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Tel: +60389418646
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Bioinformatics Bootcamp

Features

  • 3 intakes per year
  • 11 courses per intake
  • 1 hour optional weekend consultation session per course
  • Focus on hands-on training
  • Evening classes (6.30pm – 10.00pm) to suit working individuals

Who Should Attend ?


Essential Topics in Bioinformatics

This course will cover essential or basic topics in bioinformatics to lay out a foundation for the students before they embark on more advanced courses. The expected outcome end of this course is that students will have a good understanding of what bioinformatics is and appreciate its pivotal role in interdisciplinary research.

  • Biological Databases and tools
  • Sequence Comparisons
  • Biological Patterns and Profiles
  • Molecular Evolution
  • Structural Biology
  • Genomic & NGS
  • Proteomics
  • Network and Pathway of Bioinformatics

Who should attend: Anyone who wants an introduction to the world of bioinformatics

 

Applied Bioinformatics

This Applied Bioinformatics course aims to introduce advanced theoretical knowledge and computational skills and apply them to help solve real-life biological problems. The course will equip participants with the computational skills and awareness needed to analyse datasets on transcriptomics, cancer genomics, viral, immuno and vaccine informatics.

  • Transcriptomics
  • Epigenomics & non-coding genome
  • Cancer genomics
  • Personal & medical genomics
  • Vaccine informatics
  • Immuno-informatics
  • Viral informatics
  • Data curation & visualization

Who should attend: Anyone with a basic background in bioinformatics

 

R for Practical Data Analysis

This course will cover the basics of R, which is currently the most widely used statistical computing environment in the world. A the end of this course, students are expected to be able to use R to process data, prepare summary statistics, and create figures for supporting data analysis work.

  • Basic commands
  • Reading and writing data
  • Data objects: vector, matrix, data frame, list
  • Summary statistics
  • Data visualisation using histogram, scatter plot, box plot
  • Useful statistical analyses: t-test, ANOVA, chi-squared test, Fisher’s test, correlation analysis, linear regression
  • Multivariate data analysis: ordination with Principal Component Analysis
  • Iterations
  • Crafting your own workflow: writing functions
  • Capstone project

Who should attend: Anyone who is interested in developing basic R skills to analyse their own data

 

Genome Informatics (NGS Analysis)

Genome Informatics course will focus on large-scale approaches to understanding the structure and biology of genomes. The explosion of genomic data requires biologists to increase the scale and sophistication of the information technology used for their research. The course scope encompasses a wide range of methods for the analysis of these data, including a focus on technologies such as handling NGS data, genome assembly, comparative genomics, and metagenomics, applied to very large genomic data sets.

  • Introduction to high throughput sequencing
  • Inspection of sequence quality
  • Sequence alignment and assembly genomics
  • Comparative genomics & evolutionary analysis
  • Metagenomics
  • Genome annotation
  • Computing resources for sequencing informatics

Who should attend: Anyone who wants an introduction to the world of genomics

 

Applied Computing in Bioinformatics

This course is intended to serve as an introductory and hands-on practice for biologist to acquire practical bioinformatics programming skills. Its goal is two-fold: it teaches fundamental programming skills and applies them to interesting biological scenario. This course will be conducted using shell scripting and basic Perl language, emphasizing on the integration of programming language to facilitate the development of scripts for bioinformatics applications.

  • Introduction to Linux Operating System and Basic Command Line Interface
  • Linux Utilities and Text Editor
  • Shell Scripting (Variable, Array and Expression)
  • Shell Scripting (Flow Control and Repetition)
  • Shell Tricks for One-liner Bioinformatics
  • Application of Perl in Bioinformatics: Sequence and Strings
  • Application of Perl in Bioinformatics: Motif search in DNA and protein
  • Application of Perl in Bioinformatics: Entrez Programming Utilities

Who should attend: Anyone who is interested in developing basic computing skills

 

Structural Bioinformatics and Molecular Modelling

This course will cover fundamentals and essential topics in structural bioinformatics before embarking on more advanced courses. At the end of this course, students are expected to show a good understanding of what structural bioinformatics is and make use of their computational protein structure prediction skills.

