Bioinformatics: RNA-Seq/Differential expression in Bash & R!
Why take this course?
🧬 Unlock the Secrets of RNA-Seq with Bioinformatics Mastery!
🚀 Course Title: Bioinformatics: RNA-Seq/Differential Expression in Bash & R!
👩🏫 Instructor: Adrian Bourke
Course Headline:
Carry out a RNA-seq pipeline in the command line in Colab and use R to carry out differential expression & GO analysis!
Dive into the World of Genomics with Real-World Bioinformatics Skills!
🔍 What You'll Learn:
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Data Acquisition:
- Download publically available data from FTP sites directly to an HPC cluster.
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Data Processing:
- Obtain the needed raw files for genome alignment.
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Genome Alignment:
- Perform genome alignment using Salmon.
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Quality Control:
- Analyze the quality of your RNA-seq data using FastQC and MultiQC, and perform custom analyses in R.
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Differential Expression Analysis:
- Carry out differential expression analysis using DESeq2 to identify changes between different biological states or conditions.
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Gene Ontology Analysis:
- Perform gene ontology analysis using fgsea and clusterprofiler to understand the biological significance of your findings.
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Pathway Visualization:
- Use Pathview to create annotated KEGG maps that can be used to look at specific pathways in more detail.
📚 Practical-Based Learning Experience
- The course begins with an introductory lecture explaining some of the basics of sequencing and what RNA sequencing can be used for.
- Then, it's straight into the practical! With 19 lectures, you are guided step by step through the entire process from data downloading to data interpretation.
- Unlike most courses, this one presents real-world issues, such as dealing with code errors, using non-model organisms, and how to use your initiative to get around these challenges.
👩🎓 Who Is This Course For?
This course is designed for anyone interested in Next-Generation Sequencing and the cutting-edge technologies currently being used to make breakthroughs in genetic and medical research! It's perfect for beginners in RNA-seq who want to learn the general process and complete a full walkthrough that is directly applicable to their own data analysis projects. Whether you're a student, researcher, or professional in the field of bioinformatics, this course will provide you with the practical skills needed to excel in your work.
Join us on this journey to unlock the mysteries of biological data through RNA-seq, and take your first step towards mastering the art of bioinformatics! 🧬💫
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