CAF
Welcome to Stellenbosch University

Online Training

​​​​​​​​​​​​​​​​​​​Online Training: ​26 July - 4 August 2021

​​​Application process and cost of participation

The online application process is open until 30 June 2021.

All researchers, postgraduate students and university and industry technical staff may apply.

The training is free.

Contact cafadmin@sun.ac.za for more information.

​​>> Schedule <<​

2021 Workshops:

1. Basic introduction to X-ray computed tomography & 3D imaging 

Presenter: Muofhe Tshibalanganda

Pre-recorded​, will be available for questions after the video.

The workshop will cover the basics of X-ray Micro-CT and Nano-CT.

Course content will include:

·        Specific examples

·        How the method works

·        What kind of information can be found

·        Advantages of X-ray 3D imaging

Systems will be demonstrated and prepared data will be used for demonstrating 3D data analysis. This will cover basic 3D visualization, image segmentation, defect analysis, part to part comparison and many more. The course focuses on new users and is ideal for researchers and students new to the field of non-destructive "X-ray microscopy".​

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2. Water Isotope Analysis by Laser Spectroscopy

Presenter: Dr Jared van Rooyen

Pre-recorded

"The purpose of this course is to provide comprehensive hands-on training in the installation, operation and maintenance of laser spectrometry for the analysis of stable isotopes in water samples and the use of the LIMS for Lasers software.

The course comprises lectures covering theoretical concepts on the measurement of environmental stable isotopes using laser spectrometry, followed by demonstrations and practical exercises including the setup of the laser analyser, sample preparation, as well as a brief overview of isotope data postprocessing.

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3. Basic principals of Ion Chromatography

Presenter: Dr Janine Colling

Pre-recorded

This workshop will focus on an introduction to the theory of Ion chromatography principles and present an overview of the instrumentation and sample analysis.

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4. Introduction to Hyperspectral imaging and chemometrics

​Presenter: Dr Janine Colling

Pre-recorded

During this workshop, you will receive two videos to follow.  The first video will provide an overview of the theory and principles of this technique to enable a better understanding of how NIR spectroscopy and hyperspectral imaging works.  It will describe typical applications which make use of this instrument and technique.  The second video will focus on an introduction to multivariate data analysis which can be used to explore trends in data and to develop qualitative and quantitative models.

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5. Sample preparation for elemental analysis in rock, sediment, environmental & biological samples for measurement by XRF, ICP & CHNS 

Presenters: Riana Rossouw, Mareli Grobbelaar & Charney Small

Pre-recorded

Sample preparation is a critical step towards accurate elemental analysis. This presentation explains different types of preparation selected according to the specific analytical technique appropriate to your sample types and the outcome required.
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6. Introduction to XRF Spectrometry 

Presenter: Mrs Mareli Grobbelaar

Pre-recorded

XRF spectrometry is used for major and minor element quantification on a range of solid sample types. This presentation explains the principles of the technique.

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7. Laser Ablation ICP-MS in Earth and Environmental Science 

Presenter: Mrs Riana Rossouw

Pre-recorded

This presentation explains the principle and application of Laser ablation ICP-MS to measure minor and trace elements in bulk sediments, minerals or selected types of biological samples.

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8. Major and trace element quantification of liquid and solid samples by ICP analysis

Presenters: Riana Rossouw & Charney Small

Pre-recorded

Water, food, beverages, soils and biological material is analysed for major, minor and trace element composition using ICP measurement after appropriate sample processing. Understand the principles of the technique. It is advised to first watch our Sample Preparation presentation.​

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9. An introduction to Serial Block-Face (SBF) Scanning Electron Microscopy (SEM) 

Presenter: Mr Jurgen Kriel

Live

Serial Block-Face (SBF) Scanning Electron Microscopy (SEM) is a powerful imaging modality that allows for 3D acquisition SEM samples at high resolution. This is of great value for biological research, as cells and tissues can be studied in their native 3D morphology which allows for a deeper understanding of cellular phenotypes associated with certain pathologies. When combined with other fluorescent microscopy techniques, SBF-SEM provides immense value for the localization and distribution of proteins, bacteria or viruses within tissues which can provide novel insights into certain disease states. This workshop will serve as an introduction to SBF-SEM and explain the workflow involved in sample preparation and image acquisition. Due to the large amount of data generated by this approach, an overview of data handling and image processing will also be given to introduce researchers to basic principles of machine learning in the era of 'Big Data'. ​

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10.  AMNIS ImageStreamX: Imaging Flow Cytometry

Presenter: Dr Ziv Porat

CAF will collaborate with the International Society for the Advancement of Cytometry (ISAC) to present webinars on the principles of imaging flow cytometry, including the instrument and acquisition. We also plan an online demonstration of the analysis and will attempt an online hands-on session where participants will receive files and attempt to analyse the files by themselves.

