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NGS Bioinformatics Workshop 1.4 Tutorial - Comparative Sequence Analysis and Visualization March 29th, 2012 IRMACS 10900 Facilitator: Richard Bruskiewich Adjunct Professor, MBB

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NGS Bioinformatics Workshop 1.4 Tutorial - Comparative Sequence Analysis and Visualization. March 29th, 2012 IRMACS 10900 Facilitator: Richard Bruskiewich Adjunct Professor, MBB. Tutorial Work Flow. Gene Family Analysis Select a seed sequence of interest - PowerPoint PPT Presentation

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Page 1: NGS Bioinformatics Workshop 1.4 Tutorial - Comparative Sequence Analysis and Visualization

NGS Bioinformatics Workshop1.4 Tutorial - Comparative Sequence Analysis

and Visualization

March 29th, 2012IRMACS 10900

Facilitator: Richard BruskiewichAdjunct Professor, MBB

Page 2: NGS Bioinformatics Workshop 1.4 Tutorial - Comparative Sequence Analysis and Visualization

Tutorial Work Flow

Gene Family AnalysisSelect a seed sequence of interestCompile a set of homologous sequencesVisualize and analyse the sequences

Page 3: NGS Bioinformatics Workshop 1.4 Tutorial - Comparative Sequence Analysis and Visualization

Select a seed sequence of interest

Query for a protein sequence of interest from Entrez

Compile a set of homologous sequences

Go from Entrez record to using PSIBlast to compile a set of homologous sequences for analysis; download the resulting sequence file

Page 4: NGS Bioinformatics Workshop 1.4 Tutorial - Comparative Sequence Analysis and Visualization

Visualize and analyze the sequences…

http://www.jalview.org/download.html

Obtain JalView (the easy way – Java web start)

http://www.jalview.org/download.html
http://www.jalview.org/download.html
Page 5: NGS Bioinformatics Workshop 1.4 Tutorial - Comparative Sequence Analysis and Visualization

Visualize and analyze the sequences…

Obtain JalView (the easy way – Java web start)Load the sequence file into JalViewRun MSA as a web serviceDisplay a phylogenetic treeRetrieve PDB structuresAnd a lot of other things… (documented)


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