Wed 01 May 14:30: Sequence-Based Determinants of Aggregation within Protein Condensates
Complex cellular landscapes of proteins include the dense, liquid-like droplet state and the solid-like amyloid state, in addition to the native state. The amyloid state, which is often pathological, can be formed through the deposition pathway from the native state and through the condensation pathway from the droplet state. I present a uniform framework to describe both pathways and identify mutations biasing towards these aggregation mechanisms. The droplet landscape model is a sequence-based, generic approach that simultaneously estimates the probability of droplet formation and the likelihood of state conversion. The method exploits that the interactions driving the droplet state sample disordered binding modes, whereas those governing the amyloid state sample ordered binding modes, which can simultaneously be estimated from sequence without information on the interaction partners. In addition, we predict the multiplicity of binding modes, that a given protein region can sample under different cellular conditions. I will demonstrate the application of the droplet landscape approach to both pathological and functional aggregates, in particular predicting mutations associated with amyotrophic lateral sclerosis and those facilitating muscle lineage development.
References M. Vendruscolo, M Fuxreiter (2022) Protein Condensation Diseases: Therapeutic Opportunities. Nat Commun 13, 5500, doi: 10.1038/s41467-022-32940-7 Hatos A, Tosatto SCE , Vendruscolo M, Fuxreiter M. (2022) FuzDrop on AlphaFold: visualizing the sequence-dependent propensity of liquid-liquid phase separation and aggregation of proteins. Nucleic Acids Res. 50(W1), W337 -44 Gönczi M., Teixeira JMC , Barrera-Vilarmau S., Mediani L. , Antoniani F. , Nagy TM, Fehér K., Ráduly Z., Ambrus V., Tőzsér J., Barta E., Kövér KE., Csernoch L., Carra S. , Fuxreiter M. (2023) Alternatively spliced exon regulates context-dependent MEF2D higher-order assembly during myogenesis Nature Communications 14, 1329. Horvath A, Vendruscolo M, Fuxreiter M. (2022) Sequence-based Prediction of the Cellular Toxicity Associated with Amyloid Aggregation within Protein Condensates Biochemistry 61, 2461-2469.
- Speaker: Professor Monika Fuxreiter, University of Padova
- Wednesday 01 May 2024, 14:30-15:30
- Venue: Unilever Lecture Theatre, Yusuf Hamied Department of Chemistry.
- Series: Theory - Chemistry Research Interest Group; organiser: Lisa Masters.
Wed 01 May 14:00: Ocean, ice, and the spherical cow
“Consider a spherical cow in the vacuum…” – that’s how most physics problems start. A very simplified version of the real world that we can wrap our heads around and find answers using pencil and paper. Numerical models that simulate the components of the climate system are no different: we start simple and build it up as scientific knowledge of the system advances and technology allows us to explore smaller-scale processes. My research focuses on understanding ice-ocean interactions, focusing on the behaviour of icebergs and their impacts in the polar oceans, using said models. Join me as I explain my journey towards drawing a cow that looks less like a balloon and more like a quadruped.
- Speaker: Juliana Marson, University of Manitoba
- Wednesday 01 May 2024, 14:00-15:00
- Venue: BAS Seminar Room 1; https://bas-ac-uk.zoom.us/j/93676773793.
- Series: British Antarctic Survey - Polar Oceans seminar series; organiser: Dr Birgit Rogalla.
Wed 22 May 13:00: Title to be confirmed
Abstract not available
- Speaker: Hannah Dawson, University of Tasmania
- Wednesday 22 May 2024, 13:00-14:00
- Venue: BAS Seminar Room 1; https://bas-ac-uk.zoom.us/j/91268978510.
- Series: British Antarctic Survey - Polar Oceans seminar series; organiser: Dr Birgit Rogalla.
Thu 16 May 12:00: A Mathematician’s Journey into Biology: Collaboration, Creativity & Opportunities
Abstract not available
- Speaker: Professor Rachel Bearon, Professor of Mathematical Biology and Executive Dean of the Faculty of Natural, Mathematical & Engineering Sciences, KCL
- Thursday 16 May 2024, 12:00-13:00
- Venue: Centre for Mathematical Sciences MR2, CMS.
- Series: Rouse Ball Lectures; organiser: Sarah Jefferys.
