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