'Conserved elements' presentation slideshows

Comparative Sequence Analysis

Comparative Sequence Analysis. www.dcode.org. Ivan Ovcharenko Lawrence Livermore National Laboratory. BioQUEST Workshop, Beloit, June 2004. Comparative genomics Evolution of noncoding elements Aligning vertebrate genomes Function of the human gene deserts

552 views • 54 slides

Comparative Sequence Analysis

Comparative Sequence Analysis. www.dcode.org. Ivan Ovcharenko Lawrence Livermore National Laboratory. BioQUEST Workshop, Beloit, June 2004. Comparative genomics Evolution of noncoding elements Aligning vertebrate genomes Function of the human gene deserts

766 views • 54 slides

Building synteny maps

Building synteny maps. Recommended local aligners BLASTZ Most accurate, especially for genes Chains local alignments WU-BLAST Good tradeoff of efficiency/sensitivity Best command-line options BLAT Fast, less sensitive Good for comparing very similar sequences

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498 views • 38 slides

Comparative Genomics II : Functional comparisons

Comparative Genomics II : Functional comparisons. Caterino and Hayes, 2007. Overview. I. Comparing genome sequences Concepts and terminology Methods Whole-genome alignments Quantifying evolutionary conservation ( PhastCons , PhyloP , GERP) Identifying conserved elements

505 views • 36 slides

Lecture 15: HW2 Feedback Ultraconservation

Lecture 15: HW2 Feedback Ultraconservation. Ultraconserved Elements in the Human Genome: The Hip & The Hype. GGTGCCAGGGAAAGGGCAGGAGGTGAGTGCTGGGAGGCAGCTGAGGTCAACTTCTTTTGAACTTCCACGTGGTATTTACTCAGAGCAATTGGTGCCAGAG

439 views • 35 slides

Transcription in eukaryotes

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398 views • 28 slides

Milestones due today. Anything to report?

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Milestones due today. Anything to report?

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269 views • 13 slides

Neutral Substitution Rates

Neutral Substitution Rates. Finding Conserved Elements (1). Binomial method 25-bp window in the human genome Binomial distribution of k matches in N bases given the neutral probability of substitution. Finding Conserved Elements (2). A. C. Parsimony Method

242 views • 10 slides