Title: Identification of differentially expressed genes in Leaf vs. SAM tissues in Glycine Max using RNA-seq and the Williams 82 ISU01 Assembly v2 Glycine Max reference genome.

Author: Andrew Lovelett, North Carolina State University

BIOLOGICAL QUESTION: What changes in soybean gene expression do we uncover when aligning reads to the Williams 82 ISU01 Assembly v2 Glycine Max reference genome?

Pipeline Overview

Generated and achieved by previous students and professors

• Experimental design

• Collection and growth of biological materials

• RNA isolation

• Generation of sequencing libraries 

• Generation of FASTQ/FASTA sequencing files

Generated by myself for the portfolio 

• Developed my working directory and generated FASTQC data

• Indexed Glycine Max data to my selected reference genome using STAR

• Aligned the sequences to the reference genome using STAR

• Quantified the aligned sequences using SALMON

• Visualized the quantified data using GALAXY

Acknowledgements

I would like to thank everyone involved in the BIT CPT learning community. It has been a wonderful learning experience this semester. I would like to specifically thank Dr. Sjogren, Dr. Delorean, Dr. Cartwright and Edmaritz Hernandez Pagan. Also I want to give thanks to team meristem for their great work this semester thank you James, Jay and Haley. Lastly I would like to thank NCSU for the use of their technological resources like Henry 2 (HPC).