Mar 29, 2024  
2020-2021 UMaine Undergraduate Catalog 
    
2020-2021 UMaine Undergraduate Catalog [ARCHIVED CATALOG]

AVS 454 - DNA Sequencing Analysis Lab


This course will take students from raw DNA sequencing data through quality assurance, through to data interpretation, statistical analysis, and presentation of the results as a mock scientific article.  A background in microbiology, microbial ecology, or genetics would be beneficial.  No programming or data analysis experience is required. Students who are performing research may bring their own sequencing data to process in class.  Students will become familiar with command-line programs and basic computer programming techniques; understand bioinformatics methods such as quality trimming, assembling contigs, sequence alignment, using reference databases, and statistical comparisons; gain hands-on experience in bioinformatic analysis of DNA sequences using the R platform and its packages; primarily, DADA2, phyloseq, vegan, ggplot2; and be able to apply the knowledge gained in class to other sequence types and programs. Students may bring their own data, or some can be provided.  AVS 454 and 554 cannot both be taken for credit.

General Education Requirements: Quantitative Literacy

Prerequisites: AVS 254 or BIO 319 or Bio 350 or BMB 280 or WLE 200 or SMS 300, and STS 232 or STS 215; or instructor’s permission

Course Typically Offered: Spring

Credits: 2