Gene Expression Nebulas
A data portal of transcriptomic profiles analyzed by a unified pipeline across multiple species

Gene Expression Nebulas

A data portal of transcriptome profiles across multiple species
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PRJCA002833

PRJCA002833: RNA-seq of rice 9311 at Taoyuan

Source: NGDC / CRA002804
Submission Date: Jun 11 2020
Release Date: Jun 11 2020
Update Date: -

Summary: Taoyuan of Yunnan in China, has been a well-known amazing place where the highest rice yield in the world was recorded. Since Taoyuan is a unique dry and hot valley of the upstream Yangtze River, we chose Jinghong where is a typical region planting indica rice as the control place.To systematically reveal the gene regulation mechanism underpinning this ultra-high yield,tiller buds, tiller roots, young panicles, booting panicles, booting leaves, booting roots and flag leaves of the rice variety 9311 from Taoyuan and Jinghong were collected for RNA-seq.

GEN Datasets:
GEND000317
Strategy:
Species:
Tissue:
Development Stage:
Protocol
Growth Protocol: Water, weeds, insects, and disease were controlled because their control is needed to avoid yield loss.
Treatment Protocol: -
Extract Protocol: Total RNA of the tissues was extracted and determined using the NanoDrop ND-2000 system (Thermo Scientific, Waltham, MA), followed by sequencing using an Illumina HiSeq 2500 platform.
Library Construction Protocol: -
Sequencing
Molecule Type: -
Library Source:
Library Layout: PAIRED
Library Strand: -
Platform: ILLUMINA
Instrument Model: Illumina HiSeq 2500
Strand-Specific: Unspecific
Samples
Basic Information:
Sample Characteristic:
Biological Condition:
Experimental Variables:
Protocol:
Sequencing:
Assessing Quality:
Analysis:
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 Case Detail Control 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
Publications
Identification of Key Genes for the Ultrahigh Yield of Rice Using Dynamic Cross-tissue Network Analysis.
Genomics, proteomics & bioinformatics . 2020-06-01 [PMID: 32736037]