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Medical Natural Sciences Year 2: Introduction to Bioinformatics

Medical Natural Sciences Year 2: Introduction to Bioinformatics. Lecture 8: Multiple sequence alignment (II) Centre for Integrative Bioinformatics VU. Progressive multiple sequence alignment. Accuracy is very important Problem: Errors are propagated through the progressive steps

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Multiple sequence alignment Why?

Multiple sequence alignment Why?. It is the most important means to assess relatedness of a set of sequences Gain information about the structure/function of a query sequence (conservation patterns) Construct a phylogenetic tree Putting together a set of sequenced fragments (Fragment assembly)

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Pair-wise alignment quality versus sequence identity (Vogt et al., JMB 249, 816-831,1995)

Pair-wise alignment quality versus sequence identity (Vogt et al., JMB 249, 816-831,1995). Strategies for progressive alignment optimisation. Heuristics Profile pre-processing Secondary structure- guided alignment Globalised local alignment Matrix extension

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454 views • 30 slides

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Medical Natural Sciences Year 2: Introduction to Bioinformatics

Multiple sequence alignment Why?

Pair-wise alignment quality versus sequence identity (Vogt et al., JMB 249, 816-831,1995)