  • Fundamentals of biological structures I
  • Fundamentals of biological structures II
  • Fundamentals of three dimensional structure determination
  • Three dimensional data representation and visualization
  • Computational structure prediction I
  • Computational structure prediction II
  • Computational structure prediction III
  • Application

Who should attend: Anyone who is interested in structural bioinformatics and learn to predict three dimensional (3D) protein structure using computational methods.

 

Molecular Mechanics and Docking

This course will cover fundamentals and essential topics in molecular modelling. At the end of the course, students are expected to demonstrate their understanding in various aspects of molecular modelling. Students are also expected to perform and analyze molecular docking studies.

  • Fundamentals of biological structures
  • Empirical force field models: molecular mechanics I
  • Empirical force field models: molecular mechanics II
  • Macromolecular interactions
  • Fundamentals of molecular docking I
  • Fundamentals of molecular docking II
  • Virtual screening and drug designing
  • Application

Who should attend: Anyone who wants to learn about various topics in molecular modelling and perform molecular docking studies.

 

Molecular Dynamics and Simulation

This course will cover fundamentals and essential topics in molecular simulation. At the end of this course, students are expected to comprehend principles and concepts in molecular simulations. Students are also expected to perform and discover the benefit to perform molecular dynamics simulations.

  • Fundamentals of biological structures
  • Energy Minimization
  • Fundamentals of Molecular Simulations I
  • Fundamentals of Molecular Simulations II
  • Fundamentals of Molecular Dynamics Simulation I
  • Fundamentals of Molecular Dynamics Simulation II
  • Fundamentals of Molecular Dynamics Simulation III
  • Application

Who should attend: Anyone who wants to know about molecular simulations and perform molecular dynamics simulation.

 

Computer Programming in Biology

This course will develop students’ programming competency by focusing on concepts of programming language and its application to problem solving. This course will introduce students to the basic of computer programming using the Python language. This will help students establish good programming practices from the beginning that will go a long way in improving their programming skills.

  • The Concept of Programming Language
  • Python (Introduction, Variable and Expressions
  • Python (Flow Control)
  • Python (Repetition)
  • Python (Input/Output)
  • Python (Method, Biopython)
  • Python (Biopython I)
  • Python (Biopython II)

Who should attend: Anyone who is interested in developing basic computer programming skills for problem solving

 

Membrane Protein Simulation

This course will cover topics in the lipid bilayer, homology modelling of membrane protein and membrane protein simulation using GROMACS. At the end of this course, students establish a good understanding of the membrane protein simulation and obtain basic skills in membrane protein simulation.

  • Biochemistry of lipid and phospholipid
  • About membrane protein
  • About molecular dynamics simulation
  • Modelling of the membrane protein using homology modelling
  • Embedding and optimization of membrane protein in the membrane bilayer

Who should attend: Anyone who is interested in membrane protein modelling and dynamics simulation

 

High-throughput and Ensemble-based Screening for Drug Discovery

This course emphasis heavily on hands-on. The student will cover techniques on the set-up of in silico high-throughput screening using a computational approach. The student will also expose to how to conduct and apply ensemble-based screening from a designated case study.

  • Introduction on computer-aided drug discovery
  • Development of compound library and compound optimization
  • High-throughput virtual screening
  • Ranking, interaction analysis and selection of potential hits
  • Connecting protein dynamics to ensemble conformations
  • Clustering analysis and trajectory extraction

Who should attend: This is an advanced course for the student who already understands basic on docking and molecular dynamics. simulation.

 

*For each topic in each course, we will dedicate two-hours of lecture, followed by 1 hour of practical.
There’s an additional one hour optional consultation session on the weekend to discuss the problems that the participants may have experienced when doing the practical.

