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BioinformaticsA 10-week course designed for Whitehead ScientistsMonday at 10am in the Auditorium at 9CC |
Purpose: This course is intended to provide a basic understanding of the algorithms, methods and limitations of Bioinformatics tools. In addition, basic programming tools will be taught and applied in the field of genomics.
Format: A lecture lasting about 1 hour and 15 minutes followed by a demo of relevant tools available at Whitehead lasting for about fifteen minutes . Homework will be given after each lecture.
Text:
Supplemental Texts:
| Syllabus: | Homework | Course Evaluation Form |
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DATE
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TOPIC
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Chapters in Mount |
| January 7 | Sequence Analysis I. Pairwise alignments, database searching including BLAST To print, Slide show (FL) | 1, 2, 3 |
| January 14 | Sequence Analysis II. Database searching (continued), Pattern searching To print, Slide show (FL) | 7 |
| January 21 | No Class - Martin Luther King Holiday | |
| January 28 | Sequence Analysis III. Hidden Markov models, gene finding algorithms To print, Slide show (FL) | 8 |
| February 4 | Computational Methods I. Genomic Resources and Unix To print, Slide show (GB) | Gibas 3,4,5 |
| February 11 | Computational Methods II. Sequence analysis with Perl. To print, Slide show (GB) | Baxevanis 17, Gibas 12 |
| February 18 | No Class - President's Birthday | |
| February 25 | Computational Methods III. Sequence analysis with Perl and BioPerl To print, Slide show (GB) | Baxevanis 17, Gibas 12 |
| March 4 | Proteins I. Multiple sequence alignments, phylogenetic trees To print, Slide show (RL) | 4, 6 |
| March 11 | Proteins II. Profile searches of databases, revealing protein motifs To print, Slide show (RL) | 9 |
| March 18 | Proteins III.Structural Genomics - structural comparisons and predictions To print, Slide show (RL) | |
| March 25 | Microarrays: designing chips, clustering methods To print, Slide show(FL) |