@inproceedings{20303, abstract = {Observational genome-wide association studies are now widely used for causal inference in genetic epidemiology. To maintain privacy, such data is often only publicly available as summary statistics, and often studies for the endogenous covariates and the outcome are available separately. This has necessitated methods tailored to two-sample summary statistics. Current state-of-the-art methods modify linear instrumental variable (IV) regression---with genetic variants as instruments---to account for unmeasured confounding. However, since the endogenous covariates can be high dimensional, standard IV assumptions are generally insufficient to identify all causal effects simultaneously. We ensure identifiability by assuming the causal effects are sparse and propose a sparse causal effect two-sample IV estimator, spaceTSIV, adapting the spaceIV estimator by Pfister and Peters (2022) for two-sample summary statistics. We provide two methods, based on L0- and L1-penalization, respectively. We prove identifiability of the sparse causal effects in the two-sample setting and consistency of spaceTSIV. The performance of spaceTSIV is compared with existing two-sample IV methods in simulations. Finally, we showcase our methods using real proteomic and gene-expression data for drug-target discovery.}, author = {Huang, Shimeng and Pfister, Niklas and Bowden, Jack}, booktitle = {The 28th International Conference on Artificial Intelligence and Statistics}, issn = {2640-3498}, location = {Mai Khao, Thailand}, pages = {3394--3402}, publisher = {ML Research Press}, title = {{Sparse causal effect estimation using two-sample summary statistics in the presence of unmeasured confounding}}, volume = {258}, year = {2025}, } @article{20318, abstract = {Lipid membranes and membrane deformations are a long-standing area of research in soft matter and biophysics. Computer simulations have complemented analytical and experimental approaches as one of the pillars in the field. However, setting up and using membrane simulations can come with barriers due to the multidisciplinary effort involved and the vast choice of existing simulations models. In this review, we introduce the non-expert reader to coarse-grained membrane simulations at the mesoscale. Firstly, we give a concise overview of the modelling approaches to study fluid membranes, together with guidance to more specialized references. Secondly, we provide a conceptual guide on how to develop mesoscale membrane simulations. Lastly, we construct a hands-on tutorial on how to apply mesoscale membrane simulations, by providing a pedagogical examination of membrane tether pulling, shape and mechanics of membrane tubes, and membrane fluctuations with three different membrane models, and discussing them in terms of their scope and how resource-intensive they are. To ease the reader's venture into the field, we provide a repository with ready-to-run tutorials.}, author = {Muñoz Basagoiti, Maitane and Frey, Felix F and Meadowcroft, Billie and Santana de Freitas Amaral, Miguel and Prada, Adam and Šarić, Anđela}, issn = {1744-6848}, journal = {Soft Matter}, number = {40}, pages = {7736--7756}, publisher = {Royal Society of Chemistry}, title = {{A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling, tubulation and fluctuations}}, doi = {10.1039/d5sm00148j}, volume = {21}, year = {2025}, } @article{20319, abstract = {The time needed by deep convection to bring the atmosphere back to equilibrium is called convective adjustment timescale or simply adjustment timescale, typically denoted by . In the Community Atmospheric Model|Community Atmosphere Model (CAM), is the convective available potential energy (CAPE) relaxation timescale and is 1 hr, worldwide. Observational evidence suggests that is generally longer than 1 hr. Further, continental and oceanic convection are different in terms of the vigor of updrafts and can have different longevities. So using hour worldwide in CAM has two potential caveats. A longer improves the simulation of the mean climate. However, it does not address the land‐ocean heterogeneity of atmospheric deep convection. We investigate the prescription of two different CAPE relaxation timescales for land ( hr) and ocean ( to 4 hr). It is arguably an extremely crude parameterization of boundary layer control on atmospheric convection. We contrast a suite of 5‐year‐long simulations with two different for land and ocean to having one globally. The choice of longer over ocean is guided by previous studies and inspired by observational pieces of evidence. Nonetheless, to complement our variable experiments, we perform a simulation with  hr and  hrs. Most importantly, our key findings are immune to the exact values of prescribed and . The CAM model, with two values , improves convective‐stratiform rainfall partitioning and the Madden–Julian oscillation propagation characteristics.