Workshop 1:
Big Data: Principle Component Analysis (PCA) & Partial Least Square (PLS) Analysis using SIMCA: a-hands-on approach

By:
A/ Prof Dr Baharudin Ibrahim, Universiti Sains Malaysia

Description:

This big data analysis course will provide the participants with the basics and advanced knowledge on Principal Component Analysis (PCA) and Partial Least Square Analysis (PLS) for precision medicine. The course focuses on the use of these important statistical methods in developing and validating crucial data/metabolites out of thousands from human and plant samples. Hands-on training and practical applications using SIMCA will also be provided. The course will cover the following:

  • Principle component analysis (PCA)
  • Score Plot and Loading Plot
  • Chemometrics
  • Receiver operating characteristic (ROC) curve
  • Partial least square (PLS)
  • Model validity and cross validation
  • Response permutation test
  • Partial least square discriminant analysis (PLS-DA)
  • Introduction to orthogonal partial least square (OPLS) and orthogonal partial least square discriminant analysis (OPLS-DA)

Note:

Participants must bring their own laptop for the hands-on sessions.


Workshop 2:
Conducting a Pharmacometric-Based Study

By:
Dr Hadzliana Zainal, Universiti Sains Malaysia

Description:

This workshop is designed to impart the skills on both theoretical and practical aspects of the pharmacometric approach. It is elementary hands-on in nature and may benefit participants from diverse backgrounds and areas of expertise. Participants will be exposed to the essentials of study designs, types of data that meet the needs for pharmacometric-based studies, sufficient data collection and proactive planning to maximise study effectiveness. Facilitators will utilise examples from their experience on pharmacokinetic/pharmacodynamic studies to illustrate best practices for implementation and problem solving throughout the research studies.  The workshop content will be presented as a combination of lectures, data review, code examples, data analysis and hands-on exercises.  Further to the workshop, the participants should be able to understand the conceptual basis and rationale for the population approach to pharmacometric-based study, where and when population methods may be optimally applied and the format for fundamental NONMEM® datasets. The workshop will cover the following:

  • Introduction to pharmacometric-based study
  • Non-linear fixed effect modeling
  • Sources of data and types of parameters
  • Sampling technique and data collection
  • Hands-on case studies

Note:

Participants must bring their own laptop for the hands-on sessions.


Workshop 3:
Next-Generation Sequencing

By:
Dr Chua Eng Wee, Universiti Kebangsaan Malaysia

Description:

Recent years have seen a surge in the use of next-generation sequencing (NGS) for examining the genetic basis of complex diseases and drug response. However, analysing NGS data can be challenging, as many of the software tools typically require the users to have a basic grasp of command-line (or Unix) operations and programming languages. This one-day workshop is intended for those who are new to NGS and looking for a painless way to analyse NGS data in a non-Unix environment. As such, this workshop is suitable for students and researchers who are involved in pharmacogenomics, cancer genomics, drug discovery, biomedicine, life science, computational biology, or those who wish to work at centres for genomic or translational medicine. Our main objective is to equip the participants with the skills necessary for translating genomic data into meaningful functional annotations. Throughout the workshop, the participants will be taught how to run NGS analyses on a user-friendly web-based application, Galaxy, that is designed for scientists with little proficiency in bioinformatics. The workshop will cover the following:

  • Understanding the mechanisms of well-known NGS platforms
  • Utility and limitations of NGS in pinpointing genotype-phenotype associations
  • Basic structures of the data files in NGS including BED, BAM, SAM, and VCF
  • Introduction to the basic workflow of analysing NGS data, including checking data quality, sequence alignment, variant calling, and selecting high-confidence variants and gauging their functional relevance
  • Hands-on sessions using real NGS data sets and a web-based application, Galaxy

Note:

Participants must bring their own laptop for the hands-on sessions.


Workshop 4:
Molecular Docking

By:
A/ Prof Dr Lam Kok Wai, Universiti Kebangsaan Malaysia
A/ Prof Dr Bimo A Tejo, Universiti Putra Malaysia

Description:

This one-day workshop is exclusively tailored-made for beginners with diverse disciplines related to drug discovery or relevant applications. The workshop is suitable for all personnel involved in natural product, organic synthesis, pharmaceutical, biomedical, life sciences, structural biology, computational biology or those people who are intended to work with bioactive-small organic molecules. Our main objective is to provide the participants with an introduction to basic molecular docking with hands-on practice, thus improves their understanding of molecular mechanisms in specific biological activity. This computational technique may also help to investigate potential molecules for further drug development process. It will also increase productivity by offering time-saving and cost-effective solutions in the development of new pharmaceutical products. The workshop will cover the following:

  • Theory on molecular docking and its applications.
  • Selection of correct protein crystal structure.
  • Protein visualization using Discovery Studio Visualizer.
  • Docking with Autodock and Autodock Vina.

Note:

Participants must bring their own laptop for the hands-on sessions.


Workshop 5:
Stem cell-based therapy

By:
Dr Tan Jun Jie, Universiti Sains Malaysia

Description:

This workshop will bring together scientists who are actively involved in stem cell research, from both the academia and the industry, to discuss about the general workflow on clinical trials using stem cells, and the current regulation associated with cell-based therapy in Malaysia. The workshop’s overarching objectives are to provide platforms and opportunities for industry to joint force with local academic institutions in identifying current progress, knowledge gaps, awareness and hurdles stem cell-based therapy as follow:

  • Regulatory Insight of clinical trials involving stem cells in Australia
  • New Regulatory Requirements for Cell/Gene Therapy Product (CGTP) in Malaysia
  • Stem Cell Therapy from Industry Perspectives in Malaysia

This workshop will also offer bench-side discussion and hands-on opportunities as follow:

  • Isolation of Mesenchymal Stem Cells and Exosome
  • Cellular Reprogramming and Generation of Induced Pluripotent Stem Cells
  • Fluorescence-activated cell analysis and sorting for clonal stem cells
  • Fluorescence Cell Imaging and analysis