INTAKES

Only a limited number of seats available per intake

Intake 3 (Oct – Nov)

Day

Essential Topics in Bioinformatics

Monday

Structural Bioinformatics and Molecular Modeling
Applied Bioinformatics

Tuesday

Molecular Mechanics and Docking
Membrane Protein Simulation
R for Practical Data Analysis

Wednesday

Genome Informatics (NGS Analysis)
Applied Computing for Bioinformatics

Thursday

Molecular Dynamics and Simulation
Computer Programming in Biology

Friday


FEE

Category Rate (MYR)

per course

Student 1,000

(Except for Essential Topics in Bioinformatics, Structural Bioinformatics and Molecular Modelling, Molecular Mechanics and Docking and Molecular Dynamics and Simulation : 1,500)

Academic 1,500

(Except for Essential Topics in Bioinformatics, Structural Bioinformatics and Molecular Modelling, Molecular Mechanics and Docking and Molecular Dynamics and Simulation : 2,000)

Corporate 2,000

(Except for Essential Topics in Bioinformatics, Structural Bioinformatics and Molecular Modelling, Molecular Mechanics and Docking and Molecular Dynamics and Simulation: 2,500)


Venue

IT Lab 4, Block B, MAEPS Building, MARDI Complex
Jalan MAEPS Perdana, 43400 Serdang
Selangor, Malaysia.


Frequently Asked Questions (FAQ)

The number of hours are as below and are the same for each course:

No. of face-to-face hours per course = 8 topics x 4 hours = 32 hours
No. of self-study hours per course = 8 topics x 6 hours = 48 hours

Total hours per course = 80 hours (over a period of two months)

Implementation:

For each topic of each course, we will conduct a two-hour lecture session (6.30-7.30pm, with dinner/prayer break from 7.30-8.00pm, and continuation of lecture from 8.00-9.00pm) on the designated course day (see Table in Query #1 above), followed by an hour of practical on the same day. The students are to use the remaining weekdays for completion of the practical and self-study. An additional one hour (optional) consultation session will be conducted every Saturday (a time convenient for the students to be finalised on the first day of class) to discuss any problems that the students may have encountered during the practical or other questions related to the practical/lecture.

Example: All the topics of course 1 will be taught on Mondays. For each topic, the class will start with a two-hour lecture, followed by one hour practical. Students then spend the remaining weekdays to complete the practical and do a self-study on the lecture material covered. The students will meet the instructor again on Saturdays for an hour of consultation on the practical/lecture or other related questions.

Yes, a certificate of participation will be given to each participant of the course.

Registrations are open till a day before the start of the intake month (e.g. last day of Feb for March intake). However, registrations are on a first-come, first-served basis and will be closed if the maximum number of participants is reached.

We can make arrangements for this if a request is made earlier. Also, it would be preferred if the students travelled together, so multiple trips can be avoided. Alternatively, public transports are convenient and the students can opt for KLIA Ekspres, bus or budget taxi to reach their accommodation place.

The bootcamp will take place at Perdana University, which is located in Serdang.
 
The participants can opt to stay at Perdana University-arranged accommodations. Our staff will be able to provide you with information on the availability of the hostel rooms and the cost involved. We cannot guarantee a placement for the students in the hostel, but we will try to help them find an affordable accommodation, with access to public transport. Budget hotels at a reasonable cost are plenty, and the cost can be reduced if the students are prepared to share the room. The transport between their accommodation and Perdana University has to be taken care by the students themselves.
 
If the students stay in the Perdana University-arranged accommodations, the cost will also include transport to Perdana University (only) early in the morning and back in the evening. Students planning to also do research attachment with us, besides the bootcamp, can take advantage of this to travel to Perdana University during the day for discussion with the supervisor.

The cost is estimated to be between RM375 and RM500 per month depending on the size of the bedroom. Please contact Student Services Department for more information.


Academic Team

Meet our dedicated team of educators

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