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Sample Preparation and Analysis of RNASeq-based Gene Expression Data from Zebrafish
Published on: October 27, 2017
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Conduct and Quality Control of Differential Gene Expression Analysis Using High-Throughput Transcriptome Sequencing
1Institute of Human Genetics, University of Regensburg, Regensburg, Germany. felix.grassmann@ukr.de.
Methods in Molecular Biology (Clifton, N.J.)
|October 17, 2018
Summary
This study details a step-by-step RNA sequencing (RNASeq) data analysis procedure for retinal tissues. The method identifies differentially expressed genes between retina and RPE-choroid-sclera using the Tuxedo Suite.
Area of Science:
- Genomics
- Molecular Biology
- Ophthalmology
Background:
- High-throughput transcriptome sequencing (RNASeq) is a powerful tool for global gene expression analysis.
- RNASeq enables absolute quantification and discovery of novel transcripts and splice variants.
Purpose of the Study:
- To provide a comprehensive, step-by-step protocol for analyzing RNASeq data from human retinal tissues.
- To identify genes with differential expression between retinal and RPE-choroid-sclera tissues.
Main Methods:
- RNASeq data generated from human retina and RPE-choroid-sclera tissues from peripheral and macular regions.
- Analysis performed using the free, open-source Tuxedo Suite software package.
- Differential gene expression analysis between tissue types.
Main Results:
- A detailed procedure for RNASeq data analysis is presented.
- The methodology allows for the identification of genes with significant expression differences between retina and RPE-choroid-sclera.
Conclusions:
- The described RNASeq analysis pipeline offers a robust method for studying gene expression in ocular tissues.
- This approach facilitates the discovery of molecular differences between distinct retinal tissue compartments.
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