Wed 01 May 14:00: Ocean, ice, and the spherical cow
“Consider a spherical cow in the vacuum…” – that’s how most physics problems start. A very simplified version of the real world that we can wrap our heads around and find answers using pencil and paper. Numerical models that simulate the components of the climate system are no different: we start simple and build it up as scientific knowledge of the system advances and technology allows us to explore smaller-scale processes. My research focuses on understanding ice-ocean interactions, focusing on the behaviour of icebergs and their impacts in the polar oceans, using said models. Join me as I explain my journey towards drawing a cow that looks less like a balloon and more like a quadruped.
- Speaker: Juliana Marson, University of Manitoba
- Wednesday 01 May 2024, 14:00-15:00
- Venue: BAS Seminar Room 1; zoom.
- Series: British Antarctic Survey - Polar Oceans seminar series; organiser: Dr Birgit Rogalla.
Fri 17 May 14:00: PhD students' talks
Abstract not available
- Speaker: Speakers to be confirmed
- Friday 17 May 2024, 14:00-17:00
- Venue: MR2.
- Series: Fluid Mechanics (DAMTP); organiser: Professor Grae Worster.
Tue 07 May 16:00: TBA
Abstract not available
- Speaker: Jan Gutowski (Surrey)
- Tuesday 07 May 2024, 16:00-17:00
- Venue: CMS, MR9.
- Series: Mathematical Physics Seminar; organiser: Professor Maciej Dunajski.
Tue 14 May 16:00: TBA
Abstract not available
- Speaker: Lionel Mason (Oxford)
- Tuesday 14 May 2024, 16:00-17:00
- Venue: CMS, MR9.
- Series: Mathematical Physics Seminar; organiser: Professor Maciej Dunajski.
Tue 14 May 16:00: TBA
Abstract not available
- Speaker: Lionel Mason (Oxford)
- Tuesday 14 May 2024, 16:00-17:00
- Venue: CMS, MR9.
- Series: Mathematical Physics Seminar; organiser: Professor Maciej Dunajski.
Fri 24 May 16:00: Biomedical Fluid Mechanics: applications in urology and regenerative medicine
In this talk, I will discuss two applications of biomedical fluid mechanics in urology and regenerative medicine, and present new theoretical models developed alongside complementary experimental approaches. Throughout the talk, I will highlight how the derivation and exploitation of reduced models that retain the essential physics, while remaining tractable, can provide mechanistic insights into these biomedical fluid flows, and discuss how the resulting insights can be exploited to drive new healthcare innovations. The first application will show how a detailed understanding of the fluid mechanics associated with medical devices used to treat kidney stones can be exploited to guide innovations in device operation and design with enhanced mass transport properties. The second application in regenerative medicine considers the complex interplay of cells, biomaterials, and bioreactors and microfluidic systems required for tissue growth, repair and regeneration. I will show how insights into the wealth of fluid mechanics challenges encountered in regenerative medicine, including fluid-structure interactions, reactive multiphase flows, and advective transport, can guide the development of new regenerative medicine therapies and protocols.
- Speaker: Sarah Waters, University of Oxford
- Friday 24 May 2024, 16:00-17:00
- Venue: MR2.
- Series: Fluid Mechanics (DAMTP); organiser: Professor Grae Worster.
Tue 06 Aug 09:00: Degenerate systems of three Brownian particles with asymmetric collisions: invariant measure of gaps and differential properties SSDW02 - Stochastic reflection
We consider a degenerate system of three Brownian particles which collide asymmetrically. We study the gap process of this system and we focus on its invariant measure. The gap process is an obliquely reflected degenerate Brownian motion in a quadrant. We fully characterise the cases where the Laplace transform of the invariant measure is rational, algebraic, differentially finite or differentially algebraic. In all these cases, we determine an explicit formula for the invariant measure in terms of a Theta-like function to which we apply a (sometimes fractional) differential operator. To show our main results we start from a kernel functional equation characterizing the Laplace transform of the invariant measure. By an analytic continuation of the Laplace transform and a uniformization of the Riemann surface generated by the kernel, we establish a finite difference equation satisfied by the Laplace transform. Then, using what we call decoupling functions, we apply Tutte’s invariant approach to solve this equation via conformal gluing functions. Difference Galois theory allows us to find necessary and sufficient conditions for the Laplace transform to belong to the hierarchy of functions mentioned above. By taking the inverse Laplace transform, the invariant measure is then computed. This presentation is based on joint work with T. Ichiba, I. Karatzas, and K. Raschel and an upcoming work with T. Dreyfus and J. Flin.
