BIOINFORMATICS RESEARCH

INTERNSHIP
Module Code – BTP12/13

Application Procedure Duration

To Register Registration Fee ₹500 3 Month

Online Training fee
₹26,900

Click here (2 Month Training + 1 Month Research Project + Certificate + E-

Vouchers for future services + Course content + Placement assistance)

Offline Training fee

₹28,900

INDUCTION SESSION

Week-1
Bioinformatics - A Working Concept

• Definition of bioinformatics and its scope

• Applications of bioinformatics in biology, medicine, and other fields
• Overview of bioinformatics tools and resources
• Integration of biology, computer science, and statistics in bioinformatics
• Emerging trends and challenges in bioinformatic

Introduction to Bioinformatics

• Evolution of biological data and the need for bioinformatics

• Types of biological data
• Methods for data acquisition and storage
• Introduction to popular bioinformatics tools and databases

Introduction to Databases

• Types of databases commonly used in bioinformatics (e.g. nucleotide, protein, pathway)

• Structure of biological databases and data retrieval
• Data organization and annotation in databases
• Advantages and limitations of different database systems
• Best practices for managing and sharing data in bioinformatics

Week-2
Introduction to Phylogenetic Analysis and Multiple Sequence Alignment

• Historical development of phylogenetics and sequence alignment

• Concepts of homology and evolutionary relationships
• Alignment quality metrics and scoring systems
• Importance of phylogenetic analysis and multiple sequence alignment in modern biological
research

Methods of Sequence Alignment

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 • Pairwise alignment algorithms (e.g. Needleman-Wunsch, Smith-Waterman)
• Multiple sequence alignment algorithms (e.g. Clustal)
• Global vs. local alignment
• Scoring matrices and gap penalties

Sequence Database Searches

• BLAST and other homology search tools

• Databases for sequence retrieval

Week-3
Introduction to Multiple Sequence Alignment

• Definition and importance of Multiple Sequence Alignment (MSA) in bioinformatics

• Types of MSA
• Applications of MSA

Algorithms for Multiple Sequence Alignment

• Progressive alignment methods (ClustalW, T-Coffee)

• Iterative refinement methods (MUSCLE, MAFFT)

Tree Construction with MEGA

• Introduction to phylogenetic trees

• Different tree construction methods (Neighbor-Joining, Maximum Parsimony, Maximum
Likelihood)
• Using MEGA for tree construction
• Visualizing and interpreting phylogenetic trees
• Other MSA tools and software (DIALIGN)
• Incorporating structural information into MSA
• Challenges and limitations in MSA and phylogenetic analysis

Week-4
Gene Prediction

• Importance of gene prediction

• ORF finder

Restriction Digestion

• Restriction enzymes and their recognition sites

• Digestion of genomic DNA for genotyping or analysis of genetic variation
• In silico restriction analysis of DNA sequences

Primer Designing

• Primer design criteria and guidelines

• In silico PCR primer design
• Specificity and sensitivity of PCR primers
• Optimization of PCR conditions

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Week 5
In-silico pharmacological studies

• Introduction to Pharmacology
• Role of Bioinformatics in Preclinical research
• Analysis to understand Barriers in immune system
• Analysis for compatibility of drug
• Standard Criteria for selection of lead Molecule

Computer – aided drug discovery (CADD)

• Introduction to Computer Aided Drug Discovery

• Methodology in CADD
• Retrieval of small Molecules from Pubchem

Drug likeliness of compound

• Interpretation of CADD results

• Virtual Screening Software’s for Computational Drug Discovery
• Structure – Based Virtual Screening
• Bioinformatics tools in CADD

Week 6
Molecular docking

• Introduction to Molecular Docking

• Understanding Molecular Interaction
• Recognition Model of Molecular Docking
• Molecular Complementarity in Computational Docking
• Ligand and Macromolecule Preparation
• Standard flowchart for Analysis

Week 7

• Introduction to Linux
• Linux basics and system startups
• Common applications
• Command line operations
• Finding Linux Documentation
• File operations
• User Environment
• The Bash Shell and Basic Scripting

Week 8
Molecular Dynamic Simulation

This Training will focus on experimental design, high throughput sequencing basics, quality
control, alignment to a reference genome, differential expression analysis, and functional
annotation. Tools presented are appropriate for researchers working in systems with a reference
genome.