}, author = {GOSWAMI, BIDYUT B and Polesello, Andrea and Muller, Caroline J}, issn = {1942-2466}, journal = {Journal of Advances in Modeling Earth Systems}, number = {9}, publisher = {Wiley}, title = {{An assessment of representing land‐ocean heterogeneity via CAPE relaxation timescale in the Community Atmospheric Model 6 (CAM6)}}, doi = {10.1029/2025ms005035}, volume = {17}, year = {2025}, } @article{20320, abstract = {The pseudoforest version of the Strong Nine Dragon Tree Conjecture states that if a graph G has maximum average degree mad(G) = 2 maxH⊆G e(H)/v(H) at most 2(k + d/d+k+1), then it has a decomposition into k + 1 pseudoforests where in one pseudoforest F the components of F have at most d edges. This was proven in 2020 in Grout and Moore (2020). We strengthen this theorem by showing that we can find such a decomposition where additionally F is acyclic, the diameter of the components of F is at most 2ℓ + 2, where ℓ =⌊d−1/k+1⌋, and at most 2ℓ + 1 if d ≡ 1 mod (k + 1). Furthermore, for any component K of F and any z ∈ N, we have diam(K) ≤ 2z if e(K) ≥ d − z(k − 1) + 1. We also show that both diameter bounds are best possible as an extension for both the Strong Nine Dragon Tree Conjecture for pseudoforests and its original conjecture for forests. In fact, they are still optimal even if we only enforce F to have any constant maximum degree, instead of enforcing every component of F to have at most d edges.}, author = {Mies, Sebastian and Moore, Benjamin and Smith-Roberge, Evelyne}, issn = {0195-6698}, journal = {European Journal of Combinatorics}, number = {12}, publisher = {Elsevier}, title = {{Beyond the pseudoforest strong Nine Dragon Tree theorem}}, doi = {10.1016/j.ejc.2025.104214}, volume = {130}, year = {2025}, } @article{20321, abstract = {Microsecond-to-millisecond motions are instrumental for many biomolecular functions, including enzymatic activity and ligand binding. Bloch-McConnell Relaxation Dispersion (BMRD) Nuclear Magnetic Resonance (NMR) spectroscopy is a key technique for studying these dynamic processes. While BMRD experiments are routinely used to probe protein motions in solution, the experiment is more demanding in the solid state, where dipolar couplings complicate the spin dynamics. It is believed that high deuteration levels are required and sufficient to obtain accurate and quantitative data. Here we show that even under fast magic-angle spinning and high levels of deuteration artifactual “bumps” in 15N R1ρ BMRD profiles are common. The origin of these artifacts is identified as a second-order three-spin Mixed Rotational and Rotary Resonance (MIRROR) recoupling condition. These artifacts are found to be a significant confounding factor for the accurate quantification of microsecond protein dynamics using BMRD in the solid state. We show that the application of low-power continuous wave (CW) decoupling simultaneously with the 15N spin-lock leads to the suppression of these conditions and enables quantitative measurements of microsecond exchange in the solid state. Remarkably, the application of decoupling allows the measurement of accurate BMRD even in fully protonated proteins at 100 kHz MAS, thus extending the scope of μs dynamics measurements in MAS NMR.}, author = {Tatman, Benjamin and Sridharan, Vidhyalakshmi and Uttarkabat, Motilal and Jaroniec, Christopher P. and Ernst, Matthias and Rovo, Petra and Schanda, Paul}, issn = {1520-5126}, journal = {Journal of the American Chemical Society}, number = {32}, pages = {29315--29326}, publisher = {American Chemical Society}, title = {{Bumps on the road: The way to clean relaxation dispersion magic-angle spinning NMR}}, doi = {10.1021/jacs.5c09057}, volume = {147}, year = {2025}, } @article{20323, abstract = {We establish several results combining discrete Morse theory and microlocal sheaf theory in the setting of finite posets and simplicial complexes. Our primary tool is a computationally tractable description of the bounded derived category of sheaves on a poset with the Alexandrov topology. We