SSDW02 - Stochastic reflection
- Speaker: Sandro Franceschi (Institut polytechnique de Paris)
- Tuesday 06 August 2024, 09:00-10:00
- Venue: External.
- Series: Isaac Newton Institute Seminar Series; organiser: nobody.
Tue 07 May 14:00: Two new results on random matrices
In this talk we will discuss two results on symmetric random matrices. The first deals with a cross-over regime for the largest eigenvalue: when matrix tails are at a transition point from Tracy-Widom to Poisson law for the top eigenvalue, we can uncover a new deformed Poisson point process structure and eigenvector localization beyond spectral edge. This applies to Wigner, Wishart and other ensembles. In the second part the author discusses joint small ball estimates on multiple smallest singular values at different locations in the spectrum, under a natural entry density assumption, highlighting a quantitative version of independence.
- Speaker: Yi Han (Statslab)
- Tuesday 07 May 2024, 14:00-15:00
- Venue: MR12.
- Series: Probability; organiser: Perla Sousi.
Wed 24 Apr 14:15: Porphyrins In Discrete Metal-Mediated Assemblies
Given the fundamental role of (metallo)porphyrins in various natural processes, integration of these functional units into artificial ensembles is an enduring task for supramolecular chemists.1a,b In this wide context, the metal-mediated assembling approach has afforded a variety of spectacular 3D discrete arrays of porphyrins with new functions, ranging from molecular recognition to (photo)catalysis.1c Over the years we also have employed (metallo)porphyrins and coordination compounds for the obtainment of discrete multi-component systems, mostly for artificial photosynthesis purposes.2 More recently, we expanded our interests towards two main directions: i. preparation and photophysical investigation of metalloporphyrins as photosensitizers/catalysts for H2 generation3a or as photoactive units to model Proton Coupled Electron Transfer processes;3b,c ii. possible strategies for the obtainment of heretoleptic porphyrin metallacycles.4 An excursion on the most fascinating past and recent examples will be presented. References 1. a) C.M. Drain, A. Varotto, I. Radivojevic, Chem. Rev. 2009, 109, 1630; b) S. Durot, J. Taesch, V. Heitz, Chem. Rev. 2014, 114, 8542; c) E.G. Percástegui, V. Jancik, Coord. Chem. Rev. 2020, 407, 213165. 2. a) M. Marchini, A. Luisa, G. Bergamini, N. Armaroli, B. Ventura, M. Baroncini, N. Demitri, E. Iengo, P. Ceroni, Chem. Eur. J. 2021, 27, 1625; b) A. Amati, G. Cecot, I. Regeni, E. Giraldi, N. Demitri, K. Severin, E. Iengo, manuscript in preparation. 3. a) refs in: K. Ladomenou, M. Natali, E. Iengo, G. Charalampidis, F. Scandola, A. G. Coutsolelos, Coord. Chem. Rev. 2015, 304-305, 38; b) M. Natali, A. Amati, N. Demitri, E. Iengo, Chem. Commun. 2018, 54, 6148; c) M. Natali, A. Amati, N. Demitri, E. Iengo, Chem. Eur. J. 2021, 27, 7872. 4. a) A. Vidal, F. Battistin, G. Balducci, E. Iengo, E. Alessio, Inorg. Chem. 2021, 60, 11503; b) A. Vidal, D. Rossato, E. Iengo, G. Balducci, E. Alessio, Chem. Eur. J. 2023, doi.org/10.1002/chem.202300893; c) S. Simonato, C. Mucignato, G. Fogar, E. Zangrando, G. Balducci, E. Iengo, unpublished results.
- Speaker: Professor Elisabetta Iengo
- Wednesday 24 April 2024, 14:15-15:15
- Venue: Dept. of Chemistry, Pfizer Lecture Theater.
- Series: Materials Chemistry Research Interest Group; organiser: Sharon Connor.
