'Pairwise alignment' diaporamas de présentation

Sequence Alignment and Phylogenetic Analysis

Sequence Alignment and Phylogenetic Analysis. Evolution. Sequence Alignment. AGGCTATCACCTGACCTCCAGGCCGATGCCC TAGCTATCACGACCGCGGTCGATTTGCCCGAC. - AG G CTATCAC CT GACC T C CA GG C CGA -- TGCCC --- T AG - CTATCAC -- GACC G C -- GG T CGA TT TGCCC GAC. Definition

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May 2 , 2013 Judy Qiu xqiu@indiana.edu http :// S A L S A hpc.indiana.edu School of Informatics and Computing Indian

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Chaps. 7 & 8: Sequence Alignment

Chaps. 7 & 8: Sequence Alignment. Pairwise Alignment Given two sequences, how similar are they ? Dynamic Programming Multi-sequence Alignment. Sequence Alignment. Example Mitochondrial cytochrome b From NCBI protein web page, search for cytb and Loxodonta africana (African elephant)

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DNA1: Last week's take-home lessons

DNA1: Last week's take-home lessons. Types of mutants Mutation, drift, selection Binomial for each Association studies c 2 statistic Linked & causative alleles Alleles, Haplotypes, genotypes Computing the first genome, the second ... New technologies

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DNA1: (Last week)

DNA1: (Last week). Types of mutants Mutation, drift, selection Binomial for each Association studies c 2 statistic Linked & causative alleles Alleles, Haplotypes, genotypes Computing the first genome, the second ... New technologies Random and systematic errors.

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Rapid Global Alignments

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Pairwise sequence comparison

Pairwise sequence comparison. Prof. William Stafford Noble Department of Genome Sciences Department of Computer Science and Engineering University of Washington thabangh@gmail.com. One-minute responses. Need more clarification on the alignment of sequences.

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Multiple Sequence Alignment

Multiple Sequence Alignment. Multiple Alignment versus Pairwise Alignment. Up until now we have only tried to align two sequences. What about more than two? And what for? A faint similarity between two sequences becomes significant if present in many

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BNFO 602 Lecture 2

BNFO 602 Lecture 2. Usman Roshan. -3 mil yrs. AAGACTT. AAGACTT. AAGACTT. AAGACTT. AAGACTT. -2 mil yrs. AAGGCTT. AAG G CTT. AAGGCTT. AAGGCTT. T_GACTT. T_GACTT. T _ GACTT. T_GACTT. -1 mil yrs. _GGGCTT. _ G GGCTT. _GGGCTT. TAGACCTT. T AG A C CTT. TAGACCTT. A _ C ACTT. A_CACTT.

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Some algorithmic background

Some algorithmic background. Biology 162 Computational Genetics Todd Vision Fall 2004 26 Aug 2004. Some algorithmic background. Algorithms Analysis of time and memory requirements NP completeness Graphs Travelling salesman problem DNA computers Strings and Sequences Recursion.

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Introduction to Sequence Analysis

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Multiple Sequence Alignment

Multiple Sequence Alignment. BMI/CS 576 www.biostat.wisc.edu/bmi576.html Colin Dewey cdewey@biostat.wisc.edu Fall 2010. Multiple Sequence Alignment: Task Definition. Given a set of more than 2 sequences a method for scoring an alignment Do:

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Multiple Sequence Alignment (II)

Multiple Sequence Alignment (II). (Lecture for CS498-CXZ Algorithms in Bioinformatics) Oct. 6, 2005 ChengXiang Zhai Department of Computer Science University of Illinois, Urbana-Champaign.

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Bioinformatics and Molecular evolution Paul G. Higgs and Teresa K. Attwood

Bioinformatics and Molecular evolution Paul G. Higgs and Teresa K. Attwood Chapter 6. Sequence alignment algorithms. Jeong Da Geum. Chapter 6. Sequence alignment algorithms. Chapter preview ? Dynamic programming algorithms gap cost functions global and local alignments

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Multiple Sequence Alignment (I)

Multiple Sequence Alignment (I). (Lecture for CS498-CXZ Algorithms in Bioinformatics) Oct. 4, 2005 ChengXiang Zhai Department of Computer Science University of Illinois, Urbana-Champaign. Outline. Motivation Scoring of multiple sequence alignments Algorithms Dynamic programming

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Sequence Analysis

Sequence Analysis. MUPGRET June workshops. Today. What can you do with the sequence? What can you do with the ESTs? The case of SNP and Indel. What can you do with the sequence?. Gene prediction Motif identification Promoter identification Survey gene expression across tissues

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Multiple Alignments

Multiple Alignments. Rhys Price Jones and Anne Haake Rochester Institute of Technology rpjavp@rit.edu , arh@it.rit.edu. Multiple Alignments. The computational aspects Textbook Chapter 3, pp 69-80

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Life Science 20001396 IIS Lab ???

Peptide Sequence Pairwise Alignment using Hidden Markov Model. - Requirement Analysis. Life Science 20001396 IIS Lab ???. Pairwise Alignment. Seq X : HEAGAWGHEEE. How much similar are two sequences?. Seq Y : PAWHEAE. Identity Scoring. Chemical Similarity Scoring. Observed Substitution.

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