This course on Introduction to bioinformatics aims to teach the importance of informatics in biology, the significance of databases, sequence conservation and analysis, regular expressions, algorithms like Needleman Wunsch, substitution matrices, pairwise alignment, Hidden Markov Models, basics of Phylogenetics, and tools like MEGA Software for multiple sequence alignment and phylogenetic tree building. The teaching method includes lectures covering various topics in bioinformatics. The course is designed for individuals interested in learning about the application of informatics in biological research and analysis.
Overview
Syllabus
Introduction to Bioinformatics - definition and history (Lecture 1).
Introduction to Bioinformatics - Importance of informatics in biology (Lecture 2).
Introduction to Bioinformatics - Human Genome Project (Lecture 3).
Introduction to Bioinformatics - Mouse Genome (Lecture 4).
Introduction to Bioinformatics - Synteny between Human Mouse and Fish Genomes (Lecture 5).
Introduction to Bioinformatics - Why database is important in biology ? Lecture 6.
Introduction to Bioinformatics - Primary and Secondary Databases (Lecture 7).
Introduction to Bioinformatics - Structure and Function Databases (Lecture 8).
Introduction to Bioinformatics - Sequence Conservation and Analysis (lecture 9).
Introduction to Bioinformatics - Regular Expression (Lecture 10).
Introduction to Bioinformatics - Needleman Wunsch Algorithm.
Introduction to Bioinformatics - Needleman Wunsch algorithm - Part 1 (Lecture 11).
Introduction to Bioinformatics - Needleman Wunsch algorithm - Part 2 (Lecture 11).
Introduction to Bioinformatics - Needleman Wunsch algorithm - Part 3 (Lecture 11).
Introduction to Bioinformatics - Needleman Wunsch algorithm Traceback - Part 4 (Lecture 11).
PAM and BLOSUM substitution matrices - Concepts.
Finding Repeated Matches - Pairwise Alignment using BLOSUM Substitution Matrix.
Overlap Matches using pairwise alignment algorithm (Part 1).
Overlap Matches using pairwise alignment algorithm (Part 2).
Hidden Markov Model in Bioinformatics - HMM (Part 1).
Hidden Markov Model in Bioinformatics (Part 2).
Basics of Phylogenetics - Significance of Root in a tree.
Basics of Phylogenetics - Tree Taxonomy.
Basics of Phylogenetics - Difference between distance and character based methods.
Basics of Phylogenetics - How to calculate evolutionary distance.
Basics of Phylogenetics - How UPGMA and Neighbor Joining trees are generated?.
Multiple Sequence Alignment and Phylogenetic Tree Building using MEGA Software - Tutorial.
Basics of Phylogenetics - Understanding the nomenclature and types of phylogenetic tree..
Basics of Phylogenetics - Gene duplication and Speciation.
Phylogenetic Tree Topology - Gene species tree reconciliation.
Local Alignment (Smith Waterman).
SmithWaterman Algorithm (Local Alignment) Part 1 Urdu Version.
SmithWaterman Algorithm (Local Alignment) Part 2 Urdu Version.
Taught by
Farhan Haq
