This bioinformatics study aimed to identify differentially expressed genes (DEGs), and the rapid development and extensive application of gene expression profile data has led to bioinformatics analysis becoming a popular method to explore disease pathogenesis. Bioinformatics analysis provides significant insight into the pathophysiological mechanisms of diseases at the genetic level. At this junction, the R language is used to identify DEGs through Bioconductor packages to show all DEGs by generating the volcano map, Euclidean distances to perform clustering, Venn diagram, and heatmap.

Aim

The aim of DGE analyses is the identification of genes showing significant differences in expression levels between two or more groups.

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Workshop Objectives

To determine if the gene differences in expression between groups are significant given
the amount of variation within groups or between the biological replicates.
To compare two or more groups of samples to identify genes that are
differentially expressed across experimental conditions.

Workshop Structure

Day 1: GEO repository and GEO2R web tool.

General Overview of GEO, Data Organization, Query, and Analysis.
Overview of GEO2R, how to use, Edit options and features, Limitations and caveats, Summary Statistics.

Day 2: R studio and Bioconductor packages.

R studio and Bioconductor packages installation.
DESeq2, GEOquery, and limma Bioconductor package.

Day 3: DGE Analysis with RNA-seq Data and Microarray Data.

Differential expression analysis with DESeq2 for RNA-seq Analysis.
Differential expression analysis with GEOquery and limma for Microarray data analysis.

Participant’s Eligibility

Undergraduate degree in Life Sciences, Biotechnology, Bioinformatics, or related fields.
Researchers and professionals in genomics, molecular biology, and bioinformatics.
Individuals with a keen interest in gene expression analysis and computational biology.

Important Dates

Registration Ends

2024-10-03
Indian Standard Timing 07:00 PM

Workshop Dates

2024-10-03 to 2024-10-05
Indian Standard Timing 08:00 PM

Workshop Outcomes

Proficiency in using GEO2R for differential gene expression analysis.
Ability to interpret and validate gene expression data.
Understanding of key bioinformatics concepts related to gene expression.
Skills in data retrieval, normalization, and visualization.
Preparedness for advanced research and career opportunities in genomics.

Mentor Profile

Name: Dr. Md Afroz Alam
Designation: Professor and Head
Affiliation: Shalom New Life College, Bengaluru, Karnataka

Dr. Md Afroz Alam is a Professor and Head in the Department of Bioinformatics, at Shalom New Life College, Bengaluru, Karnataka. He received his Ph.D. Degree in Bioinformatics from Jaypee University of Information Technology, Solan, Himachal Pradesh in 2009. Then he has worked as Assistant Professor, Head and Program Coordinator in the Department of Bioinformatics at Karunya Institute of Technology and Sciences (Deemed University) for 11 Years. He is having 14 years of teaching and research experience in the field of Bioinformatics. His area of expertise includes: Computer Aided Drug Design, Molecular Modeling and Simulation, QSAR and Pharmacophore modeling, Biostatistics, R programming, Unix and Linux. He is the author of 24 research articles, 2 Book Chapter, recipient of short-term research grants, workshop grants, and National Youth leader award by Ministry of Youth Affairs and Sports under the National Service Scheme, Government of India.

Fee Structure

Student

INR. 1399
USD. 50

Ph.D. Scholar / Researcher

INR. 1699
USD. 55

Academician / Faculty

INR. 2199
USD. 60

Industry Professional

INR. 2699
USD. 85

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Future Career Prospects

Bioinformatics Analyst
Genomics Research Scientist
Clinical Data Analyst
Pharmaceutical Researcher
Computational Biologist
Molecular Biologist

Job Opportunities

Research institutes and universities
Pharmaceutical and biotech companies
Healthcare industry
Bioinformatics service providers
Government and private research laboratories

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