prove that each bounded complex of sheaves on a finite poset admits a unique (up to isomorphism of complexes) minimal injective resolution, and we provide algorithms for computing minimal injective resolution of an injective complex, as well as several useful functors between derived categories of sheaves. For the constant sheaf on a simplicial complex, we give asymptotically tight bounds on the complexity of computing the minimal injective resolution using those algorithms. Our main result is a novel definition of the discrete microsupport of a bounded complex of sheaves on a finite poset. We detail several foundational properties of the discrete microsupport, as well as a microlocal generalization of the discrete homological Morse theorem and Morse inequalities.}, author = {Brown, Adam and Draganov, Ondrej}, issn = {0022-4049}, journal = {Journal of Pure and Applied Algebra}, number = {10}, publisher = {Elsevier}, title = {{Discrete microlocal Morse theory}}, doi = {10.1016/j.jpaa.2025.108068}, volume = {229}, year = {2025}, } @article{20324, abstract = {We report relaxation oscillations in a one-dimensional array of Josephson junctions, wherein the array dynamically switches between low-current and high-current states. The oscillations are current-voltage dual to those ordinarily observed in single junctions. The current-voltage dual circuit quantitatively accounts for temporal dynamics of the array, including the dependence on biasing conditions. Injection locking of the oscillations results in well-developed current plateaux. A thermal model explains the self-consistent reduction of the superconducting gap due to overheating of the array in the high-current state. Our work suggests that overheating determines the switching from the high-current state to the low-current state.}, author = {Mukhopadhyay, Soham and Lancheros Naranjo, Diego A and Senior, Jorden L and Higginbotham, Andrew P}, issn = {2331-7019}, journal = {Physical Review Applied}, publisher = {American Physical Society}, title = {{Dual relaxation oscillations in a Josephson-junction array}}, doi = {10.1103/qvls-7s3q}, volume = {24}, year = {2025}, } @article{20325, abstract = {Inferring genealogical relationships of wild populations is useful because it gives direct estimates of mating patterns and variance in reproductive success. Inference can be improved by including information about parentage shared between siblings, or by modelling phenotypes or population data related to mating. However, we currently lack a framework to infer parent–offspring relationships, sibships and population parameters in a single analysis. To address this, we here extend a previous method, Fractional Analysis of Paternity and Sibships, to include population data for the case where one parent is known. We illustrate this with the example of pollen dispersal in a natural hybrid zone population of the snapdragon Antirrhinum majus. Pollen dispersal is leptokurtic, with half of mating events occurring within 30 m, but with a long tail of mating events up to 859 m. Using simulations, we find that both sibship and population information substantially improve pedigree reconstruction, and that we can expect to resolve median dispersal distances with high accuracy.}, author = {Ellis, Thomas and Field, David and Barton, Nicholas H}, issn = {1365-294X}, journal = {Molecular Ecology}, number = {15}, publisher = {Wiley}, title = {{Joint estimation of paternity, sibships and pollen dispersal in a snapdragon hybrid zone}}, doi = {10.1111/mec.70051}, volume = {34}, year = {2025}, } @article{20327, abstract = {Confinement is a prominent phenomenon in condensed-matter and high-energy physics that has recently become the focus of quantum-simulation experiments of lattice gauge theories (LGTs). As such, a theoretical understanding of the effect of confinement on LGT dynamics is not only of fundamental importance but also can lend itself to upcoming experiments. Here we show how confinement in a Z2 LGT can be avoided by proximity to a resonance between the fermion mass and the electric field strength. Furthermore, we show that this local deconfinement can become global for certain initial conditions, where information transport occurs over the entire chain. In addition, we show how this can lead to strong quantum many-body scarring starting in different initial states. Our findings provide deeper insights into the nature of confinement in Z2 LGTs and can be tested on current and near-term quantum devices.