IST Austria: PubRep (Institute of Science and Technology)
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Mesh simplification for unfolding
No full textWe present a computational approach for unfolding 3D shapes isometrically into the plane as a single patch without overlapping triangles. This is a hard, sometimes impossible, problem, which existing methods are forced to soften by allowing for map distortions or multiple patches. Instead, we propose a geometric relaxation of the problem: We modify the input shape until it admits an overlap‐free unfolding. We achieve this by locally displacing vertices and collapsing edges, guided by the unfolding process. We validate our algorithm quantitatively and qualitatively on a large dataset of complex shapes and show its proficiency by fabricating real shapes from paper
Information limits and Thouless-Anderson-Palmer equations for spiked matrix models with structured noise
No full textWe consider a prototypical problem of Bayesian inference for a structured spiked model: a low-rank signal is corrupted by additive noise. While both information-theoretic and algorithmic limits are well understood when the noise is a Gaussian Wigner matrix, the more realistic case of structured noise still remains challenging. To capture the structure while maintaining mathematical tractability, a line of work has focused on rotationally invariant noise. However, existing studies either provide suboptimal algorithms or are limited to a special class of noise ensembles. In this paper, using tools from statistical physics (replica method) and random matrix theory (generalized spherical integrals) we establish the characterization of the information-theoretic limits for a noise matrix drawn from a general trace ensemble. Remarkably, our analysis unveils the asymptotic equivalence between the rotationally invariant model and a surrogate Gaussian one. Finally, we show how to saturate the predicted statistical limits using an efficient algorithm inspired by the theory of adaptive Thouless-Anderson-Palmer (TAP) equations
The ALPINE-ALMA [CII] survey: Unveiling the baryon evolution in the interstellar medium of z ∼ 5 star-forming galaxies
No full textContext. Recent observations suggest a significant and rapid buildup of dust in galaxies at high redshift (z > 4); this presents new challenges to our understanding of galaxy formation in the early Universe. Although our understanding of the physics of dust production and destruction in a galaxy’s interstellar medium (ISM) is improving, investigating the baryonic processes in the early universe remains a complex task owing to the inherent degeneracies in cosmological simulations and chemical evolution models.
Aims. In this work we characterized the evolution of 98 z ∼ 5 star-forming galaxies observed as part of the ALMA Large Program ALPINE by constraining the physical processes underpinning the gas and dust production, consumption, and destruction in their ISM.
Methods. We made use of chemical evolution models to simultaneously reproduce the observed dust and gas content of our galaxies, obtained respectively from spectral energy distribution (SED) fitting and ionized carbon measurements. For each galaxy we constrained the initial gas mass, gas inflows and outflows, and efficiencies of dust growth and destruction. We tested these models with both the canonical Chabrier and a top-heavy initial mass function (IMF); the latter allowed rapid dust production on shorter timescales.
Results. We successfully reproduced the gas and dust content in most of the older galaxies (≳600 Myr) regardless of the assumed IMF, predicting dust production primarily through Type II supernovae (SNe) and no dust growth in the ISM, as well as moderate inflow of primordial gas. In the case of intermediate-age galaxies (300−600 Myr), we reproduced the gas and dust content through Type II SNe and dust growth in ISM, though we observed an overprediction of dust mass in older galaxies, potentially indicating an unaccounted dust destruction mechanism and/or an overestimation of the observed dust masses. The number of young galaxies (≲300 Myr) reproduced, increases for models assuming top-heavy IMF but with maximal prescriptions of dust production. Galactic outflows are required (up to a mass-loading factor of 2) to reproduce the observed gas and dust mass, and to recover the decreasing trend of gas and dust over stellar mass with age. Assuming the Chabrier IMF, models are able to reproduce ∼65% of the total sample, while with top-heavy IMF the fraction increases to ∼93%, alleviating the tension between the observations and the models. Observations from the James Webb Space Telescope (JWST) will allow us to remove degeneracies in the diverse intrinsic properties of these galaxies (e.g., star formation histories and metallicity), thereby refining our models
Quantum rotor in a two-dimensional mesoscopic Bose gas
No full textWe investigate a molecular quantum rotor in a two-dimensional Bose-Einstein condensate. The focus is on studying the angulon quasiparticle concept in the crossover from few- to many-body physics. To this end, we formulate the problem in real space and solve it with a mean-field approach in the frame co-rotating with the impurity. We show that the system starts to feature angulon characteristics when the size of the bosonic cloud is large enough to screen the rotor. More importantly, we demonstrate the departure from the angulon picture for large system sizes or large angular momenta where the properties of the system are determined by collective excitations of the Bose gas
Mechanochemical bistability of intestinal organoids enables robust morphogenesis
No full textReproducible pattern and form generation during embryogenesis is poorly understood. Intestinal organoid morphogenesis involves a number of mechanochemical regulators such as cell-type-specific cytoskeletal forces and osmotically driven lumen volume changes. It is unclear how these forces are coordinated in time and space to ensure robust morphogenesis. Here we show how mechanosensitive feedback on cytoskeletal tension gives rise to morphological bistability in a minimal model of organoid morphogenesis. In the model, lumen volume changes can impact the epithelial shape via both direct mechanical and indirect mechanosensitive mechanisms. We find that both bulged and budded crypt states are possible and dependent on the history of volume changes. We test key modelling assumptions via biophysical and pharmacological experiments to demonstrate how bistability can explain experimental observations, such as the importance of the timing of lumen shrinkage and robustness of the final morphogenetic state to mechanical perturbations. This suggests that bistability arising from feedback between cellular tensions and fluid pressure could be a general mechanism that coordinates multicellular shape changes in developing systems
ISTA Thesis
No full textPlant growth and development rely significantly on phytohormones, with auxin serving as a master regulator, orchestrating processes from embryogenesis to organogenesis, vascular patterning, and environmental adaptation. Since its conceptual proposition by Charles Darwin in 1880 as an endogenous chemical signal influencing phototropism in grass, auxin has captivated scientists seeking to understand how such a small molecule exerts a profound influence on plant development.
