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NanoTemper’s MST and nanoDSF Workshop

The workshop will cover principles of biomolecular interaction analytics using Microscale Thermophoresis (MST) as well as protein stability and aggregation assessment with use of nanoDSF technology. We strongly encourage to bring your samples for analysis. Participants interested in measurements of binding affinities or protein stability of their own samples are requested to contact Dr. Marek Zurawski () for further information.

Number of participants: 32 (working in pairs). One student pair will have about 4 hours of with NanoTemper equipment. Experiment slots: Sep1: 15-19h; Sep2: 9-13h,  Sep2: 15-19h; Sep3: 8-12h

Molecular dynamics simulations

This workshop will help you gain first experiences in performing molecular dynamics simulations. After a short theoretical introduction, you will find out about the basic ingredients for a molecular simulation. You will setup your own simulation of a small peptide and run some short simulations of it. Finally, you will analyse the resulting trajectories and find out what computational methods can offer in addition to experimental approaches.

Number of participants: 20. Students will be introduced to their task by Prof. Bojan Zagrovic on Sep 1, from 16:00h, while Profs. Oostenbrink and Kolb will join on Sep 2nd and 3rd to wrap up. Work on Linux PCs at the Faculty of Science, or you bring your own Linux laptop.
Nanotechnology to the rescue: nanopores for DNA and protein sequencing

Biological and, in the last decade, solid-state nanopores (nm sized openings in nm thin membranes) are regarded as the most promising route towards the goal of reading-out individual genomes and even proteomes. The technique is based upon electrical read-out of the sequence while the biomacromolecule translocates through the nanopore. High-bandwidth (high-speed) preamps are the essential tool in achieving this, as well as the technologies to prepare and mount nanopores (prepared in e.g. graphene or MoS2) and control the translocation.

Number of participants: 20. Students will be split in groups of 5. Each group will be lead by one of the students who already work in this field, while Profs. Wanunu and Drndic will supervise. Work in labs to be set-up at the Faculty of Science.

Sequencing 2: Revenge of the chemists

Mass spectrometry is routinely used to identify pathogens and malignant cell strains by directly fingerprinting their proteome. Prof. Mario Cindirc has developed this method to the next level where it can be used for de-novo sequencing of peptides. The method is based on a proprietary chemical derivatization agent for preparation of the protein samples for MS analysis and heavily involves bioinformatics tools to analyze the MS spectra.

Number of participants: 12. Students will go to the Proteomics centre in Zagreb for a site visit and demonstration of the technology. Transfer by cars, accommodation 2 nights in Zagreb. Departure Sep 1. 17:00h, Return to Split Sep.3 before noon.

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