the ½ MS medium in a growth chamber under conditions of 12 hours light at 28℃ and 12 hours dark at 22℃ for 2 weeks. |
| Treatment Protocol: | Drought, high-salt, cold, heat, highlight stress treatment. |
| Extract Protocol: | The total RNAs were extracted with the Trizol reagent (Invitrogen). After total RNA extraction, ribosomal RNAs were removed using RiboMinus™ Plant Kit repeated two times. The poly(A)+ and poly(A)- constituent were separated with oligo(dT) magnetic beads (Oligotex mRNA Mini Kit, QIAGEN). |
| Library Construction Protocol: | dUTP based strand-specific library construction protocol |
| Molecule Type: | poly(A)- RNA |
| Library Source: | |
| Library Layout: | PAIRED |
| Library Strand: | Forward |
| Platform: | ILLUMINA |
| Instrument Model: | Illumina HiSeq 2000; Illumina HiSeq 2500 |
| Strand-Specific: | Specific |
| Data Resource | GEN Sample ID | GEN Dataset ID | Project ID | BioProject ID | Sample ID | Sample Name | BioSample ID | Sample Accession | Experiment Accession | Release Date | Submission Date | Update Date | Species | Race | Ethnicity | Age | Age Unit | Gender | Source Name | Tissue | Cell Type | Cell Subtype | Cell Line | Disease | Disease State | Development Stage | Mutation | Phenotype | Condition Detail | Growth Protocol | Treatment Protocol | Extract Protocol | Library Construction Protocol | Molecule Type | Library Layout | Strand-Specific | Library Strand | Spike-In | Strategy | Platform | Instrument Model | Cell Number | Reads Number | Gbases | AvgSpotLen1 | AvgSpotLen2 | Uniq Mapping Rate | Multiple Mapping Rate | Coverage Rate |
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