Sep 21, 2019  
2017-2018 Undergraduate Academic Catalog 
    
2017-2018 Undergraduate Academic Catalog [ARCHIVED CATALOG]

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EB 3430 - Bioinformatics II

2 lecture hours 2 lab hours 3 credits
Course Description
This course introduces students to the practical application of currently available bioinformatics tools to various real-world problems including comparative analysis of homologous biological sequences to address evolutionary/phylogenetic relationships between a wide variety of different organisms, 3D visualization of large complex biological macromolecules, cross-analysis of biological sequences and their corresponding 3D structures to identify and characterize various redundant sequence and structural motifs essential in defining both the higher-order 3D architecture and the cellular function of many biologically active macromolecules, and molecular modeling to predict the 3D structure of biologically important macromolecules whose higher-order structure is not available yet. (prereq: EB 3420 )
Course Learning Outcomes
Upon successful completion of this course, the student will be able to:
  • Search, collect, and align homologous biological sequences of interest
  • Create a quality alignment of biological sequences
  • Build and interpret a phylogenetic tree based on well-aligned biological sequences
  • Derive sequence-structure relationships by comparing biological sequences and their structure data
  • Compare the 3D structures of homologous biomolecules
  • Visualize and appreciate the detailed 3D structures of very complex biomolecules using various molecular visualization tools
  • Identify and characterize various sequence and structural motifs from a detailed cross-analysis of biological sequences and their corresponding higher-order 3D structures
  • Perform homology modeling to predict the 3D structure of a biological sequence whose structure is not yet available

Prerequisites by Topic
  • None 

Course Topics
  • RNA sequence analysis
  • The Tree of Life: phylogenetic relationships between organisms
  • Sequence-Structure relationships of biological macromolecules
  • 3D structure of protein and RNA
  • 3D visualization of biomolecular structures and their analysis
  • Sequence and structural motifs in biological macromolecules
  • Homology modeling of novel biological macromolecules

Laboratory Topics
  • Comparative analysis of RNA sequences (2 labs)
  • The Tree of Life and phylogenetic analysis (2 labs)
  • Sequence-Structure relationships of biomolecules (1 lab)
  • Comparative analysis of 3D protein and RNA structures (1 lab)
  • 3D visualization and analysis of biomolecular structure (1 lab)
  • Sequence and structural motifs in biomolecules (1 lab)
  • Homology molecular modeling (1 lab)

Coordinator
Jung Lee



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