}, author = {Desaules, Jean-Yves Marc and Iadecola, Thomas and Halimeh, Jad C.}, issn = {2469-9969}, journal = {Physical Review B}, number = {1}, publisher = {American Physical Society}, title = {{Mass-assisted local deconfinement in a confined Z2 lattice gauge theory}}, doi = {10.1103/mfg2-t6gb}, volume = {112}, year = {2025}, } @article{20329, abstract = {Nanocrystals (NCs) of various compositions have made important contributions to science and technology, with their impact recognized by the 2023 Nobel Prize in Chemistry for the discovery and synthesis of semiconductor quantum dots (QDs). Over four decades of research into NCs has led to numerous advancements in diverse fields, such as optoelectronics, catalysis, energy, medicine, and recently, quantum information and computing. The last 10 years since the predecessor perspective “Prospect of Nanoscience with Nanocrystals” was published in ACS Nano have seen NC research continuously evolve, yielding critical advances in fundamental understanding and practical applications. Mechanistic insights into NC formation have translated into precision control over NC size, shape, and composition. Emerging synthesis techniques have broadened the landscape of compounds obtainable in colloidal NC form. Sophistication in surface chemistry, jointly bolstered by theoretical models and experimental findings, has facilitated refined control over NC properties and represents a trusted gateway to enhanced NC stability and processability. The assembly of NCs into superlattices, along with two-dimensional (2D) photolithography and three-dimensional (3D) printing, has expanded their utility in creating materials with tailored properties. Applications of NCs are also flourishing, consolidating progress in fields targeted early on, such as optoelectronics and catalysis, and extending into areas ranging from quantum technology to phase-change memories. In this perspective, we review the extensive progress in research on NCs over the past decade and highlight key areas where future research may bring further breakthroughs.}, author = {Ibáñez, Maria and Boehme, Simon C. and Buonsanti, Raffaella and De Roo, Jonathan and Milliron, Delia J. and Ithurria, Sandrine and Rogach, Andrey L. and Cabot, Andreu and Yarema, Maksym and Cossairt, Brandi M. and Reiss, Peter and Talapin, Dmitri V. and Protesescu, Loredana and Hens, Zeger and Infante, Ivan and Bodnarchuk, Maryna I. and Ye, Xingchen and Wang, Yuanyuan and Zhang, Hao and Lhuillier, Emmanuel and Klimov, Victor I. and Utzat, Hendrik and Rainò, Gabriele and Kagan, Cherie R. and Cargnello, Matteo and Son, Jae Sung and Kovalenko, Maksym V.}, issn = {1936-086X}, journal = {ACS Nano}, number = {36}, pages = { 31969–32051}, publisher = {American Chemical Society}, title = {{Prospects of nanoscience with nanocrystals: 2025 edition}}, doi = {10.1021/acsnano.5c07838}, volume = {19}, year = {2025}, } @article{20330, abstract = {The evolution of sexual dimorphism (the difference in average trait values between females and males, SD), is often thought to be constrained by shared genetic architecture between the sexes. Indeed, it is commonly expected that SD should negatively correlate with the intersex correlation (the genetic correlation between effects of segregating variants in females and males, r fm), either because (1) traits with ancestrally low r fm are less constrained in their ability to respond to sex-specific selection and thus evolve to be more dimorphic, or because (2) sex-specific selection, driving sexual dimorphism evolution, also acts to reduce r fm. Despite the intuitive appeal and prominence of these ideas, their generality and the conditions in which they hold remain unclear. Here, we develop models incorporating sex-specific stabilizing selection, mutation and genetic drift to examine the relationship between r fm and SD. We show that the two commonly-discussed mechanisms with the potential to generate a negative correlation between SD and r fm could just as easily generate a positive association, since the standard line of reasoning hinges on a hidden assumption that sex-specific adaptation more frequently favors increased dimorphism than reduced dimorphism. Our results provide, to our knowledge, the first mechanistic framework for understanding the conditions under which a correlation between r fm and SD may arise and offer a compelling explanation for inconsistent empirical evidence. We also make the intriguing observation that—even when selection between the two sexes is identical—drift generates nonzero SD. We quantify this effect and discuss its significance.