Bioinformatics Lecture Notes
Study Resources for
ECM3413 - Bioinformatics
Contents
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This module runs in Semester 2. |
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It is taught by Dr Ed Keedwell (Module Coordinator) |
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Module Descriptor: ECM3413 |
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Lecture Times: Tuesday 5pm, 171| Thursday, 171 |
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Workshop Times: Wednesday 11am Blue Room (Weeks 29,33 &40) |
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Assessment: 2 CAs each worth 15% | 1 Examination worth 70% |
Lecture Slides (if you have to print slides, to save your ink choose 'print in black and white' on the print menu)
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PPT|PDF| Lecture 1 - Introduction to Bioinformatics (& Biology) |
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PPT|PDF| Lecture 2 - Genome Sequences: from fragments to sequences |
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PPT|PDF| Lecture 5 - Local Pairwise Sequence Alignment (Smith-Waterman & BLAST) |
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DOC| Workshop 1 - Using BLAST and other Bioinformatics Databases |
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PPT|PDF| Lecture 8 - Sequence Alignment Conclusion & Other Sequence Analyses |
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PPT|PDF| Lecture 9 - Markov Chains and Intro to Hidden Markov Models |
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DOC|Workshop 2 - Using See5 |
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Workshop Data - Part 1 - adult.names | adult.data | adult.test, Part 3 - wdbc.names| wdbc.data |
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PPT|PDF| Lecture 13 - Decision Trees and Gene Expression Classification |
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PPT|PDF| Lecture 14 - Other Methods for Gene Expression Classification |
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PPT|PDF| Lecture 16 - Neural Networks in Gene Expression Analysis |
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For some reason best known to itself, my PDF creator doesn't like the slide with the substitution matrix on. Therefore this has been removed from Lectures 3 and 7 for the PDF copy only - however, more information on these matrices can be found here.
The paper from 2007/8 can be found here.
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PDF| CA1 - Manual Sequence Alignment |
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PDF|Promoter.names|Promoter.data|ML.names|ML.data| CA2 - Data Mining in Bioinformatics |
General Bioinformatics
<="top">Xiong, J., (2006) Essential Bioinformatics, Cambridge University Press
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Lesk, A.M., (2002) Introduction to Bioinformatics, Oxford University Press |
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Higgs, P.G., (2005) Bioinformatics and Molecular Evolution, Blackwell Publishing |
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Machine Learning in Bioinformatics
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Baldi, P., Brunak, S., (2001) Bioinformatics: The Machine Learning Approach, MIT Press |
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Keedwell, E., Narayanan, A., (2005) Intelligent Bioinformatics: The Application of Artificial Intelligence Techniques to Bioinformatics Problems, Wiley |
