Topic
DNA - Information Storage [GENOMICS]
Framing Question
How can bioinformatics tools be employed to analyze genetic information?
Learning Objectives
- Calculate the alignment score between two DNA sequences using a provided scoring matrix.
- Perform a BLASTN search and interpret the results.
- Explain the BLASTN algorithm for nucleotide sequence information.
- Interpret the biological significance of an e-value.
- Annotate a prokaryotic gene (derive a model).
- Annotate a eukaryotic gene (derive a model).
- Create and interpret a multiple sequence alignment (e.g., T-COFFEE, MUSCLE, etc.).
- For a genomic region of interest (e.g., the neighborhood of a particular gene), use a genome browser to view nearby genes, transcription factor binding regions, epigenetic information, etc.
- Describe Hidden Markov Models and how they can be used to assess motifs.
Related Articles
- A Hands-on Introduction to Hidden Markov Models
- An Introduction to Eukaryotic Genome Analysis in Non-model Species for Undergraduates: A tutorial from the Genome Consortium for Active Teaching
- An undergraduate bioinformatics curriculum that teaches eukaryotic gene structure
- Exploration of the Human Genome by Investigation of Personalized SNPs
- Homologous chromosomes? Exploring human sex chromosomes, sex determination and sex reversal using bioinformatics approaches
- Predicting and classifying effects of insertion and deletion mutations on protein coding regions
- Sequence Similarity: An inquiry based and "under the hood" approach for incorporating molecular sequence alignment in introductory undergraduate biology courses
- Using computational molecular modeling software to demonstrate how DNA mutations cause phenotypes
- Using QIIME to Interpret Environmental Microbial Communities in an Upper Level Metagenomics Course
- Using Undergraduate Molecular Biology Labs to Discover Targets of miRNAs in Humans
