All meetings are held at Zoom platform over here.
Times of events are in GMT+2 (Warsaw, Paris, Zurich, Cairo, Johannesburg).

Program

    Tuesday 22nd June – Popular science talks in Polish

    • 17:00 - 17.45 Popular science talk (in Polish) „Teoria węzłów w historycznej perspektywie" ("Knot Theory in Historical Perspective") by Józef Przytycki, The George Washington University
    • 17:45 - 18:30 "Knots on the border of physics, chemistry and biology" – discussion (in Polish) by Przytycki, Minor, Cieplak, Niemyska, Sulkowska

    Wednesday 23rd June – Popular science talks in English + pre-workshop

    • 15:00 - 15:45 Popular science talk: "The world of proteins -- what do we know about them" by Sophie Jackson, Cambridge University
    • 15:45 - 16:15 Discussion (in English)
    • 16:15 - 17:00 coffee break
    • 17:00 - 19:00 Hands on solving problems with installations of Topoly, Knot_pull, Py_lasso, Py_link (by Paweł Rubach)

    Thursday 24th – Workshops day 1

    Knotted proteins – KnotProt + KnotPull

    • 14:00 - 14:30 General introduction to knotted proteins (by Ken Millett)
    • hands on workshop:
    • 14:30 - 15:00 KnotProt Database – how to search data, find similar topologies, etc. (by Joanna Sulkowska/Szymon Niewieczerzal)
    • 15:00 - 15:15 coffee break
    • 15:15 - 15:45 KnotProt Server – how to run your own analysis (by Paweł Rubach/Szymon Niewieczerzał)
    • 15:45 - 16:15 KnotPull – how to install and use the software (by Bartosz Greń)
    • 16:15 - 16:30 coffee break

    Proteins with links – LinkProt

    • 16:30 - 17:00 General introduction to proteins with links (by Przytycki)
    • hands on workshop:
    • 17:00 - 17:30 LinkProt Database and Server – how to search data, find similar topologies, run your own analysis (by Joanna Sulkowska/Szymon Niewieczerzal)
    • 17:30 - 18:00 coffee break

    Lasso proteins – LassoProt + PyLasso

    • 18:00 - 18:20 General introduction – how to detect lassos (by Piotr Sułkowski)
    • 18:20 - 18:40 Examples of interesting lasso proteins (by Ellinor Haglund)
    • 18.40 - 19:00 coffee break
      hands on workshop:
    • 19:00 - 19:20 LassoProt Database – how to search data, find similar topologies, etc. (by Wanda Niemyska)
    • 19:20 - 19:40 LassoProt Server – how to run your own analysis (by Wanda Niemyska)
    • 19:40 - 20:00 PyLasso – how to use the PyMol plugin (by Bartosz Greń)

    Friday 25th – Workshops day 2

    Genus for biomolecules (proteins and RNA)

    • 14:00 - 14:40 General introduction to RNA origami and complexity (by Ebbe Andersen)
      hands on workshop:
    • 14:40 - 15:05 Genus characteristics, complexity, and database (by Piotr Sułkowski/Paweł Rubach)
    • 15:05 - 15:20 coffee break

    Knotted chromosomes – KnotGenome

    • 15:20 - 15:50 General introduction to knotted chromosomes (by Peter Virnau)
      hands on workshop:
    • 15:50 - 16:30 KnotGenome Server – how to run your own analysis and interpret the results (by Wanda Niemyska/Szymon Niewieczerzał)
    • 16:30 - 17:00 coffee break

    Topoly – Python package to study topology of proteins and other (bio)polymers

    • 17:00 - 17:20 General introduction to the package (by Wanda Niemyska/Bartosz Greń/Joanna Sulkowska)
      hands on workshop:
    • 17:20 - 17:35 Technicalities and installation process (by Paweł Rubach)
    • 17:35 - 18:30 Some examples of how to use Topoly I (by Bartosz Greń/Paweł Rubach)
    • 18:30 - 19:00 coffee break
    • 19:00 - 19:30 Some examples how to use Topoly II (by Wanda Niemyska/Paweł Rubach)

    Saturday 26th – workshop for children (on site)

    • 9.30 - 11.00 – Piotr Sułkowski, Bartosz Greń (11+ years)
    • 11.00 - 11.45 – Joanna Sulkowska, Wanda Niemyska (5-10 years)
    Place: Centrum Nowych Technologii, Banacha 2c, Warszawa

 
Interdisciplinary Laboratory of Biological Systems Modelling