Next Generation Sequencing Technologies : Data Analysis And Applications

By Prof. Riddhiman Dhar | IIT Kharagpur

Learners enrolled: 3619 | Exam registration: 545

ABOUT THE COURSE:

Next Generation Sequencing (NGS) technologies have revolutionized Bioscience, Biotechnology and Medicine through generating unprecedented amount of data in the fields of genomics, transcriptomics and epigenomics. However, the data generated by NGS technologies has to be analyzed systematically to gain any meaningful information and to draw useful inferences. This course will describe the step-by-step process to analyze the data generated by NGS platforms along with relevant hands-on experience. The course will cover the analysis single nucleotide polymorphisms (SNPs) and indels. Further, the course will describe the complexities involved in the analysis of transcriptomic data in details. Finally, the course will end with an overview of other applications of the NGS technologies e.g., in genome assembly and epigenomics.

INTENDED AUDIENCE: Students, Faculty and Industry professionals

PREREQUISITES: Basic knowledge of programming and statistics

INDUSTRY SUPPORT: Genomics companies

Summary

Course Status :	Completed
Course Type :	Core
Language for course content :	English
Duration :	12 weeks
Category :	Biological Sciences & Bioengineering Computational Biology
Credit Points :	3
Level :	Undergraduate/Postgraduate
Start Date :	24 Jul 2023
End Date :	13 Oct 2023
Enrollment Ends :	07 Aug 2023
Exam Registration Ends :	18 Aug 2023
Exam Date :	28 Oct 2023 IST

Note: This exam date is subject to change based on seat availability. You can check final exam date on your hall ticket.

Page Visits

Course layout

Week 1: Next Generation Sequencing (NGS) Technologies

Week 2: NGS data formats and data quality check (QC)

Week 3: Hands-on tutorial 1 - NGS data and quality check

Week 4: Read Mapping Algorithms

Week 5: Read Mapping Tool Hands-on and SAM files

Week 6: Variant detection and CNV analysis

Week 7: RNA sequencing experiment and data processing

Week 8: Differential expression analysis and multiple hypothesis testing corrections

Week 9: Gene Ontology (GO) and pathway enrichment analysis

Week 10: Hands-on tutorial 2 – RNA-seq data processing and differential expression analysis

Week 11: Genome assembly algorithms

Week 12: Application of NGS in epigenomic studies

Books and references

1. High-Throughput Next Generation Sequencing, Methods and Applications. (Springer). Editors: Kwon, Young Min, Ricke, Steven C. (Eds.)
2. Next Generation Sequencing, Methods and Protocols, 2018, Volume 1712, Steven R. Head, Phillip Ordoukhanian, Daniel R. Salomon (Eds), Humana Press. ISBN : 978-1-4939-7512-9
3. Next Generation Sequencing and Data Analysis 2021, Melanie Kappelmann-Fenzl, Springer.ISBN : 978-3-030-62489-7

Instructor bio

Prof. Riddhiman Dhar

IIT Kharagpur

Prof.Riddhiman Dhar is an Assistant Professor in the Department of Biotechnology at IIT Kharagpur. His research work is focused on analysis of genomic and transcriptomic data and building predictive models using machine learning framework to eventually generate novel insights into biological systems. He has been teaching the course on Next Generation Sequencing technologies and data analysis to the undergraduate, postgraduate and PhD students since 2018. He holds a PhD degree in Evolutionary Systems Biology from University of Zurich and has B. Tech and M. Tech degrees in Biotechnology and Biochemical Engineering from IIT Kharagpur.

Course certificate

The course is free to enroll and learn from. But if you want a certificate, you have to register and write the proctored exam conducted by us in person at any of the designated exam centres.

The exam is optional for a fee of Rs 1000/- (Rupees one thousand only).

Date and Time of Exams: 28 October 2023 Morning session 9am to 12 noon; Afternoon Session 2pm to 5pm.

Registration url: Announcements will be made when the registration form is open for registrations.

The online registration form has to be filled and the certification exam fee needs to be paid. More details will be made available when the exam registration form is published. If there are any changes, it will be mentioned then.

Please check the form for more details on the cities where the exams will be held, the conditions you agree to when you fill the form etc.

CRITERIA TO GET A CERTIFICATE

Average assignment score = 25% of average of best 8 assignments out of the total 12 assignments given in the course.
Exam score = 75% of the proctored certification exam score out of 100

Final score = Average assignment score + Exam score

YOU WILL BE ELIGIBLE FOR A CERTIFICATE ONLY IF AVERAGE ASSIGNMENT SCORE >=10/25 AND EXAM SCORE >= 30/75. If one of the 2 criteria is not met, you will not get the certificate even if the Final score >= 40/100.

Certificate will have your name, photograph and the score in the final exam with the breakup.It will have the logos of NPTEL and IIT Kharagpur .It will be e-verifiable at nptel.ac.in/noc.

Only the e-certificate will be made available. Hard copies will not be dispatched.

Once again, thanks for your interest in our online courses and certification. Happy learning.

- NPTEL team