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An Introduction to Eukaryotic Genome Analysis in Non-model Species for Undergraduates: A tutorial from the Genome...Learning ObjectivesAt the end of the activity, students will be able to:
- Explain the steps involved in genome assembly, annotation, and variant detection to other students and instructors.
- Create meaningful visualizations of their data using the integrated genome viewer.
- Use the Linux command line and web-based tools to answer research questions.
- Produce annotated genomes and call variants from raw sequencing reads in non-model species.
Predicting and classifying effects of insertion and deletion mutations on protein coding regionsLearning ObjectivesStudents will be able to:
- accurately predict effects of frameshift mutations in protein coding regions
- conduct statistical analysis to compare expected and observed values
- become familiar with accessing and using DNA sequence databases and analysis tools
Tackling "Big Data" with Biology Undergrads: A Simple RNA-seq Data Analysis Tutorial Using GalaxyLearning Objectives
- Students will locate and download high-throughput sequence data and genome annotation files from publically available data repositories.
- Students will use Galaxy to create an automated computational workflow that performs sequence quality assessment, trimming, and mapping of RNA-seq data.
- Students will analyze and interpret the outputs of RNA-seq analysis programs.
- Students will identify a group of genes that is differentially expressed between treatment and control samples, and interpret the biological significance of this list of differentially expressed genes.