Fri 03 May 16:00: The scaling of the drag force on an accelerating plate
The drag force on an accelerating object is usually described by a quasi-steady force that scales with the square of the instantaneous velocity and an added mass force due to the acceleration that scales directly proportional to the acceleration. This appears to underestimate the experimentally observed instantaneous drag force on an accelerating plate. We aim to find a better description of the drag force on a flat plate in an unsteady flow by measuring both the drag force and velocity field for a large range of constant accelerations and velocities. Our experiments show that the force due to acceleration scales with the square root of the acceleration, contrary to a linear scaling that is expected from added mass. This can be associated with a history force that describes the generation and advection of vorticity at the plate surface. We present a new scaling law for the drag force on accelerating plates. This avoids previous inconsistencies in using added mass forces in the description of forces on accelerating plates. This new scaling law has proven useful in predicting the drag force for different plate geometries and non-constant accelerations.
- Speaker: Jerry Westerweel, TU Delft
- Friday 03 May 2024, 16:00-17:00
- Venue: MR2.
- Series: Fluid Mechanics (DAMTP); organiser: Professor Grae Worster.
Mon 20 May 09:45: Director's and Organiser's Welcome ADIW03 - Climate Applications of Layering
ADIW03 - Climate Applications of Layering
- Speaker: Milla Kibble (Isaac Newton Institute)
- Monday 20 May 2024, 09:45-10:00
- Venue: No Room Required.
- Series: Isaac Newton Institute Seminar Series; organiser: nobody.
Wed 01 May 16:00: Generalized homology and symplectic cohomology
Symplectic cohomology is a powerful invariant associated to (exact) symplectic manifolds, and it is useful in dynamics, mirror symmetry, and so on. Unfortunately, it is not very sensitive to the homotopy type of the underlying manifold: it can vanish for symplectic manifolds with arbitrarily complicated topology. It is known that, if one remembers certain structures on it, one can at least recover the rational homology of the manifold; however, the torsion information is lost. In this talk, we show how to recover further information about the homotopy type of the underlying symplectic manifold, including torsion part of its homology, complex K-theory and Morava K-theory from enhanced versions of symplectic cohomology and the structures on it, via a modified Tate construction. This is joint work with Laurent Cote.
- Speaker: Baris Kartal (Edinburgh)
- Wednesday 01 May 2024, 16:00-17:00
- Venue: MR13.
- Series: Differential Geometry and Topology Seminar; organiser: Oscar Randal-Williams.
Mon 29 Apr 14:00: Can a computer judge interestingness? (NOTE UNUSUAL DAY/TIME)
Mathematics is made up of provable interesting statements about numbers, geometry and abstract structures. While proof can be precisely defined, interestingness remains mysterious, a matter of intuition. In this talk we discuss ways to implement interestingness on a computer, both in symbolic and formal terms, and using state of the art AI.
—-
WATCH ONLINE HERE : https://www.microsoft.com/en-gb/microsoft-teams/join-a-meeting?rtc=1 Meeting ID: 370 771 279 261 Passcode: iCo7a5
(NOTE UNUSUAL DAY/TIME)
- Speaker: Michael Douglas (Center of Mathematical Sciences and Applications, Harvard University)
- Monday 29 April 2024, 14:00-15:00
- Venue: MR15 Centre for Mathematical Sciences.
- Series: Formalisation of mathematics with interactive theorem provers ; organiser: Anand Rao Tadipatri.
Wed 29 May 16:30: TBA
TBA
- Speaker: Nicolas Dupré, University of Duisburg-Essen
- Wednesday 29 May 2024, 16:30-17:30
- Venue: MR12.
- Series: Algebra and Representation Theory Seminar; organiser: Adam Jones.
Wed 22 May 16:30: TBA
TBA
- Speaker: Amy Zhu, University of Cambridge
- Wednesday 22 May 2024, 16:30-17:30
- Venue: MR12.
- Series: Algebra and Representation Theory Seminar; organiser: Adam Jones.
Wed 15 May 16:30: TBA
TBA
- Speaker: Kostas Karagiannis, University of Manchester
- Wednesday 15 May 2024, 16:30-17:30
- Venue: MR12.
- Series: Algebra and Representation Theory Seminar; organiser: Adam Jones.