}, author = {Puixeu Sala, Gemma and Hayward, Laura}, issn = {1943-2631}, journal = {Genetics}, number = {3}, publisher = {Oxford University Press}, title = {{The relationship between sexual dimorphism and intersex correlation: Do models support intuition?}}, doi = {10.1093/genetics/iyaf175}, volume = {231}, year = {2025}, } @article{20331, abstract = {Here, we present a foundational investigation of charge transport through three BODIPY-based molecules using the scanning tunneling microscope–break junction (STM-BJ) technique. We demonstrate that molecular conductance through the BODIPY core can be measured by introducing aurophilic linkers at the 2,6-positions. By varying these linkers, we systematically modulate the frontier molecular orbital energies and fine-tune transport behavior. Our experimental results are supported by DFT-based calculations, which feature a new computationally efficient correction to standard PBE-level transmission predictions. Together, these findings establish the viability of BODIPY-based systems for molecular junction applications and lay the groundwork for future studies of their single-molecule optoelectronic properties.}, author = {York, Emma and Stone, Ilana and Shi, Wanzhuo and Roy, Xavier and Venkataraman, Latha}, issn = {1530-6992}, journal = {Nano Letters}, number = {36}, pages = {13697--13702}, publisher = {American Chemical Society}, title = {{Tuning conductance in BODIPY-based single-molecule junctions}}, doi = {10.1021/acs.nanolett.5c03764}, volume = {25}, year = {2025}, } @article{20349, abstract = {Oogenesis – the formation and development of an oocyte – is fundamental to reproduction and embryonic development. Due to its accessibility to genetic manipulations and the ability to culture and experimentally manipulate oocytes ex vivo, zebrafish has emerged as a powerful vertebrate model system for studying oogenesis. In this review, we provide a comprehensive overview of zebrafish oogenesis, from early germ cell formation to oocyte maturation and fertilization. We discuss recent advances in uncovering the molecular and cellular mechanisms driving this complex process and highlight key knowledge gaps that remain to be addressed.}, author = {Hofmann, Laura and Heisenberg, Carl-Philipp J}, issn = {1096-3634}, journal = {Seminars in Cell and Developmental Biology}, publisher = {Elsevier}, title = {{Decoding zebrafish oogenesis: From primordial germ cell development to fertilization}}, doi = {10.1016/j.semcdb.2025.103650}, volume = {175}, year = {2025}, } @article{20350, abstract = {Context. Rotation plays an important role in stellar evolution. However, the mechanisms behind the transport of angular momentum in stars at various stages of their evolution are not well understood. To improve our understanding of these processes, it is necessary to measure and validate the internal rotation profiles of stars across different stages of evolution and mass regimes. Aims. Our aim is to constrain the internal rotation profile of the 12-M⊙ β Cep pulsator HD 192575 from the observed pulsational multiplets and the asymmetries of their component frequencies. Methods. We updated the forward asteroseismic modelling of HD 192575 based on new TESS observations. We inverted the rotation profile from the symmetric part of the splittings and computed the multiplet asymmetries due to the Coriolis force and stellar deformation, which we treated perturbatively. We compared the computed asymmetries with the observed asymmetries. Results. Our new forward asteroseismic modelling is in agreement with previous results but with increased uncertainties, partially due to increased frequency precision, which required us to relax certain constraints. Ambiguity in the mode identification is the main source of the uncertainty, which also affects the inferred rotation profiles. Almost all acceptable rotation profiles occur in the regime below 0.4 d−1 and favour weak radial differential rotation, with a ratio of core to envelope rotation of less than 2. We find that the quality of the match between the observed and theoretically predicted mode asymmetries is strongly dependent on the mode identification and the internal structure of the star. Conclusions. Our results offer the first detailed rotation inversion for a β Cep pulsator. They show that the rotation profile and the mode asymmetries provide a valuable tool for further constraining the evolutionary properties of HD 192575, and in particular the details of angular momentum transport in massive stars.