392112 Genome-scale algorithmics (V) (WiSe 2012/2013)

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Genome-scale algorithmics, 2 ECTS, 4*3 hours lectures, 2*2 hours exercises
Lecture 1: Alignments revisited, sparse dynamic programming, invariant technique and its
application to affine gap score computation, sparse multiple alignment using Carrillo & Lipman
technique
Lecture 2: High-throughput sequencing (HTS) overview, HTS analysis fundamentals: Burrows-
Wheeler transform, FM-index, search space pruning, variant calling
Lecture 3: RNA-seq, splice variants, co-linear chaining, transcript expression level prediction by
lasso-regression
Lecture 4: Whole genome alignment, MEMs and MUMs and related algorithms on FM-index
variants, applications to substring kernels for characterizing metagenomics data

Bitte beachten:
Die 5 Leistungspunkte dieser Veranstaltungen ergeben sich zusammen mit der Vorlesung "Algorithms in Genome Research" (392109) von Alexander Sczyrba. Wer nur die Vorlesung "Genome-scale algorithms" belegt, bekommt nur 2 Leistungspunkte.

Requirements for participation, required level

Die Veranstaltung wird in englischer Sprache gehalten.

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Module Course Requirements  
39-M-Inf-AG Algorithmen in der Genomforschung Algorithmen in der Genomforschung Student information

The binding module descriptions contain further information, including specifications on the "types of assignments" students need to complete. In cases where a module description mentions more than one kind of assignment, the respective member of the teaching staff will decide which task(s) they assign the students.

Degree programme/academic programme Validity Variant Subdivision Status Semester LP  
Bioinformatik und Genomforschung / Bachelor (Enrollment until SoSe 2011) Individueller Ergänzungsber Wahl 5. 5 unbenotet LP für V+Ü  
Bioinformatik und Genomforschung / Master (Enrollment until SoSe 2012) Algorithmen in der Genom Wahlpflicht 1. 5 benotet LP für V+Ü  
Bioinformatik und Genomforschung / Promotion Indiv. Erg. Wahl  
Molekulare Biotechnologie / Diplom (Enrollment until SoSe 2004)   HS
Molekulare Biotechnologie / Master (Enrollment until SoSe 2012) Algorithmen in der Genomfors Wahlpflicht 1. 5 benotet LP für V+Ü  
Naturwissenschaftliche Informatik / Diplom (Enrollment until SoSe 2004) Biologie   HS
Naturwissenschaftliche Informatik / Master (Enrollment until SoSe 2012) Algorithmen in der Genomf Wahlpflicht 1. 5 benotet LP für V+Ü  
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Last update basic details/teaching staff:
Friday, December 11, 2015 
Last update times:
Thursday, September 26, 2013 
Last update rooms:
Monday, October 1, 2012 
Type(s) / SWS (hours per week per semester)
lecture (V) / 3
Department
Faculty of Technology
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33918485