| Monday 1st December 2014 |
Fundamentals of Biology: genes, genomes, habitats (Ouzounis). The material for this session were covered in http://www.bioinfbook.org. |
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Fundamentals of Computing: data, databases, algorithms (Baichoo) |
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Fundamentals of Bioinformatics: computation, biology, computational biology (Promponas) |
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Practical: Introduction to Linux (Baichoo, Botha). Practical answers. Download Ubuntu/QIIME VirtualBox image here. |
| Tuesday 2nd December 2014 |
Principles of molecular structure, DNA/RNA/proteins, -omics (Promponas). The material for this session were covered in http://www.bioinfbook.org. |
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Principles of sequence alignment: sequence comparison, database searches (Ouzounis). The material for this session were covered in http://www.bioinfbook.org. |
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Principles of multiple sequence alignment: phylogenetics, phylogenomics (Promponas). The material for this session were covered in http://www.bioinfbook.org. |
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Practical: Sequence comparison, tricks of the trade (Ouzounis, Promponas) (sequences.tar.gz) |
| Wednesday 3rd December 2014 |
Metagenomics: genomes, pangenomes, paleogenomes (Lundin, Ouzounis) |
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Metagenomics: New sequencing technologies, assembly, pathway inference (Lundin) |
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Metagenomics: Genomic/Functional Encyclopedia of Bacteria & Archaea |
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Practical: LAST, MEGAN & Web resources for Metagenomics (Lundin, Ouzounis) |
| Thursday 4th December 2014 |
Metagenomics Platforms I: EBI's metagenomics portal, data standards (resources) |
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Metagenomics Platforms II: JGI's IMG/M, Microbial Earth Project (MEP) |
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Practical: Data analysis of 16S rRNA amplicons with QIIME, uparse & phyloseq (Botha). Introduction. |
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Practical: Environmental genomics, metagenomics, metatranscriptomics (Lundin) |
| Friday 5th December 2014 |
Thematic Areas: microbial ecology, bioprospecting, 16S rRNA, Metaomics (Lundin) |
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Thematic Areas: human microbiome, biosecurity, highlights/milestones |
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Thematic Areas: extreme environments, exobiology |
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Practical: Analysis of reduced or simulated datasets, student challenges (Ouzounis, Lundin, Promponas, Botha) |
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Group presentations (references to papers) |
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