}, author = {Vanlaer, V. and Bowman, D. M. and Burssens, S. and Das, Srijan B and Bugnet, Lisa Annabelle and Mathis, S. and Aerts, C.}, issn = {1432-0746}, journal = {Astronomy & Astrophysics}, publisher = {EDP Sciences}, title = {{Interior rotation modelling of the β Cep pulsator HD 192575 including multiplet asymmetries}}, doi = {10.1051/0004-6361/202452885}, volume = {701}, year = {2025}, } @article{20351, abstract = {Rab GTPases organize intracellular trafficking and provide identity to organelles. Their spatiotemporal activation by guanine nucleotide exchange factors (GEFs) is tightly controlled to ensure fidelity. Our structural and functional comparison of the tri-longin domain RabGEFs Mon1-Ccz1 and Fuzzy-Inturned reveals the molecular basis for their target specificity. Both complexes rely on a conserved sequence motif of their substrate GTPases for the catalytic mechanism, while secondary interactions allow discrimination between targets. We also find that dimeric Mon1-Ccz1 from fungi and the metazoan homologs with the additional third subunit RMC1/Bulli bind membranes through electrostatic interactions via distinct interfaces. Protein-lipid interaction studies and functional characterization in flies reveal an essential function of RMC1/Bulli as mediator of GEF complex membrane recruitment. In the case of Fuzzy-Inturned, reconstitution experiments demonstrate that the BAR (Bin-Amphiphysin-Rvs) domain protein CiBAR1 can support membrane recruitment of the GEF. Collectively, our study demonstrates the molecular basis for the adaptation of TLD-RabGEFs to different cellular functions.}, author = {Wilmes, Stephan and Tönjes, Jesse and Drechsler, Maik and Ruf, Anita and Schäfer, Jan Hannes and Lürick, Anna and Januliene, Dovile and Apelt, Steven and Di Iorio, Daniele and Wegner, Seraphine V. and Loose, Martin and Moeller, Arne and Paululat, Achim and Kümmel, Daniel}, issn = {2375-2548}, journal = {Science Advances}, number = {35}, pages = {eadx2893}, publisher = {AAAS}, title = {{Mechanistic adaptation of the metazoan RabGEFs Mon1-Ccz1 and Fuzzy-Inturned}}, doi = {10.1126/sciadv.adx2893}, volume = {11}, year = {2025}, } @article{20352, abstract = {At high metallicity, a majority of massive stars have at least one close stellar companion. The evolution of such binaries is subject to strong interaction processes, which heavily impact the characteristics of their life-ending supernova and compact remnants. For the low-metallicity environments of high-redshift galaxies, constraints on the multiplicity properties of massive stars over the separation range leading to binary interaction are crucially missing. Here we show that the presence of massive stars in close binaries is ubiquitous, even at low metallicity. Using the Very Large Telescope, we obtained multi-epoch radial velocity measurements of a representative sample of 139 massive O-type stars across the Small Magellanic Cloud, which has a metal content of about one-fifth of the solar value. We find that 45% of them show radial velocity variations that demonstrate that they are members of close binary systems, and predominantly have orbital periods shorter than 1 year. Correcting for observational biases indicates that at least 70+11−6 % of the O stars in our sample are in close binaries, and that at least 68+7 −8% of all O stars interact with a companion star during their lifetime. We found no evidence supporting a statistically significant trend of the multiplicity properties with metallicity. Our results indicate that multiplicity and binary interactions govern the evolution of massive stars and determine their cosmic feedback and explosive fates.