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Proteins databases, data structures and representation in computational models

Protein design emerges as a new branch of human technology with the potential to disrupt multiple industries and accelerate the transition towards a sustainable economy. Recent breakthroughs in protein design have opened the field for larger participations; allowing startups, innovators and skilled individuals to design functional proteins with as little as a laptop/GPU.   

The first protein design workshop will briefly introduce proteins from a structural perspective, and review available protein related resources.  The second part of the workshop will focus on some of the common computational data structures, clustering and representation methods. At the end of the workshop participants could use a Colab notebook to fold proteins into their predicted structures


Amijai Saragovi - is a protein designer at the Baker Lab. The Institute of Protein Design (IPD), Washington, USA. He holds a PhD in immunobiology from the Hebrew University and a BSc in Economics from the School of Oriental and African Studies, the University of London. As a protein designer he is particularly interested in understanding and developing methods to design protein-inorganic hybrid materials, a technology that he believes could contribute to the development of sustainable electronics and batteries.


17:30 – 17:45 – Meet & Greet
17:45 – 18:05 – The basics - what are proteins and what can they do for us
18:05 – 18:35 – Databases - how to find and retrieve protein data; structure,sequence and other
18:35 – 19:00 – Meet & Eat
19:00 – 19:20 – Data structure and clustering - Organization of protein structural data
19:20 – 19:50 – Representation - representing proteins in Machine-Learning (ML) models
19:50 – 20:30 – Folding proteins - open practice session using google Colab - folding sequence into structures 

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