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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GEND000615
Basic Information Samples Gene Expression Patterns Transcriptomic Profiles Visualization

GEND000615: Bulk RNA sequencing data of rice roots protoplasted for 2.5 hours and 3 hours, as well as rice roots grown in gel, non-compacted soil and compacted soil conditions

BioProject ID:    PRJNA1193632     Original Project ID:    GSE283428     Sample Number:    15    

Strategy:
Species:
Oryza sativa
Tissue:
Healthy Condition:
Cell Type:
Cell Line:
Development Stage:
Biological Context:
Baseline:
No
Genetic:
-
Phenotypic:
-
Environmental:
-
Spatial:
Tissue; Cell type
Temporal:
-
Quality and Quantity:
RNA Type:
Poly(A)+ RNA
Median Mapping Quality:
0.9471
Median Coverage:
40.06
Max Sequencing Length:
298
#Max Replicate:
4
Meta Data Download:

Gene Expression Patterns

OR
Heatmap Boxplot

Transcriptomic Profiles

Note:
GENDX:
Gene Expression Profiles
GENDE:
RNA Editing Profiles
GENDS:
Alternative Splicing Profiles
GENDC:
CircRNA Expression Profiles
ID: GENDX000615 Download
Reference Genome: RAP-DB IRGSP-1.0
Genome Annotation: RAP-DB IRGSP-1.0
Data Processing:
  1. Read filtering: Fastp v0.20.0
  2. Read mapping: STAR v2.7.1a
  3. Expression calculation: RSEM v1.3.1

Samples

Display Columns
Basic Information:
Sample Characteristic:
Biological Condition:
Experimental Variables:
Protocol:
Sequencing:
Assessing Quality:
(0)
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GEN Sample ID GEN Sample Name 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