Dear all,
the next seminar will take place on Wednesday *(tomorrow!)*, please see
the details below. We look forward to seeing you all!
Title: Semiempirical Quantum Mechanical Scoring in Structure-based
Drug Design
Speaker: Jan Řezáč (UOCHB AVCR)
Date and time: Wednesday 24.4.2024 - 17:20
Location: MFF UK, Malostranské nám. 25, lecture hall S4 (3rd floor)
https://bioinformatics.cuni.cz/seminar/
Best wishes,
Petr Danecek
Dear all,
the next seminar will take place on Wednesday, please see the details
below. We look forward to seeing you all!
Title: From human population variation to ligand binding sites via
SARS-CoV-2
Speaker: Geoff Barton (University of Dundee)
Date and time: Wednesday 17/04/2024 - 17:20
Location: MFF UK, Malostranské nám. 25, lecture hall S4
https://bioinformatics.cuni.cz/seminar/
Best wishes,
Petr Danecek
-------------------------------
*Geoff Barton (University of Dundee)*
*/From human population variation to ligand binding sites via SARS-CoV-2 /*
In this talk I will present an analysis that compares publicly available
variation data for human with variation seen across all available
protein sequences regardless of species. The analysis confirms patterns
of variation in human are consistent with protein structural features
(e.g. alpha-helix and begta-strand) but highlights structurally and
functionally important sites in around 15,000 human protein domains that
are not found by conventional sequence analysis methods. The identified
sites are enriched in disease-associated variants, ligand binding
residues and protein-protein interaction sites.
I will explain the method and illustrate the new analysis with examples
including the Nuclear Receptor Ligand Binding Domains and G-protein
coupled receptors (GPCRs) which are important therapeutic targets.
The study makes heavy use of the popular Jalview (www.jalview.org)
sequence analysis program developed since 1996 in my group, so I will
also give a brief update on Jalview’s new features for exploring nsSNPs
on alignments and three-dimensional structures including predictions by
AlphaFold.
Dear all,
the next seminar will take place on Wednesday, please see the details
below. We look forward to seeing you all!
Title: Computational methods for prosthetic vision: inferring
functional structure of the brain from its spontaneous activity
Speaker: Karolína Korvasová (Charles University, Faculty of Mathematics
and Physics)
Date and time: Wednesday 10/04/2024 - 17:20
Location: MFF UK, Malostranské nám. 25, lecture hall S4
https://bioinformatics.cuni.cz/seminar/
Best wishes,
Petr Danecek
-------------------------------
*
Karolína Korvasová* (Charles University, Faculty of Mathematics and Physics)
*/Computational methods for prosthetic vision: inferring functional
structure of the brain from its spontaneous activity/*
Being able to infer the functional structure of cortical neural networks
from their spontaneous activity would advance our understanding of
neural dynamics and have important applications in the field of visual
prosthetics, as functional properties of neurons in the visual cortex
cannot be measured directly in blind subjects. We designed a method that
estimates the structure of the orientation preference map in the primary
visual cortex. Using this method, we were able to show that functional,
as well as spatial properties of the sites stimulated with a cortical
visual prosthesis in blind humans determine the perceptual outcome. In
this talk I will first introduce some basic concepts of computational
neuroscience and discuss how biological neural networks can be modeled.
Next, I will briefly present a large-scale model of the primary visual
cortex developed in the group of Ján Antolík (MFF UK) that was used to
design the method that infers functional structure from spontaneous
activity. Finally, I will show the results of this method applied to
electrophysiological recordings from the visual cortex of sighted
non-human primates and blind human volunteers.