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Bioinformatics/HPC

This document presents an overview of bioinformatics, focusing on sequence alignment and phylogenetics. It highlights methods such as pairwise and multiple sequence alignment to identify similarity regions among biological sequences. Mentored by experts in the field, students, including Zachary Deema Al Ghanim, Jacqueline Sandrick, and others, delve into computational challenges such as pairwise sequence alignment and visualization of dissimilarity matrices. Additionally, it discusses phylogenetic analysis, tree structures, and relevant software tools like PHYLIP and ClustalW to advance evolutionary studies.

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Bioinformatics/HPC

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  1. Bioinformatics/HPC Students Adda Zachary DeemaAl GhanimHorsley JacquelineSandrickDaniel • Mentors • XiaomingGao • XinjunZhang • ThilinaGunarathne • Supervised byDr.JudyQiu

  2. Sequence Alignment • A way of arranging the biological sequences to identify regions of similarity • Pairwise alignment • Find the best matching alignments of two query sequences • Multiple Sequence Alignment • Alignment of 3 or more biological sequences • Computationally difficult

  3. MDS Pairwise Sequence Alignment Sequences Dissimilarity Matrix Visualization Pairwise Clustering http://salsaweb.ads.iu.edu/salsa/

  4. Phylogenetics • Study ofevolutionaryrelatedness among various groups of organisms • Phylogenetic tree • Tree of life • Finding the correlations between Phylogenetic trees and the clustering approach

  5. Additional Software • PHYLIP (PHYLogenyInference Package) • Software available in IU Quarry • Inputs • Distance Matrix • Gene sequences • Clutalw • Available in IU BigRed • Multiple sequence alignment • Can generate data files for PHYLIP

  6. Thanks!!!

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