Bulk RNA-Seq Analysis Demystified: Step-by-Step Tutorial Part 2

Welcome to the second part of our Bulk RNA-seq Analysis Tutorial series! In this tutorial, we will learn how to download and extract SRA (Sequence Read Archive) files for single-end and paired-end reads. **Commands Covered:** - `prefetch`: Download SRA file - `fasterq-dump`: Extract fastaq file **Single-End Read Example:** 1. Create a directory: mkdir sra_data cd sra_data pwd /home/shashi/sra_data 2. Download SRA file to the current directory: prefetch SRR12567890 ls SRR12567890 ls SRR12567890/ SRR12567890.sra 3. Extract fastaq file: fasterq-dump SRR12567890 ls SRR12567890 SRR12567890.fastaq **Paired-End Read Example:** 1. Create a directory: mkdir paired_end cd paired_end 2. Download SRA file to the current directory: prefetch SRR125000 ls SRR125000 ls SRR125000/ SRR125000.sra 3. Extract fastaq files (write reads into two different files): ``` fasterq-dump SRR125000 --split-files --skip-technical ls SRR125000 SRR1215000_1.fastaq SRR125000_2.fastaq ``` **Additional Command:** - `vdb-config -i`: Visual display to set the directory Stay tuned for more tutorials on Bulk RNA-seq Analysis! If you found this video helpful, please like, share, and subscribe to our channel for future updates. .#Learn Innovatively with Me Disclaimer: The information provided in this tutorial is intended for educational and instructional purposes only. The tutorial creator and platform do not assume any liability for any errors, omissions, or inaccuracies in the content. It is essential to exercise caution and follow best practices when conducting experiments and data analysis in a laboratory setting.