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Algorithms in Genome Research

392109/10 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 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) Exercises 1
26.10.2018 RNomics (J) Exercises 2
02.11.2018 Analysis of mass spectra (J) Exercises 3
09.11.2018 – –
16.11.2018 Genome assembly I (M) Exercises 4
23.11.2018 Genome assembly II (M) Exercises 5
30.11.2018 Genome assembly III (M) Exercises 6 and 6b
07.12.2018 Genome annotation I (J) Exercises 7
14.12.2018 Genome annotation II (J) Exercises 8
21.12.2018 Haplotype inference, SNV-disease association mining (J) Exercises 9
X-mas break
11.01.2019 Comparative genomics I (M) Exercises 10
18.01.2019 – –
25.01.2019 Comparative genomics II (M) Exercises 11
01.02.2019 Comparative genomics III (M) 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.

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