Differential Gene Expression Analysis of RNA Sequencing Data Using Machine Learning/AI in R

Unlocking Complex Gene Expressions with AI and Machine Learning in R

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MODE
Virtual (Google Meet)

TYPE
Mentor Based

LEVEL
Moderate

DURATION
3 Days (1.5 hours per day)

Start Date
10 – Dec – 24

Time
08:00 PM IST

About

Machine learning/AI is an influential tool in the analysis of RNA-Seq gene expression data. ML methods are broadly used to identify new biomarkers for disease diagnosis and treatment monitoring and to learn unseen patterns in gene expression that boost our understanding of the fundamental biological pathways. The success of an ML/AI model depends heavily on the input data. Identifying an appropriate dataset can be a challenge, and the data must be selected carefully, as a predictive model trained on the unreliable or inappropriate data will produce unreliable predictions. The rations of machine learning analyses in public functional genomics repositories are encountered by rare curated ML/AI-ready datasets. Therefore, it is important to study a data set sensibly to confirm its reputation for a machine learning job.
Bioconductor packages are used to show all differential gene expressions by generating the volcano map, Euclidean distances, and heatmap.

Aim

The aim of providing access to powerful statistical and graphical methods for the analysis of genomic data.

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Workshop Objectives

To determine the differential gene expressions between groups are significant.
To compare two or more groups of samples in order to identify the differentially expressed genes that are 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 and Bioconductor packages installation.
DESeq2 Bioconductor package.

Day 3: Gene expression analysis with RNA-seq Data.

Differential expression analysis with DESeq2 for RNA-seq Analysis.

Participant’s Eligibility

Undergraduate degree in Bioinformatics, Biology, Computational Biology, or related fields.
Professionals in biotechnology, pharmaceuticals, or academic research.
Individuals with a foundational understanding of molecular biology and an interest in computational data analysis.

Important Dates

Registration Ends

2024-12-10
Indian Standard Timing 07:00 PM

Workshop Dates

2024-12-10 to 2024-12-12
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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