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BioDiscovery Group Training 2017

Jun 1, 2017 - Dec 31, 2017
10:00 AM - 11:00 PM
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BioDiscovery Group Lifesciences is offering program of 15 & 20 days of Training in several topics. The mode is ONLINE and you can choose any 2 hour from 11 AM - 9 PM India time.

The category/area of Summer Training are:

  • Bioinformatics- Basics to Advanced
  • Next Generation Sequencing
  • Genome editing by CRISPR/Cas9
  • MD Simulations by GROMACS on Linux
  • Immunoinformaics & Vaccine Design
  • Molecular Docking

The subtopics under each category are as follows:

BIOINFORMATICS

  • Introduction to Bioinformatics
  • Bioinformatics Databases
  • File Formats
  • Bibliographic Search
  • Sequence Retrieval from Protein and Nucleic Acid Databases
  • Sequence Search by Using FASTA and BLAST
  • Pairwise Alignment of Sequences.
  • Multiple Sequence Alignment and Pattern Search
  • Identification of Functional sites in Genes and Genomes
  • Secondary Structure prediction of Protein and Nucleic Acid
  • Restriction mapping: Analysis 
  • Primer Design
  • Retrieval of Protein structure and Visualization
  • Superposition of Protein and calculation of RMSD
  • Protein Docking

NEXT GENERATION SEQUENCING

  • Basic Terminologies
  • Introduction to file types in NGS
  • 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)
  • Blasting into SRA
  • Retrieving & Checking the quality of Sequence
  • Check your sequenced reads for quality (How to install use FastQC)
  • Process sequence reads (Quality trimming read joining etc.)
  • What is sequence alignment
  • How to align immunome data with IMGT
  • How to align your reads
  • Introduction to R (Programming language)
  • Install tcR package TCR sequencing analysis
  • Immunome data analysis

GENOME EDITING BY CRISPR/CAS9

  • Introduction to Genome Editing
  • Mechanism of CRISPR
  • Research areas of CRISPR
  • Gene knockout (tools used chopchop and cosmid)
  • Gene mutagenesis using CRISPR
  • Target identification (tool Cas9 designer)
  • Target screening (using blast)
  • Off target analysis (cas-offinder and crisprdirect)

MD SIMULATIONS BY GROMACS ON LINUX

Software installation

1. Lysozyme in Water

  • Generate Topology
  • Define box and Solvate
  • Add Ions
  • Energy Minimization
  • Equilibration
  • Production MD
  • Analysis

2.Protein Ligand Complex

  • Generate Topology
  • Define box and Solvate
  • Add Ions
  • Energy Minimization
  • Equilibration
  • Production MD
  • Analysis

Tools

  • Gromacs

IMMUNOINFORMATICS & VACCINE DESIGN

  • Introduction to immunoinformatics
  • Role of immunoinformatics in advance medicine field
  • Practical overview
  • Immunome browser
  • Antigenic protein retrieval
  • Functional analysis
  • Allergy prediction
  • Functional analysis
  • Prediction of active site
  • Antibody Modeling
  • Docking
  • Introduction to computational vaccine design
  • Types of vaccine design and application
  • Case study
  • Retrieval of sequence
  • Antigenicity prediction
  • Protein structure analysis
  • Antigen active site
  • Population coverage
  • Visualization of antibody

MOLECULAR DOCKING

  • Introduction to Docking
  • Types of Docking and its Importance
  • Antibody Modelling
  • Protein Modelling
  • Substrate Modelling
  • Ligand-Protein Docking
  • Protein-Protein Docking
  • Protein-Drug Docking
  • Protein-Inhibitor Docking
  • Antigen-Antibody Docking
  • Enzyme-Substrate Docking
  • DNA-Protein Docking
  • DNA-Drug Docking/DNA-Ligand Docking
  • RNA-Protein Docking

T & C:

  • If you do not reside in India then please select the FOREIGN category for registration.Training session will be conducted every day for 2 hours for the time which you choose.
  • The training sessions will be conducted as chat as well as screen share with LIVE voice. You can save the session for reference and use it later for reference.
  • Only Windows OS are required. If your computer has any other OS then let us know.
  • Once you register we will send you Welcome email 2 days prior to the workshop. This email will have all details of files, software as well as Messenger ID on which you have to send request.
  • Your request will be accepted 5 minutes prior to the start of the training. So do not panic if you have sent the request and it is not accepted. It will be accepted 5 minutes prior to your session.
  • If there is power cut/power loss/any other technical difficulty and you loose time then we will compensate that time in the next session. Example, if you have lost 30 minutes then your next session will be of 2:30 minutes instead of 2:00 hours.
  • If you do not turn up for training session on any day then you will be sent an email about the things which would be covered on that day. Next day the next thing will be covered.
  • If you have any urgent work then you can shift that and make sure to be online at your time.
    The training certificate will be given on successful completion of the tasks.
  • No refund will be made in any case.

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