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teaching:2019winter:alggr [2019/10/10 11:51]
teaching:2019winter:alggr [2020/02/14 09:07] (current)
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 +====== Algorithms in Genome Research ======
  
 +|[[https://​ekvv.uni-bielefeld.de/​kvv_publ/​publ/​vd?​id=176725328|392109]]/​[[https://​ekvv.uni-bielefeld.de/​kvv_publ/​publ/​vd?​id=176725812|10]] | Braga, Dörr | Winter 2019/20 | Fr 9:00-10:30 and 10:30-12:00 in U10-146 |
 +
 +==== Contents ====
 +This class covers the basic algorithmic techniques used in the computational analysis of genome and post-genome data. This includes algorithms for genomic mapping and assembly, methods for functional genome annotation (gene finding and gene function prediction),​ algorithms for the analysis of DNA microarrays and mass spectra, methods and models for protein structure prediction, and algorithms for comparative genomics. ​
 +
 +==== Literature ====
 +The page [[teaching:​alggrliterature|AlgGRLiterature]] contains many links to the original literature. ​
 +
 +==== Time table ====
 +
 +| **Date** | **Topic** | **Exercises/​Addenda** |
 +| 11.10.2019 | Introduction,​ logistics (M)  | -- |
 +| 18.10.2019 | Genome Assembly 1 (M) | {{:​teaching:​2019winter:​alggr:​exercises01OlcAssembly.pdf|Exercises 1}} |
 +| 25.10.2019 | Genome Assembly 2 (M) | {{:​teaching:​2019winter:​alggr:​exercises02HtsAssembly.pdf|Exercises 2}} |
 +| 01.11.2019 | (Allerheiligen) ||
 +| 08.11.2019 | Genome Assembly 3 (M) | {{:​teaching:​2019winter:​alggr:​exercises03AdvancedAssembly.pdf|Exercises 3}} |
 +| 15.11.2019 | Physical Mapping (D)  | {{:​teaching:​2019winter:​alggr:​exercises04physicalmapping.pdf|Exercises 4}}|
 +| 22.11.2019 | Hi-C Data Analysis 1 (D) | -- |
 +| 29.11.2019 | Hi-C Data Analysis 2 (D) | {{:​teaching:​2019winter:​alggr:​exercises05hicdataanalysis.pdf|Exercises 5}} |
 +| 06.12.2019 | Conservation Ecology (D) | {{:​teaching:​2019winter:​alggr:​TSP_LPs.tar.bz2|Linear Programs}} |
 +| 09.12.2019 | Perfect Phylogeny and Cancer (D) | {{:​teaching:​2019winter:​alggr:​exercises06perfectphylogeny.pdf|Exercises 6}}, {{:​teaching:​2019winter:​alggr:​ILPs.tar.bz2|Integer Linear Programs}} ​ |
 +| 20.12.2019 | Metagenomics (R) | {{:​teaching:​2019winter:​alggr:​exercises07metagenomics.pdf|Exercises 7}} |
 +| (X-mas break) |||
 +| 10.01.2020 | Haplotype Inference (D) | {{:​teaching:​2019winter:​alggr:​exercieses08haplotypeinference.pdf|Exercises 8}} |
 +| 17.01.2020 | (M) | |
 +| 24.01.2020 | (M) | |
 +| 31.01.2020 | (M) | |
 +
 +==== Examination dates ====
 +
 +February 27, 2020
 +
 +Back to [[:​teaching|Teaching]] ​