Bioinformatics MasterClass

About Course

Introduction to Bioinformatics
Bioinformatics Databases
Sequence Analysis and Alignment
Scoring Matricies
Multiple Sequence Alignment
Databases Searching
DNA & Protein Analysis
Protein & Gene Families
Gene Prediction
Regulatory Elements
Evolution and Phylogenetic Trees
Concepts of Phylogenetic Trees Contrusction
Phylogenetic Models
Construction of Phylogenetic Trees
Introduction to Structural Bioinformatics
Structural Features of Proteins
Determination of Structures of Proteins
Protein Structure Databases & Formats

Course Content

Introduction to Bioinformatics

What is Bioinformatics

20:23
Applications of Bioinformatics: Genomics

11:35
Applications of Bioinformatics: Theraputics

10:28

Bioinformatics Databases

Sequence Analysis and Alignment

What is Alignmnet

07:54
What are Gap Penalties

07:27
Evolutionary Basics of Alignment

06:04
Pairwise Sequence Alignment

08:04
Global Alignment

07:24
Local Alignment

05:50
Multiple Sequence Alignment

00:00
Sequence Homology vs. Sequence Similiarity

06:28
Orthologs vs. Paralogs

05:07
Common Alignment Algorithms

08:34
Dot Matrix

08:53
Dynamic Programming

00:00

Scoring Matricies

Multiple Sequence Alignment

Databases Searching

DNA & Protein Analysis

Protein & Gene Families

Gene Prediction

Regulatory Elements

Evolution and Phylogenetic Trees

Concepts of Phylogenetic Trees Contrusction

Phylogenetic Models

Construction of Phylogenetic Trees

Phylogenetic Tree Construction Methods

00:00
Distance Based Method for Phylogenetic Tree Construction

00:00
Clustering Based Method for Phylogenetic Tree Construction

00:00
Uneighted Pair Group Method Using Arithmetic Average (UPGMA)

00:00
Neigbor Joining (NJ)

00:00
Character-based Methods

00:00
Maximum Parsimony Method

00:00
Maximum Likelihood Method

00:00
Phylogenetic Tree Evaluation

00:00
Boostrapping in Phylogenetics

00:00
Parametric and Non-parametric Bootstrapping

00:00
Tools for Phylogenetic Tree Construction

00:00

Introduction to Structural Bioinformatics

Structural Features of Proteins

Determination of Structures of Proteins

Protein Structure Databases & Formats

Protein Structure Visualization & Manipulation

Protein Structure Alignment

Protein Structure Databases & Formats

Secondary Structure Prediction

Secondary Structure Prediction of Proteins

00:00
Secondary Structure Prediction of Proteins of Globular Proteins

00:00
Ab Initio Methods for Secondary Structure Prediction

00:00
Homology-Based Methods for Secondary Structure Prediction

00:00
Machine Learning Based Prediction Methods for Secondary Structure Prediction

00:00
Prediction Accuracy of Various Methods

00:00
Secondary Structure Prediction of Proteins of Helical Membrane Proteins

00:00
Secondary Structure Prediction of Beta Barrel Membrane Proteins

00:00
Coiled Coil Prediction

00:00

3D Structure Prediction

Homology Modeling

Protein Structure Validation and Refinement

Homology Modeling

Protein Structure Databases & Formats

Fold Recognition Modeling

Ab Initio Modeling

RNA Structure Prediction

Genomics

Introduction to Genomics

00:00
Next-Generation Sequencing

00:00
Genome Sequencing

00:00
DNA Sequencing

00:00
RNA Sequencing

00:00
Methylation Sequencing

00:00
Genome Mapping

00:00
Genome Sequence Assembly

00:00
Base Calling

00:00
Genome Assemblers

00:00
Genome Annotations

00:00
Gene Ontology

00:00
Annotation of Hypothetical Proteins

00:00
Comparative Genomics

00:00
Whole Genome Alignment of Two or More Species

00:00
With-in Genome Comparative Approaches

00:00
Gene Order Comparison

00:00
Introduction to Functional Genomics

00:00

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About Course

What Will You Learn?

Course Content

Introduction to Bioinformatics

What is Bioinformatics

Applications of Bioinformatics: Genomics

Applications of Bioinformatics: Theraputics

Bioinformatics Databases

Types of Biological Databaes

Primary Database

Secondary Database

Specialized Database

Information Retrieval from Biological Databases

Sequence Analysis and Alignment

What is Alignmnet

What are Gap Penalties

Evolutionary Basics of Alignment

Pairwise Sequence Alignment

Global Alignment

Local Alignment

Multiple Sequence Alignment

Sequence Homology vs. Sequence Similiarity

Orthologs vs. Paralogs

Common Alignment Algorithms

Dot Matrix

Dynamic Programming

Scoring Matricies

Type of Scoring Matrices

PAM Matrices

BLOSUM Matrices

Comparison Between PAM and BLOSUM

Scoring Functions for Multiple Sequence Alignment

Multiple Sequence Alignment

Heuristic Algorithms vs. Exhaustive Algorithms

Progressive Alignment

Iterative Alignment

Block-based Alignment

Databases Searching

What is BLAST

E-Value: Statistical Significance in BLAST

Reptitive Regions on Genome

Low Complexity Regions

Position Specific Scroing Matrices (PSSM)

Sequence Profiles and Fingerprints

Position-Specific Iterated BLAST (PSI-BLAST)

Hidden Markov Models in Bioinformatics

DNA & Protein Analysis

What is a Domain

What is a Motif

Domain vs. Motif Prediction

Motif and Domain Databases

Protein & Gene Families

What are Gene Families

What are Protein Families

Protein Family Databases

Motif Discovery in Unaligned Sequences

What are Sequence Logos

Gene Prediction

What is Gene Prediction

Gene Prediction in Prokaryotes

Gene Prediction in Eukaryotes

What are Open Reading Frames

Gene Prediction Using Open Reading Frames

Gene Prediction Using Markov Models

Type of Gene Prediction Programs

Regulatory Elements

What are Regulatory Elements

What are Promoters

What are Transcription Factors

Promoters and Regulatory Elements in Prokaryotes

Promoters and Regulatory Elements in Eukaryotes

Prediction of Promoters and Regulatory Elements in Prokaryotes

Prediction of Promoters and Regulatory Elements in Eukaryotes

Prediction of Promoters and Regulatory Elements Using Expression Data

Evolution and Phylogenetic Trees

What is Phylogenetics

What is Molecular Phylogenetics

What is the Basic Terminology Used in Molecular Phylogenetics

Concepts of Phylogenetic Trees Contrusction

Gene Phylogeny vs. Species Phylogeny