One particularly fascinating aspect of auxin function is its ability to self-organize its transport. Through a feedback mechanism between auxin perception and directional transport—primarily mediated by PIN auxin transporters—auxin establishes narrow transport channels. This phenomenon, known as auxin canalization, is fundamental to vascular formation, regeneration, and other key developmental processes. Despite advances in our understanding, driven by experimental studies and computational models, auxin canalization remains an enigma, with many unanswered questions.
Like other hormones, auxin functions through intricate signaling pathways. It operates through at least two distinct signaling mechanisms: the well-characterized canonical pathway and the less understood non-canonical pathway. While significant progress has been made in elucidating the canonical pathway, the non-canonical mechanisms remain less defined and require further investigation.
In this study, we revisit the non-canonical auxin signaling pathway mediated by the cell-surface complex Auxin Binding Protein 1-Transmembrane Kinase 1 (ABP1-TMK1), with a particular focus on its downstream phosphorylation events. We reveal that this auxin-mediated phosphorylation is conserved across the green lineage, underscoring its fundamental role in plant development. We explore key phosphorylation targets, particularly PIN2, which is essential for root gravitropism. To further understand TMK1’s role in diverse developmental processes, we identified and investigated its interactors as potential co-receptors or regulatory components within its signaling network.
Given the previously established role of ABP1-TMK1 in auxin canalization, we sought to further investigate this process and identified several TMK1 interactors also involved in this intricate mechanism.
These findings provide new insights into the complex regulation of auxin canalization, highlighting a broader and more interconnected signaling framework than previously understood
ABP1/ABL3-TMK1 cell-surface auxin signaling directly targets PIN2-mediated auxin fluxes for root gravitropism
No full textPhytohormone auxin and its directional transport mediate much of the remarkably plastic development of higher plants. Positive feedback between auxin signaling and transport is a key prerequisite for (i) self-organizing processes including vascular tissue formation and (ii) directional growth responses such as gravitropism. Here we identify a mechanism, by which auxin signaling directly targets PIN auxin transporters. Via the cell-surface ABP1-TMK1 receptor module, auxin rapidly induces phosphorylation and thus stabilization of PIN2. Following gravistimulation, initial auxin asymmetry activates autophosphorylation of the TMK1 kinase. This induces TMK1 interaction with and phosphorylation of PIN2, stabilizing PIN2 at the lower root side, thus reinforcing asymmetric auxin flow for root bending. Upstream of TMK1 in this regulation, ABP1 acts redundantly with the root-expressed ABP1-LIKE auxin receptor ABL3. Such positive feedback between cell-surface auxin signaling and PIN-mediated polar auxin transport is fundamental for robust root gravitropism and presumably also for other self-organizing developmental phenomena
Sibson α-mutual information and its variational representations
No full textInformation measures can be constructed from Rényi divergences much like mutual information from Kullback-Leibler divergence. One such information measure is known as Sibson α-mutual information and has received renewed attention recently in several contexts: concentration of measure under dependence, statistical learning, hypothesis testing, and estimation theory. In this paper, we survey and extend the state of the art. In particular, we introduce variational representations for Sibson α-mutual information and employ them in each described context to derive novel results. Namely, we produce generalized Transportation-Cost inequalities and Fano-type inequalities. We also present an overview of known applications, spanning from learning theory and Bayesian risk to universal prediction
LNCS
No full textWe present the first supermartingale certificate for quantitative
-regular properties of discrete-time infinite-state stochastic systems. Our certificate is defined on the product of the stochastic system and a limit-deterministic Büchi automaton that specifies the property of interest; hence we call it a limit-deterministic Büchi supermartingale (LDBSM). Previously known supermartingale certificates applied only to quantitative reachability, safety, or reach-avoid properties, and to qualitative (i.e., probability 1)
-regular properties.We also present fully automated algorithms for the template-based synthesis of LDBSMs, for the case when the stochastic system dynamics and the controller can be represented in terms of polynomial inequalities. Our experiments demonstrate the ability of our method to solve verification and control tasks for stochastic systems that were beyond the reach of previous supermartingale-based approaches