How deep knowledge or useful information can we retrieve from diverse and enormous data obtain from multi-omics analysis? This course forcuses on Bioinformatics. Topics includes molecular evolution, sequence analysis, comparative genomics, multi-omics analysis, algorithms for bioinformatics, molecular or metabolic network analysis, and data mining methods. By combining lectures and exercises, the course enables students to understand and acquire the fundamentals of bioinformatics widely applicable to biological research. Bioinformatic approaches taught in this course are not only useful in analyzing multi-omics data, but are applicable to various other types of biological problem.
By the end of this course, students will be able to:
1) Understand principles and methods of sequence analysis based on molecular evolution
2) Understand the knowledge obtained by comparing the gene sequences and genomic sequences
3) Understand computer algorithms in bioinformatic analyses
4) Understand the fundamentals and applications of multi- omics analysis
Bioinformatics
✔ Specialist skills | Intercultural skills | Communication skills | Critical thinking skills | Practical and/or problem-solving skills |
Required learning should be completed outside of the classroom for preparation and review purposes.
Course schedule | Required learning | |
---|---|---|
Class 1 | Introduction to computational biology | Understand the outline of bioinformatics |
Class 2 | Introduction of molecular evolution | Understand fundamentals of molecular evolution |
Class 3 | Fundamentals of molecular evolution for amino acids | Understand fundamentals of amino acid sequence analysis method |
Class 4 | Fundamentals of molecular evolution for nucleic acids | Understand fundamentals of nucleic acid sequence analysis method |
Class 5 | Fundamentals of sequence analysis and genome analysis | Understand fundamentals of genome analysis |
Class 6 | Comparative genomics | Understand fundamentals of comparative genomics |
Class 7 | Multi-omics analysis | Understand fundamentalsl of multi-omics analysis |
Class 8 | Overview of classical biomolecular simulation | Understanding of overview of classical biomolecular simulation |
Class 9 | Model building of biomolecules (molecular mechanics, etc) | Understanding of molecular mechanics |
Class 10 | Classical biomolecular simulation | Understanding of molecular dynamics, normal mode analysis, and Monte Carlo |
Class 11 | Advanced simulation methods | Understanding of free energy calculation and efficient sampling methods |
Class 12 | Computer modeling of biomolecules 1 | Understanding of the the application of all-atom MD methods to protein chemistry |
Class 13 | Computer modeling of biomolecules 2 | Understanding of the the application of QM/MM methods to protein chemistry |
Class 14 | Computer modeling of biomolecules 3 | Understanding of the the application of coarse-grained MD methods to protein chemistry |
None
Neil C. Jones and Pavel A. Pevzner. An Introduction to Bioinformatics Algorithms. ISBN-13: 978-0262101066
Masatoshi Nei and Sudhir Kumar. Molecular Evolution and Phylogenetics. ISBN-13: 978-0195135855
By written reports for each class.
None