Coding For Biologist Hands-on Training Program With 3, 6 & 12 Months Project Work in Python, R, BioPython & CADD Biological Data Analysis

CODING FOR BIOLOGISTS - A Biotecnika Initiative

Calling All Aspiring Biologists to Join Our Hands-on Training Program in Python, Biopython, R & CADD, and how To Use Them in Biological Data Analysis

Learn How To Develop Biotech Software using Coding During Project Work

+ Work On Real Time Projects For 3 Months, 6 & 12 Months

Bioinformatics Is The Present & Future, and Coding Is Your Key to Unlocking Its Boundless Potential

Session Starts From - 14th Oct 2024

Dive into the World of Coding - Join Today!

Welcome to the Coding For Biologist Hands-on Training program in Python, R, Bio Python, and CADD Biological Data Analysis! In the rapidly evolving field of biology and life sciences, data-driven approaches are becoming increasingly critical for research, analysis, and decision-making. This comprehensive 15-day Training is designed to equip aspiring biologists, researchers, and life science enthusiasts with the essential coding skills necessary to harness the power of data analysis and computational biology.

Course Details:

• Start Date: 14th Oct 2024
• Duration: 15 Days Training With 3,6 & 12 Months Project Work
• Mode: Online Via Zoom
• Timings: 7 PM to 8 PM IST

Eligibility:

• B.Sc., M.Sc., B.Tech., M.Tech., B.Pharm, M.Pharm, Life Sciences, Ph.D. and Post Doc Students are welcome, who want to learn coding.
• Individuals with a strong interest in bioinformatics and a basic understanding of biology are encouraged to apply.

Why Life Science Candidates Must Know R, Python & BioPython, CADD:

• R and Python: R and Python are two of the most widely used programming languages in bioinformatics and biological data analysis. R is known for its powerful statistical analysis capabilities, while Python is versatile and popular for its simplicity. Knowing both equips you to work with a broad range of biological data effectively.

• BioPython: BioPython is a specialized library for biological data analysis, providing tools and libraries for sequence analysis, phylogenetics, structural biology, and more. It streamlines common biological data manipulation tasks.

• CADD (Computer-Aided Drug Design): CADD plays a crucial role in drug discovery and development. Understanding CADD techniques is invaluable for researchers involved in pharmacology and drug-related research in the life sciences.

Why Coding is Essential for Biologists: Its Advantages:

In the era of big data, biologists can significantly benefit from incorporating coding into their skill set. Here are some of the key advantages:

1. Efficient Data Handling: With the immense volume of biological data generated daily, coding skills enable you to manage, process, and analyze data much more efficiently.

2. Customized Analysis: Coding allows you to tailor your analytical tools to meet the specific needs of your research, providing a level of customization that pre-built software may not offer.

3. Reproducibility: Coding ensures that your research is reproducible, transparent, and shareable with the scientific community, enhancing the credibility of your work.

4. Automation: Repetitive tasks can be automated, saving time and reducing the risk of errors in data analysis.

5. Interdisciplinary Collaboration: Coding skills enable better collaboration between biologists, computer scientists, and statisticians, fostering interdisciplinary research.

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Instructor: Dr. Nilofer K Shaikh, PhD With a strong background in big data analysis  using computational approaches in cancer omics data, Ms. Nilofer K Shaikh brings a wealth of experience from MIT ADT University. Her expertise spans cancer research, drug design, molecular dynamics simulation, data mining, and various omics technologies. Proficient in Python, R, and computational methodologies, she has a deep understanding of genomics, metabolomics, proteomics, transcriptomics, pharmacogenomics, and AI for cancer treatment. Her skillset also includes machine learning, MySQL database management, and natural language processing (NLP).

Dr. Elamathi Natrajan

Elamathi Natarajan is a dedicated bioinformatician with a robust background in computational biology, data analysis, and genomics. Holding a Doctorate in Bioinformatics from Dr. A.P.J Abdul Kalam Technical University and an MBA in Information Systems Management, she has made significant contributions to the field through both research and teaching.

She has served as an Assistant Professor and Head of Department (HOD) In-Charge at Kalinga University, Raipur, where she excelled in lecturing, research, and departmental management. At Biotecnika Info Labs Pvt Ltd, Bangalore, she played a key role in academic support, enhancing student success through coaching and program development.

