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Gene Expression Analysis (Reference-Based)

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Overview

We offer comprehensive gene expression analysis using RNA-Seq data for organisms with a reference genome available.
In RNA-Seq, efficient mRNA analysis requires the removal of ribosomal RNA (rRNA), which constitutes the majority of total RNA.
We use Oligo-dT beads or the Illumina Ribo-Zero Plus kit to deplete rRNA from the total RNA samples you provide, enabling the comprehensive sequencing of mRNA.
* For organisms without a reference genome, please refer to the De novo Transcriptome Sequencing page.

Workflow

Recommended Data Amount

 Sequencing Specification  Illumina 150PE
 Data Amount 20 million read pairs per sample
* Data amount is available from a minimum of 1 Gb per sample (3.3 million paired-end reads) and can be adjusted in 1 Gb increments.

Data Analysis

Gene Expression Analysis (Standard Analysis)

We calculate gene expression levels (TPM values) from RNA-Seq data.
Standard analysis includes fold-change calculations between samples or groups.
Statistical significance testing is available as an optional service.

Features:

● Specialized for calculating gene expression levels
● Expression levels reported in TPM values
* Alignment information (BAM files) is not included in the standard analysis but can be provided upon request as an optional add-on.

Example of Delivered Data:
■ Gene Expression Table

* Includes TPM values and fold-change calculations between samples/groups.

■ Various Figures
Visualization of expression profile comparisons between samples.

Statistical Significance Testing (Optional)

We perform statistical significance testing for gene expression changes between groups (recommended for n ≥ 3).

Example of Delivered Data:
■ Statistical Test Results

■ Various Figures

GO Analysis (Optional)

We identify Gene Ontology (GO) terms highly associated with differentially expressed genes.

Example of Delivered Data:

* Please inquire in advance for species other than human or mouse.

Pathway Analysis (Optional)

We identify pathways closely associated with differentially expressed genes.

Delivery Data Example:

* Please inquire in advance for species other than human or mouse.

Sample Requirements

Organism Type Sample Type Total Amount Concentration Volume
Eukaryotes Total RNA ≥ 600 ng ≥ 20 ng/µL ≥ 30 µL
mRNA ≥ 100 ng ≥ 3 ng/µL ≥ 30 µL
Prokaryotes Total RNA ≥ 1.5 µg ≥ 50 ng/µL ≥ 30 µL
mRNA ≥ 100 ng ≥ 3 ng/µL ≥ 30 µL
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