Next Generation Sequencing Data Analysis Using Immunome Data

Held in conjunction with Emerging Role of Next Generation Sequencing in Clinical Genomics

02 Nov 2017, at 9:00 AM - 5:00 PM in Mumbai

INTRODUCTION

The completion of the Human Genome Project in 2003 ushered in a new era of rapid, affordable, and accurate genome analysis—called Next Generation Sequencing (NGS). NGS builds upon “first generation sequencing” technologies to yield accurate and cost-effective sequencing results. The biggest advances in genome sequencing have been increasing speed and accuracy, resulting in reduction in manpower and cost. This speed is because of high throughput next generation sequencing.

NGS is characterized by improved accuracy and speed, but also reduced manpower and cost. There has never been a time where it has been as cheap, convenient, or straightforward to sequence a genome. Arguably, the biggest improvement has been the development of parallel analysis, which increased the sequencing speed.

This 1 day training course will focus on the use of efficient technologies used in the next generation sequencing data analysis using Immunome data, the first step in a bioinformatics pipeline for analysing NGS data is usually to align the reads to a reference genome in addition to inferring the genomic start position of the reads, provide additional information such as the mapping quality scores (mapQ), and possibly also indicate which parts of an alignment may be affected.

TOPICS TO BE COVERED

• Basic Terminologies.
• Introduction to file types in NGS.
• What is Sequence alignment.
• Introduction to Genome Analysis
• Database and File Formats in NGS.
• NCBI Genomics Library.
• NCBI resources used in Next Generation Sequencing.
• Introduction to analysis of Next Generation Sequencing Data.
• Install Ubuntu on a windows machine for Sequencing Data Analysis.
• What is the FASTQ format (Download files from NCBIs SRA)

Hands-on exercises will be performed individually using software tools on your own laptops. No prior software experience is required.

• Blasting into SRA using NCBI tools.
• Retrieving & Checking the quality of Sequence using NCBI tools.
• Check your sequenced reads for quality (How to install use FastQC) using NCBI tools.
• Process Sequence Reads-Quality trimming read joining etc. using ea-utils.
• Align Immunome Data with IMGT.
• Align reads using MIXCR.
• tcR package (R package for TCR sequencing).
• TCR Sequencing Analysis using tcR Package.
• Immunome Data Analysis using VDJ Tools.

Note: All participants should carry their own laptop. Certificates will be given after completion of the training course.

OUTCOME

Participants will

• Be able to understand the technology behind the sequencing of human genome.
• Learn how to use immunology data for cancer treatment/research.
• Learn to retrieve and check the quality of sequences.
• Learn aligning the target sequence with reference sequence.
• Learn sequence analysis.
• Learn data analysis of our result based on different parameters.
• Learn the overall concept of Next Generation Sequencing Data Analysis.

WHO SHOULD ATTEND

Scientists and Scholars with basic knowledge of  Life Science and Genomics who would like to receive a comprehensive overview or refresher on the Next Generation Sequencing.

Academics: Bachelor/Masters Students, PhD, Research Scholars, Resident Doctors as well a Faculty from Microbiology, Molecular Biology, Biochemistry, Biotechnology, Immunology, Hematology, Pharmacy, Biomedical Technology, Genetics, Genomics, Proteomics, Bioinformatics, Animal & Plant Science and Life Sciences. 

Professionals: Scientists from Biotechnology, Bioinformatics and Pharmaceutical industry and regulatory agencies.