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teaching:2018winter:alggr [2020/02/14 09:07] (current)
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 +====== Algorithms in Genome Research ======
  
 +|[[http://​ekvv.uni-bielefeld.de/​kvv_publ/​publ/​vd?​id=133280873|392109]]/​[[http://​ekvv.uni-bielefeld.de/​kvv_publ/​publ/​vd?​id=133281095|10]] | Braga, Stoye | Winter 2018/19 | 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** |
 +| 12.10.2018 | Introduction,​ logistics (M) | -- |
 +| 19.10.2018 | Physical mapping/​consecutive ones problem (J) | {{:​teaching:​2018winter:​alggr:​exercises01PhysicalMapping.pdf|Exercises 1}} |
 +| 26.10.2018 | RNomics (J) | {{:​teaching:​2018winter:​alggr:​exercises02RNomics.pdf|Exercises 2}} |
 +| 02.11.2018 | Analysis of mass spectra (J) | {{:​teaching:​2018winter:​alggr:​exercises03MassSpec.pdf|Exercises 3}} |
 +| 09.11.2018 | -- | -- |
 +| 16.11.2018 | Genome assembly I (M) | {{:​teaching:​2018winter:​alggr:​exercises04OlcAssembly.pdf|Exercises 4}} |
 +| 23.11.2018 | Genome assembly II (M) | {{:​teaching:​2018winter:​alggr:​exercises05HtsAssembly.pdf|Exercises 5}}|
 +| 30.11.2018 | Genome assembly III (M) | {{:​teaching:​2018winter:​alggr:​exercises06AdvancedAssembly.pdf|Exercises 6}} and {{:​teaching:​2018winter:​alggr:​exercises06bAdvancedAssembly.pdf|6b}}|
 +| 07.12.2018 | Genome annotation I (J) | {{:​teaching:​2018winter:​alggr:​exercises07GeneFinding.pdf|Exercises 7}} |
 +| 14.12.2018 | Genome annotation II (J) | {{:​teaching:​2018winter:​alggr:​exercises08NonCoding.pdf|Exercises 8}} |
 +| 21.12.2018 | Haplotype inference, SNV-disease association mining (J) | {{:​teaching:​2018winter:​alggr:​exercises09HaplotypeInference.pdf|Exercises 9}} |
 +| X-mas break |||
 +| 11.01.2019 | Comparative genomics I (M) | {{:​teaching:​2018winter:​alggr:​exercises10Inversions.pdf|Exercises 10}} |
 +| 18.01.2019 | -- | -- |
 +| 25.01.2019 | Comparative genomics II (M) | {{:​teaching:​2018winter:​alggr:​exercises11Dcj.pdf|Exercises 11}} |
 +| 01.02.2019 | Comparative genomics III (M) | {{:​teaching:​2018winter:​alggr:​exercises12AncestralGenomes.pdf|Exercises 12}} |
 +| 08.02.2019 | Metagenomics (J) | -- |
 +
 +==== Examination dates ====
 +Oral exams will be on 22.02.2019. Please make an appointment with the secretary in U10-151, Heike Samuel. ​
 +
 +A second oral exam can be taken on March 22, 2019. Please contact Heike Samuel if you are interested. ​
 +
 +Back to [[:​teaching|Teaching]] ​