NGS Training Program

NGS Data Analysis Training Program

Kindly review the fees outlined for the individual protocols listed in this module.


• Fee: Rs 65000

  Day 1 - 5: Introduction to NGS and Sequencing Platforms

  • Overview of NGS Technologies
  • Sequencing Platforms: Illumina, Ion Torrent, PacBio, Oxford Nanopore
  • Applications of NGS
  • Data Formats: FASTQ, SAM, BAM, VCF
  • Hands-on Practice: Downloading sample datasets from NCBI SRA

• Day 6 - 10: Quality Control of NGS Data

  • Quality Assessment Tools: FastQC
  • Trimming and Filtering: Trimmomatic, Cutadapt
  • Adapter Removal and Base Quality Filtering
  • Hands-on Practice: Running FastQC and Trimmomatic

• Day 11 - 15: Data Preprocessing and Alignment

  • Genome Indexing: Bowtie2, BWA
  • Sequence Alignment: Mapping reads to reference genome
  • Sorting and Indexing BAM files: SAMtools
  • Hands-on Practice: Aligning reads with BWA and analyzing BAM files

• Day 16 - 20: Post-Alignment Processing

  • Duplicate Removal: Picard Tools
  • Realignment and Base Recalibration: GATK Tools
  • Sorting and Indexing BAM files
  • Hands-on Practice: Processing aligned data using SAMtools and Picard

• Day 21 - 25: Variant Calling and Annotation

  • SNP and INDEL Calling: FreeBayes, VarScan
  • Variant Annotation: ANNOVAR, SnpEff
  • Filtration and Prioritization of Variants
  • Hands-on Practice: Calling variants using FreeBayes and annotating using ANNOVAR

• Day 26 - 30: RNA-Seq Data Analysis

  • Transcriptome Assembly: HISAT2, StringTie
  • Differential Gene Expression Analysis: DESeq2, edgeR
  • Functional Annotation and Pathway Analysis
  • Hands-on Practice: RNA-Seq alignment and expression analysis

• Day 31 - 35: Metagenomics Analysis

  • Taxonomic Classification: Kraken2, MetaPhlAn
  • Functional Annotation: HUMAnN
  • Microbial Community Profiling
  • Hands-on Practice: Analyzing metagenomics data using Kraken2

• Day 36 - 40: De Novo Assembly and Genome Annotation

  • Genome Assembly: SPAdes, Velvet
  • Scaffolding and Contig Merging
  • Annotation Tools: Prokka, MAKER
  • Hands-on Practice: Assembling genomes and performing annotation

• Day 41 - 45: Visualization and Data Interpretation

  • Genome Browsers: IGV, UCSC Genome Browser
  • Visualization Tools: Circos, Integrative Genomics Viewer
  • Hands-on Practice: Visualizing data and interpreting results

• Day 46 - 50: Reporting and Final Project

  • Summarizing Results and Findings
  • Project Presentation and Feedback
  • Generating Reports using MultiQC
  • Q&A and Certification
  
  

  Contact for

Individual Protocols Under NGS Training Program

Please contact on +91-8977624748 for more details