View markdown source on GitHub

Whole transcriptome analysis of Arabidopsis thaliana

Contributors

AvatarCristóbal Gallardo AvatarPavankumar Videm
last_modification Last modification: Apr 16, 2021

Introduction

Speaker Notes


Introduction: plant response to stress

plant response to stress.

Speaker Notes


Introduction: role of brassinosteroids

role of brassinosteroids.

Speaker Notes


Introduction: plant microRNAs

plant microRNAs.

Speaker Notes


Introduction: miRNAs as master regulators

Speaker Notes


Experimental design

Speaker Notes


Experimental design

Experimental design.

Speaker Notes


Background on data and tools

Speaker Notes


Background on data

Background on data.

.footnote[E Oh, Elife, 2014 and SY Park, Genes Genomics, 2020]

Speaker Notes


Tools used in the analysis

Tools used in the analysis.

Speaker Notes


Background on tools

Tools used in the analysis.

Speaker Notes


Salmon overview

Salmon overview.

.footnote[Patro, Nat Methods, 2017]

Speaker Notes


Salmon quasi-mapping

Salmon quasi-mapping.

.footnote[Srivastava, Bioinformatics, 2016]

Speaker Notes


Salmon advantages and limitations

Speaker Notes


Plant small RNA target prediction using TargetFinder

Speaker Notes


Thank you!

This material is the result of a collaborative work. Thanks to the Galaxy Training Network and all the contributors! Galaxy Training Network This material is licensed under the Creative Commons Attribution 4.0 International License.