Original title: Optimizing of pre-processing analysis for Illumina RNA-Seq data in Arabidopsis thaliana
Authors: Schwarzerová, Jana ; Janigová, Patrícia ; Dvořáčková, Martina ; Weckwerth, Wolfram
Document type: Papers
Language: eng
Publisher: Vysoké učení technické v Brně, Fakulta elektrotechniky a komunikačních technologií
Abstract: Gene expression analysis through RNA sequencing (RNA-Seq) has revolutionized molecular biology, providing profound insights into the intricate transcriptional landscapes of organisms. Arabidopsis thaliana, a widely studied model plant, serves as a cornerstone for investigating fundamental biological and ecology processes. However, accurate interpretation of RNASeq data hinges on meticulous pre-processing methods to ensure data integrity and trustworthiness, especially in the context of Illumina sequencing. In this research, we present a comprehensive framework for optimizing pre-processing analysis tailored specifically for Arabidopsis thaliana RNA-Seq datasets generated through Illumina sequencing. Our approach encompasses rigorous quality control, precise read alignment, transcript quantification, and normalization procedures crucial for subsequent differential expression analysis. Additionally, we address unique considerations and challenges inherent to Arabidopsis thaliana datasets, providing valuable insights for researchers in the field.
Keywords: Arabidopsis thaliana; Gene expression analysis; Quality control; Transcriptomics
Host item entry: Proceedings II of the 30st Conference STUDENT EEICT 2024: Selected papers, ISBN 978-80-214-6230-4, ISSN 2788-1334

Institution: Brno University of Technology (web)
Document availability information: Fulltext is available in the Brno University of Technology Digital Library.
Original record: https://hdl.handle.net/11012/249302

Permalink: http://www.nusl.cz/ntk/nusl-622487


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