Bioinformatics Research Guide-Using Analysis To Write Paper

How to do Bioinformatics Research Genome wide identification in Plants Using bioinformatics analysis to write research

What you'll learn
• Choosing a gene family
• Choosing a plant for gene family research
• Searching for previously published paper
• selecting the office to work with on different platforms
• Selecting the references software
• How to use Mendeley - Reference Management Software
• Sequence Retrieval Analysis
• Homology Searching
• Sequence Alignment
• Sequence identity and Similarity analysis
o What is phylogenetics and Tree construction
• Gene Structures introns and exons map
• Motifs identification Analysis
• Domains Visualization Analysis
• Chromosomal Mapping (Distribution of Genes on chromosome)
• physiochemical characteristics analysis
• Cis-acting regulatory elements prediction analysis
• Protein Interaction network analysis
• Gene Enrichment Analysis
• Gene expression Profiles analysis
• Sra Database Introduction
• NGS sequence Analysis
• Use of trimmomatic tool
• Quality Control of sample
• Genome/Alignment Mapping
• Abundance Estimation Tool on Dataset
• Heatmap Generation of values
Requirements
No prior knowledge of software's for drug discovery is required as in this course no coding has been used
Description
Do you want to enter the field of research in Bioinformatics, but don't know enough about the research of bioinformatics but you want to work in this field?Are you curious about the recent advances in DNA/RNA sequencing technology, and how they can be applied to Modern Day Genome-wide research of plants?Do you want to use Bioinformatics tools to analyze data generated by Next Generation Sequencing?Then this Course is for you:You will be Learning Idea of Paper· Choosing a gene family· Choosing a plantPaper Pattern and Discussion· Searching for a previously published paper· selecting the office to work with on different platforms· Selecting the references software· How to use Mendeley - Reference Management SoftwareGene Identification Section· Sequence Retrieval· Homology Searching· Sequence Analysis· Sequence Alignment· Sequence identity and Similarity analysisPhylogenetic Analysis and Gene Structure· Phylogenetics and Tree Constructiono What are phylogenetics and Tree Construction· Gene Structures introns and exons mapo Introns and exons and visualization· Motifs identification Analysiso Motifs and their visualizationDomain Analysis and Visualization· Domains VisualizationGene duplication Analysis· Chromosomal Mapping (Distribution of Genes on chromosome)Physical characteristics Analysis· physiochemical characteristics analysis· subcellular localization· Domain Predictionidentification of regulatory elements· Cis-acting regulatory elements prediction analysisProtein Interaction Analysis· Protein Interaction network analysis· Gene Enrichment AnalysisGene expression Analysis Profile (NGS Analysis)· Gene expression Profiles analysis· Sra Database Introduction· NGS Sequence Analysis· Use of trimmomatic tool· Quality Control of sample· Genome/Alignment Mapping· Abundance Estimation Tool on Dataset· Heatmap Generation of values

Overview

Section 1: Introduction Section and Choosing idea

Lecture 1 Bioinformatics Research Guide Introduction

Lecture 2 Choosing A Gene Family

Lecture 3 Choosing a Plant for research

Section 2: Paper Pattern and Discussion

Lecture 4 Searching for previously published paper

Lecture 5 Selecting the references software's-How to use Mendeley

Section 3: Gene Identification and homology Searching Section

Lecture 6 Sequence Retrieval

Lecture 7 Homology Searching

Lecture 8 Renaming the Retrieved Sequences

Lecture 9 Sequence Analysis for duplication and Alignment

Lecture 10 Sequence identity and Similarity analysis

Section 4: Phylogenetic Analysis and Gene Structure

Lecture 11 Phylogenetics and Tree Construction

Lecture 12 Introns and exons and visualization

Lecture 13 Motifs and their visualization

Section 5: Protein Domain Analysis

Lecture 14 Domain Searching and Visualization

Section 6: physicochemical properties of proteins

Lecture 15 physicochemical properties of proteins

Section 7: Gene location on chromosome Analysis

Lecture 16 Gene location on chromosome Analysis

Section 8: Gene Enrichment Analysis

Lecture 17 Gene Enrichment Analysis

Section 9: identification of cis acting regulatory elements

Lecture 18 identification of cis acting regulatory elements

Section 10: Protein-Protein interaction Network Analysis

Lecture 19 Protein-Protein interaction Network Analysis

Section 11: Gene Expression Analysis of NGS Data

Lecture 20 What is NGS and why we are using the NGS for data analysis?

Lecture 21 Next-generation sequencing

Lecture 22 Top Companies offering sequencing technology

Lecture 23 Generations of Sequencing

Lecture 24 First Generation of Sequencing

Lecture 25 Second Generation of Sequencing

Lecture 26 Third Generation of Sequencing

Lecture 27 Strengths and Limitations of Next-Generation Sequencing

Lecture 28 NGS Workflow

Lecture 29 Factors to Consider When Selecting a Next Generation Sequencing (NGS) Technology

Lecture 30 SRA Database introduction

Lecture 31 SRA File

Lecture 32 BAM/SAM Files

Lecture 33 CRAM Files

Lecture 34 SFF File

Lecture 35 Galaxy Server Intro to Goals

Lecture 36 Galaxy Server And Objects

Lecture 37 The Galaxy platform for accessible, reproducible and collaborative biomedical an

Lecture 38 Getting Onto Galaxy

Lecture 39 Tools For NGS Data Analysis

Lecture 40 Getting SRA Runs From Databases And platform

Lecture 41 Ncbi Genome To Galaxy

Lecture 42 Getting Sra Runs To Galaxy

Lecture 43 Fastqc Tool To Dataset Generated Dataset

Lecture 44 Trimmomatic Tool On Dataset

Lecture 45 Alignment/genome Mapping

Lecture 46 Abundance Estimation Tool On Dataset

Lecture 47 From Values To Visuals (Heatmap)

Section 12: How to Write Up the Analysis to Research Format!

Lecture 48 Write Up of the Analysis to Research Format

Section 13: Command line Bioinformatics (Optional)

Lecture 49 Making A Subsystem For Linux In Windows OS

Lecture 50 Linux File Handling Commands

Lecture 51 Accessing And Creating Files In Windows Os

Lecture 52 Basic Process Management Commands for Linux OS

Lecture 53 E-utilities on the Linux Command Line

Lecture 54 Installing NCBI through CLi

Lecture 55 EDirect Retrieval Commands

Lecture 56 Entrez Direct Functions

Lecture 57 Mrna And Protein Seq Retrieval

Lecture 58 Batch Retrieval Of Protein Using Taxon Id

Lecture 59 Retrieving CDS From Reference Genome

Lecture 60 Explaining Different Commands

Lecture 61 Installing Alignment tools in linux

Lecture 62 Running command-line BLAST

This course is meant for all the those who have love for life sciences and want to start their research career,This course is meant for all those who are interested in learning computer aided drug designing,This course is meant for those who are interested in bioinformatics,This course is meant for all those who are interested in learning bioinformatics (project based approach)