DNASeq

Slots

Our working Time is 9:00 AM to 6:00 PM Indian Time Available slots - 9:00 AM to 11:00 AM / 11:00 AM to 1:00 PM / 2:00 PM to 4:00 PM / 4:00 PM to 6:00 PM
For training slots after 6 PM or before 9 am as well as weekends training kindly mention during registration accordingly it will be scheduled.

Mode

👉 For online training candidate have to install ZOOM (with remote control on candidate system which makes 100% interactive)
👉 Run time video recording candidate can make as well as pdf manual will be provided for future reference.
👉 All our training is 100% practical and 100% industrial and 100% interactive which provides same as offline learning.
👉 For doubt clear there will be extra support will be provided based on the requirement.
👉 Certificate will be provided

📘 Introduction to Bioinformatics
- Overview of bioinformatics and its applications
- Key concepts in computational biology
- Role of bioinformatics in genomics, transcriptomics, and proteomics

📘 Understanding NGS and Genomics Bioinformatics
- Basics of Next-Generation Sequencing (NGS)
- Types of NGS data (RNA-seq, WGS, WES)
- Overview of NGS data formats: FASTQ, BAM, VCF
- Introduction to pipelines and tools for NGS data analysis

📘 Databases & Data Retrieval (NCBI and UCSC)
- Learning how to retrieve biologically correct data
- Performing complete batch retrieval (e.g., whole exome)
- NCBI: understanding gene-level data retrieval
- UCSC: handling large-scale data retrieval
- UCSC Genome Browser and Table Browser usage
- Batch Coordinate Retrieval and Genomic Data downloads
- GFF/GTF gene annotation formats and how to retrieve them
- Using BLAT for sequence-based search and alignment

📘 Gene Prediction and Functional Annotation
- Gene prediction approaches and tools
- Functional annotation using Gene Ontology (GO)
- Pathway analysis using KEGG, Reactome
- Interpreting gene sets and biological relevance

📘 Standalone/Offline BLAST for Large-Scale Genomic Data
- Installing and setting up standalone BLAST
- Running local BLAST for batch sequence alignment
- Applications in genome-wide homology searches
- Custom BLAST databases and performance optimization

📘 PCR Primer Designing and Specificity Check
- Designing accurate primers for PCR amplification
- Tools: Primer3, NCBI Primer-BLAST
- Checking primer specificity using genome-wide BLAST
- Avoiding non-target amplification through design best practices

📘 Understanding Python Programming
- Introduction to Python for bioinformatics
- Scripting basics: variables, loops, functions
- Libraries like Biopython, pandas for biological data handling
- Automating genomic workflows with Python scripts

📘 Introduction to DNA Sequencing and Variant Calling
- Overview of Next-Generation Sequencing (NGS) technologies
- Types of genetic variants: SNPs, indels, structural variants
- Applications in research and clinical diagnostics

📘 Linux Basics & Environment Setup
- Linux Command Line Basics
- Installing WGS Metagenome Tools
- Using Conda and Shell Scripting

📘 Data Retrieval & Formats
- Fetching data from NCBI SRA using SRA Toolkit
- Understanding different file formats

📘 Data Preprocessing and Quality Control
- Understanding raw sequencing data (FASTQ format)
- Quality assessment
- Trimming adapters and low-quality bases

📘 Read Alignment to Reference Genome
- Reference genome selection and indexing
- Aligning reads
- Conversion from SAM to BAM, sorting, and indexing with SAMtools

📘 Post-Alignment Processing
- Marking duplicates
- Base Quality Score Recalibration
- Assessing alignment quality and coverage

📘 Variant Calling
- Germline variant calling
- Somatic variant calling

📘 Variant Filtering and Quality Control
- Hard filtering strategies based on depth, quality, strand bias
- Variant Quality Score Recalibration (VQSR)
- Removing false positives and artifacts

📘 Variant Annotation and Interpretation
- Functional annotation
- Population frequency databases (gnomAD, 1000 Genomes)
- Predicting variant impact and clinical relevance

📘 Applying ACMG Guidelines for Clinical Interpretation
- Overview of ACMG/AMP classification criteria
- Evidence weighting and variant classification
- Reporting standards for clinical variants

📘 Visualization and Reporting
- Visualizing alignments and variants with IGV
- Generating and formatting VCF files
- Preparing reports for research or clinical use

Preparation

- Metatranscriptomics : https://en.wikipedia.org/wiki/DNase-Seq
- NCBI : https://pmc.ncbi.nlm.nih.gov/articles/PMC4863231/

Instructor

Industry Experienced

Target Audiance

This course is designed for graduate students, postdoctoral researchers, and professionals working in the fields of conservation biology, evolutionary genomics, and population genetics or any life sciences who are interested in applying genomic tools to real-world conservation challenges.

Contact

Please write us at info@arraygen.com or call or whatsapp us on mobile +91-9673625446 if you need any clarification or for any custom training based on candidate reference paper or candidate own content/tools.