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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PRJNA744246

PRJNA744246: Next Generation Sequencing of Wild Type and OsMIR393b Transcriptomes

Source: NCBI / GSE179594
Submission Date: Jul 06, 2021
Release Date: Dec 21, 2022
Update Date: May 12, 2023

Summary: Acquiring the gene network required for somatic embryogenesis by comparing the differentially expressed genes.

Overall Design: mRNA profiles of mature embryos of wild type (NIP) and OsMIR393b (OEB)

GEN Datasets:
GEND000522
Strategy:
Species:
Tissue:
Healthy Condition:
Cell Type:
Cell Line:
Development Stage:
Protocol
Growth Protocol: The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 24 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 25 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 26 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 27 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 28 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 29 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 30 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 31 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 32 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 33 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 34 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 35 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 36 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 37 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 38 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 39 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 40 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 41 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 42 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 43 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 44 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 45 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 46 ℃ cycle; The plants were grown in greenhouse at 16 h light, 28 ℃/8 h dark, 47 ℃ cycle
Treatment Protocol: -
Extract Protocol: Embryos were collected, flash frozen in liquid nitrogen, and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries.
Library Construction Protocol: RNA libraries were prepared for sequencing using standard Illumina protocols
Sequencing
Molecule Type: poly(A)+ RNA
Library Source:
Library Layout: PAIRED
Library Strand: Forward
Platform: ILLUMINA
Instrument Model: Illumina HiSeq 3000
Strand-Specific: Specific
Samples
Basic Information:
Sample Characteristic:
Biological Condition:
Experimental Variables:
Protocol:
Sequencing:
Assessing Quality:
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