Phylogibbs PowerPoint PPT Presentations
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Motif finding combined with model of evolution ... Anneal and track. Simulated annealing to find maximum likelihood configuration C ...
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Comparative genomics to identify DNA binding motifs Saurabh Sinha Dept. of Computer Science University of Illinois, Urbana-Champaign
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Genome & Protein Sequence Analysis Programs application in establishing Epidemiology and Variability RAJESH KUMAR Ph.D 1st yr Dairy Microbiology Division
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species1. species2. species3. species4. EVOLUTIONARY TREE. Using multiple genomes ... species1. species2. species3. species4. Promoter 1. Promoter 2. Promoter 3 ...
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Special Topics in Genomics. Cis-regulatory Modules and Phylogenetic Footprinting ... A threshold method (Wasserman et al. Nature Genetics, 2000) ...
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protein domain encoding : Pdom(b) Terminology ... domain-encoding evolution (Pdom) : profile HMM match state emission probabilities ...
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( b) By contrast, pairwise comparison of sequences with the Fugu region allows the ... of several conserved sequences that are shared between Fugu and stickleback. ...
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In one run, trains the matrix model and identifies examples of the matrix ... 3. Re-estimate the motif model ... Covariate model incorporates both primary ...
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Identity-difference (default 1, 3), affine gap penalties. Blosum or Pam substitution matrix, affine gap penalties. Scoring system: ...
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