Elamathi’s expertise includes developing bioinformatics pipelines, conducting quality assessments, and applying machine learning algorithms to genomics data. Recognized for her work, including a Senior Research Fellowship from the Indian Council of Medical Research (ICMR), she continues to drive innovation in bioinformatics and is seeking a new challenge to further advance scientific discoveries.

Mr. Prodyot Banerjee

Prodyot Banerjee is an accomplished professional in Computer-Aided Drug Designing, Bioinformatics Analysis, and Genomics, with extensive experience from esteemed institutions like CSIR-IGIB, CSIR-CLRI, IIT Madras, and Delhi Technological University. Holding an M.Tech in Bioinformatics from Delhi Technological University, Prodyot has excelled in research and development roles, presenting his work at prestigious venues like IIT Kharagpur. His research is published in respected journals such as IEEE and Frontiers in Pharmacology, with ongoing contributions. Prodyot's GATE 2019 qualification from IIT Madras underscores his commitment to academic excellence and professional growth. With a proven track record and insatiable thirst for knowledge, he is an invaluable asset in bioinformatics, genomics, and computer-aided drug design fields.

Training Cirriculumn

Week 1: Introduction to Biological Data Analysis

Day 1: Getting Started with Python and R

• Python vs. R for Biological Data Analysis
• Installing Python, R, and Required Libraries

Day 2: Data Import and Manipulation

• Working with Biological Data Formats
• Basic Data Manipulation with Python and R

Day 3: Data Visualization

• Introduction to Data Visualization
• Creating Basic Plots with Matplotlib (Python) and ggplot2 (R)

Day 4: Exploratory Data Analysis (EDA)

• Understanding Your Biological Data
• EDA Techniques in Python and R

Day 5: Introduction to Bio Python

• What is Bio Python?
• Basic Bio Python Functions for Sequence Analysis

Week 2: Molecular Data Analysis

Day 6: Sequence Alignment

• Introduction to Sequence Alignment
• Pairwise Sequence Alignment with Bio Python

Day 7: Multiple Sequence Alignment

• Multiple Sequence Alignment with Bio Python
• Sequence Alignment Tools and Techniques

Day 8: Phylogenetic Analysis

• Building Phylogenetic Trees
• Tree Visualization and Interpretation

Day 9: Sequence Feature Analysis

• Identifying and Annotating Sequence Features
• Sequence Motif Search with Bio Python

Day 10: Protein Structure Analysis

• Introduction to Protein Structure Analysis
• Using Bio Python for Protein Structure Data

Week 3: Clinical Data Analysis

Day 11: Clinical Data Preprocessing

• Cleaning and Organizing Clinical Data
• Handling Missing Data

Day 12: Survival Analysis

• Introduction to Survival Analysis
• Kaplan-Meier Estimator and Cox Proportional Hazards Model in R

Day 13: File Parsing and Data Retrieval

• Reading and Writing FASTA Files
• Parsing GenBank Files

Day 14: CADD data analysis using Python and BioPython

• Working with molecular structures and visualization for drug designing
• Analyzing drug bioactivity data to screen potential drug candidates

Day 15: Project and Presentation

• Apply your knowledge in a real research project.
• Showcase your skills and insights gained during the training.
• Present your findings and contributions to the field.

Project Work Opportunities

In addition to the 15-day training program, participants have the option to engage in real-time projects for 3 or 6 months. Below are the available project topics along with the respective project guides:

1. Genomic Data Visualization Tool
   Develop an integrated bioinformatics tool for visualizing and exploring genomic data, including gene expression profiles with its mutations.
   Project Guide: Dr. Nilofer Shaikh
   Duration: 6 months

2. 3D Protein Structure and Drug Visualizer and Analysis Tool
   Develop an interactive platform for 3D protein structure visualization, allowing detailed analysis of protein-ligand interactions.
   Project Guide: Prodyot Banerjee
   Duration: 12 months

3. Microbiome Diversity and Functional Analysis Tool
   Build a comprehensive tool and web interface for analyzing microbiome datasets, providing rich visualizations of microbial diversity, composition, and functional capabilities.
   Project Guide: Dr. Elamathi Natarajan
   Duration: 6 months