• Introduction to GROMACS
• MD Basics
a. Force Fields 3|Page
 b. Energy Minimization
c. Integrators
d. File Formats
e. Equilibration
f. Benchmarking

Week 9/10

• MD Production and Analysis

• GROMACS Tools
• Hetero and Homo dimer chain simulation
• In dppc
• Preparation of Umbrella Protein
• Biphasic Molecules

Week 11

• Protein Ligand system

• Energy Solvation
• Virtual Sites
• Analyze the Simulation Results and Protein Ligand simulation

Research projects

You'll undertake One research projects; a group computational project or a computational project
working with a researcher in the Organization. These projects will give you an extensive research
experience, helping you stand out when applying for jobs or a PhD.

Examples of projects include:

➢ High-throughput screening and dynamic studies of selected compounds against sars-cov-2

➢ epidemiology, pathophysiology, and hindrance of urea cycle error of metabolism

Learning Outcomes

• Demonstrate knowledge of bioinformatics' key principles, such as computational biology,

database design and implementation, and probability and statistics.
• Demonstrate your ability to apply concepts in a professional setting by participating in a
Bioinformatics internship in a company or university.
• Be able to explain scientific information effectively in both written and verbal form.

Eligibility:

Student & Faculty: Bachelor, Masters, Ph.D., students as well as Faculty and Professors from
Microbiology, Biochemistry, Biotechnology, Immunology, Pharmacy, Pharmaceutical Chemistry,
Biomedical Technology, Genetics, Bioinformatics, Plant Science and Life Sciences. Professionals:
Biotechnology, Bioinformatics and Pharmaceutical scientists from industry, academia, and regulatory
agencies. Hands-on exercises will be performed individually using software tools (no prior experience
required).

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Requirements:

• A laptop is Mandatory for this course.

• Either a link to the software will be provided to you or you will be requested to install the package
during training, which we will inform you in advance.

T&C

• Interactive training sessions will be conducted on Microsoft Teams so to give users a better
learning experience or Offline Sessions.
• As it is with a LIVE TRAINER hence practical application, i.e., the experiments/tasks to be
performed can be done in the best explainable manner.
• In this Online Training/Workshop, there will be a LIVE trainer who will solve queries along
with training.
• Make sure you register under the right category. If you register under the wrong category then
your registration will be invalid and NO REFUND WILL BE MADE IN THIS CASE. This is
your mistake and the company is not responsible for it.
• To avoid this do read the description received in official payment mail before selecting and
proceeding with payment.
• You need to upload your professional ID which can be your Student ID Card or Research
Institute ID Card or Company ID Card.
• The certificate will be issued as per the details which you provide in the registration form
while registering before payment.
• Once you register relax, we will send you the session link 24 hours before.
• If there is any technical difficulty and you miss some part of the session then we will
compensate for that time in the next session. For example, revision of missed practical’s will
be taken first and then we will proceed further.
• If you cannot attend any session then you have to inform us 12 hours prior to the session.
• If you do not turn up for the training session on any day without prior information then you
will be sent an email about the things which would be covered on that day. The next day the
next thing will be covered.
• Timings are to be strictly followed hence it is recommended to join 5 minutes prior to the
session.
• We want to make sure that you learn properly hence the training certificate will be given
ONLY on successful completion of all the tasks given by the trainer.
• The certificates of all our Online programs are sent by email(softcopy) which has a unique ID
and incase of offline hard copy of certificate will be provided.
• The registration is NON-REFUNDABLE and NON-TRANSFERABLE.
• SRNOME Pvt. Ltd., India reserves the right of admission in all BioNome programs.
• If you are removed or your registration is cancelled due to inappropriate behavior, then
SRNOME Pvt. Ltd. Will not be responsible.
• If we do not wish to give this workshop to any participant, then we will refund their amount.
• Candidate can contact Trainers, Principal Investigators, Analyst only during working hours.

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