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11. Multicolour  and Spectral flow cytometry

Presenters: Dr Maria Jaimes & Dr Rui Gardner

Multi-colour flow cytometry is an invaluable tool for medical research, especially since up to 50 parameters can now be analysed simultaneously with instruments like the spectral analyser Stellenbosch University will purchase this year. However, it is essential that flow cytometrists understand the fundamental principles of panel design and setup of such experiments, so CAF will team up again with the International Society for the Advancement of Cytometry (ISAC) to conduct webinars on these important topics. A special emphasis of these webinars will be the use of spectral flow cytometry in comparison to conventional flow cytometry.

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12. BD FACSMelody: Cell sorting

Presenter: Mrs Lize Engelbrecht

Flow Cytometry is not only useful to analyze multiple parameters in single-cell suspensions but if a certain population or populations of cells needs to be collected from a heterogeneous sample, flow cytometry combined with cell sorting can be very useful. In this webinar, we will discuss the principles of cell sorting and demonstrate how to run and sort samples on the BD FACSMelody housed in the CAF Fluorescence Microscopy Unit.​

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​13. Introduction to the analysis of biomechanical data 

​Presenter: John Cockcroft

This course provides a comprehensive overview of the data processing steps in a typical biomechanical analysis pipeline. This includes segmenting an activity of interest into events and phases, data cleaning, calculating modeling signals, extracting discrete outcomes and signal time-normalization and aggregation. Attendants will be given practical examples to complete during the course.

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​14. Basics of EEG data processing 

Presenter: Cara Mills

This course covers introductory concepts in EEG processing including time synchronization, signal re-referencing, data cleaning (spectral filtering, ICA-based methods), segmentation into events and phases and frequency analysis. Various data processing tools will be introduced including EEGLab and BrainVision Analyzer. Attendants will be given practical examples to complete during the course.

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15. Introduction to biological sample preparation for SEM 

Presenter: Madelaine Frazenburg
Pre-recorded
Biological sample preparation is essential in scanning electron microscopy (SEM). Flawed sample preparations can undermine the quality of results and lead to false conclusions. Thus, the aim of this talk is to equip researchers and students with the essential knowledge required to prepare samples for SEM investigations in life sciences. To obtain acceptable SEM images with good ultrastructural preservation requires careful application of the SEM sample preparation method. 

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16. Basic principles for Imaging Electron Microscopy 

Presenter: Madelaine Frazenburg

Pre-recorded

The talk offers an overview of the technical application and principles of using a scanning electron microscope (SEM) to produce high-resolution electron images by choosing the correct and appropriate settings and detectors. The advantages, signal detection from the different detectors get discussed in detail.  The effect of on how to perfect and image using the different tools available on the SEM. 

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17. Introducing to biological sample preparation for STEM 

Presenter: Dr Alicia Botes
Pre-recorded

This talk presents an overview of the components and principles of STEM. You will also learn how-to optimize STEM for specific samples. We talk about the advantages of STEM with the availability of various types of STEM techniques, different detectors and a variety of adjustments in order to suit specific samples and analysis requirements. We also mention any limitations of STEM and how to overcome it using these tools. 

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18. Basic principles for Imaging Scanning Transmission Electron 

Presenter: Dr Alicia Botes

Pre-recorded

In this talk, we outline the history of STEM and go on to explain the sample preparation required for STEM and how it influences the imaging quality during the analysis. We focus mainly on sample preparation for biological samples since the preparation of these types of samples is commonly the most complex. The discussion includes various staining agents, thin sectioning and the various grid types available for use in STEM and TEM. 

We look forward to your participation!