4. CRISPR-Cas9 Target Site Analysis
   Design a bioinformatics tool with an intuitive web interface to predict optimal CRISPR-Cas9 target sites in genomic sequences for gene editing research.
   Project Guide: Dr. Elamathi Natarajan
   Duration: 6 months

5. Cancer Mutation Signature Analysis App
   Develop a user-friendly software tool to analyze mutational signatures in cancer genomics, uncovering patterns that can guide therapeutic strategies.
   Project Guide: Dr. Nilofer Shaikh
   Duration: 6 months

6. Gene Expression Analysis Using Python
   Project Guide: Dr. Nilofer Shaikh

7. Identification of Drug-like Properties, and Molecular Interaction Analysis of Phytochemicals Against Cancer Targets
   Project Guide: Dr. Elamathi

8. To Identify Novel Mutations in Neurological Disorders Using AI/ML Based Databases
   Project Guide: Prodyot Banerjee

9. Model Development for the Screening of Log P Value Using Machine Learning Based Algorithms
   Project Guide: Dr. Elamathi

10. Virtual Screening of Novel Druggable Compounds Using AI/ML Based Tools
    Project Guide: Prodyot Banerjee

11. Principal Component Analysis-Based Unsupervised Feature Extraction Applied to In-Silico Drug Discovery
    Project Guide: Dr. Elamathi

12. Comparative Analysis of Data Mining Tools and Classification Techniques Using WEKA in Medical Bioinformatics
    Project Guide: Dr. Elamathi

13. Pharmacokinetic/Pharmacodynamic Studies of the Druggable Compounds and Identifying the Pockets and Cavities of Protein
    Project Guide: Prodyot Banerjee

14. Identification and Screening of Antiviral Compounds in Terms of Their ADME/T Properties
    Project Guide: Dr. Elamathi

15. To Carry Out Multiple Ligand Docking Studies Using the Screened Druggable Compounds and to Present the Docked Complex as per Publication Standards Using Visualization Tools
    Project Guide: Prodyot Banerjee

16. Gene Function Prediction from DNA Coding Sequence Using AI/ML Classifiers and Databases
    Project Guide: Prodyot Banerjee

17. Feature Selection and Clustering of Gene Expression Profiles Using Biological Knowledge
    Project Guide: Dr. Elamathi

18. To Design Mutant Protein Structure Model Using AlphaFold and to Identify the Protein’s Stability
    Project Guide: Prodyot Banerjee

Why Attend This Training:

This training offers a unique opportunity for life science candidates to gain hands-on experience in coding and biological data analysis. By participating in this program, you will:

• Build In-Demand Skills: Learn the coding languages and tools that are in high demand in the life sciences and bioinformatics fields.

• Advance Your Career: Acquire skills that will make you more competitive in the job market and open up a wide range of career opportunities in academia, research, and industry.

• Work on Real Time Projects & Publish papers

• Practical Experience: Gain practical experience in coding and data analysis through real-world examples and projects.

• Networking: Connect with experts and peers in the field, building valuable connections for your future endeavors.

• Apply Knowledge: The program culminates in a project and presentation, allowing you to apply your newfound skills to real-life biological data analysis challenges.

Join us for this transformative journey into the world of biological data analysis. Let coding be your gateway to unraveling the mysteries of life sciences and enhancing your impact in the field. Don't miss this opportunity to take your career to the next level. Register now and embark on this exciting educational journey with us!

Frequently asked questions on Coding For Biologist Training

Are these going to be live sessions?

The Coding For Biologist Hands-on Training will combine live interactive sessions,and assignments. However, our expert will be available to guide you throughout the course. 

What If I miss a session?

The recording of the sessions will be available for five days post-completion of the Training. So you can go back and refer to the recordings, but make sure you do not miss the live sessions and take maximum benefit from it. 

Will I need to install any software?

The course does not require any additional software. However, any requirement arises, the instructor will inform it before the sessions. 

How to get the hard copy certificate?

To avail of the hard copy certificate, the candidate should complete the assignments. Upon submission of the same, a hard copy certificate will be sent to your address.

Whom do I contact for any further queries or technical difficulties?

Having any trouble? Get in touch with our team. Click on that Chat thingy or write to us cst@biotecnika.org or info@biotecnika.org.