}, author = {Sana, H. and Shenar, T. and Bodensteiner, J. and Britavskiy, N. and Langer, N. and Lennon, D. J. and Mahy, L. and Mandel, I. and De Mink, S. E. and Patrick, L. R. and Villaseñor, J. I. and Dirickx, M. and Abdul-Masih, M. and Almeida, L. A. and Backs, F. and Berlanas, S. R. and Bernini-Peron, M. and Bowman, D. M. and Bronner, V. A. and Crowther, P. A. and Deshmukh, K. and Evans, C. J. and Fabry, M. and Gieles, M. and Gilkis, A. and González-Torà, G. and Gräfener, G. and Götberg, Ylva Louise Linsdotter and Hawcroft, C. and Hénault-Brunet, V. and Herrero, A. and Holgado, G. and Izzard, R. G. and De Koter, A. and Janssens, S. and Johnston, C. and Josiek, J. and Justham, S. and Kalari, V. M. and Klencki, J. and Kubát, J. and Kubátová, B. and Lefever, R. R. and Van Loon, J. Th and Ludwig, B. and Mackey, J. and Maíz Apellániz, J. and Maravelias, G. and Marchant, P. and Mazeh, T. and Menon, A. and Moe, M. and Najarro, F. and Oskinova, L. M. and Ovadia, R. and Pauli, D. and Pawlak, M. and Ramachandran, V. and Renzo, M. and Rocha, D. F. and Sander, A. A.C. and Schneider, F. R.N. and Schootemeijer, A. and Schösser, E. C. and Schürmann, C. and Sen, K. and Shahaf, S. and Simón-Díaz, S. and Van Son, L. A.C. and Stoop, M. and Toonen, S. and Tramper, F. and Valli, R. and Vigna-Gómez, A. and Vink, J. S. and Wang, C. and Willcox, R.}, issn = {2397-3366}, journal = {Nature Astronomy}, pages = {1337--1346}, publisher = {Springer Nature}, title = {{A high fraction of close massive binary stars at low metallicity}}, doi = {10.1038/s41550-025-02610-x}, volume = {9}, year = {2025}, } @article{20367, abstract = {We prove upper and lower bounds on the number of pairs of commuting n x n matrices with integer entries in [-T, T], as T -> . Our work uses Fourier analysis and leads to an analysis of exponential sums involving matrices over finite fields. These are bounded by combining a stratification result of Fouvry and Katz with a new result about the flatness of the commutator Lie bracket.}, author = {Browning, Timothy D and Sawin, Will and Wang, Victor}, issn = {1432-1807}, journal = {Mathematische Annalen}, pages = {1863–1880}, publisher = {Springer Nature}, title = {{Pairs of commuting integer matrices}}, doi = {10.1007/s00208-025-03285-5}, volume = {393}, year = {2025}, } @article{20370, abstract = {The Huntingtin protein (HTT), named for its role in Huntington’s disease, has been best understood as a scaffolding protein that promotes vesicle transport by molecular motors along microtubules. Here, we show that HTT also interacts with the actin cytoskeleton, and its loss of function disturbs the morphology and function of the axonal growth cone. We demonstrate that HTT organizes F-actin into bundles. Cryo–electron tomography (cryo-ET) and subtomogram averaging (STA) structural analyses reveal that HTT’s N-terminal HEAT and Bridge domains wrap around F-actin, while the C-terminal HEAT domain is displaced; furthermore, HTT dimerizes via the N-HEAT domain to bridge parallel actin filaments separated by ~20 nanometers. Our study provides the structural basis for understanding how HTT interacts with and organizes the actin cytoskeleton.}, author = {Carpentier, Rémi and Kim, Jaesung and Capizzi, Mariacristina and Kim, Hyeongju and Fäßler, Florian and Hansen, Jesse and Kim, Min Jeong and Denarier, Eric and Blot, Béatrice and Degennaro, Marine and Labou, Sophia and Arnal, Isabelle and Marcaida, Maria J. and Peraro, Matteo Dal and Kim, Doory and Schur, Florian KM and Song, Ji-Joon and Humbert, Sandrine}, issn = {2375-2548}, journal = {Science Advances}, number = {38}, publisher = {AAAS}, title = {{Structure of the Huntingtin F-actin complex reveals its role in cytoskeleton organization}}, doi = {10.1126/sciadv.adw4124}, volume = {11}, year = {2025}, } @article{20374, abstract = {Pioneer transcription factors (TFs) engage chromatinized DNA motifs. However, it is unclear how the resultant TF-nucleosome complexes are decoded by co-factors. In humans, the TF p53 regulates cell-cycle progression, apoptosis, and the DNA damage response, with a large fraction of p53-bound sites residing in nucleosome-harboring inaccessible chromatin. We examined the interaction of chromatin-bound p53 with co-factors belonging to the ubiquitin proteasome system (UPS). At two distinct motif locations on the nucleosome (super-helical location [SHL]−5.7 and SHL+5.9), the E3 ubiquitin ligase E6-E6AP was unable to bind nucleosome-engaged p53. The deubiquitinase USP7, on the other hand, readily engages nucleosome-bound p53 in vitro and in cells. A corresponding cryo-electron microscopy (cryo-EM) structure shows USP7 engaged with p53 and nucleosomes. Our work illustrates how chromatin imposes a co-factor-selective barrier for p53 interactors, whereby flexibly tethered interaction domains of co-factors and TFs govern compatibility between co-factors, TFs, and chromatin.}, author = {Chakraborty, Deyasini and Sandate, Colby R. and Isbel, Luke and Kempf, Georg and Weiss, Joscha and Cavadini, Simone and Kater, Lukas and Seebacher, Jan and Kozicka, Zuzanna and Stoos, Lisa and Grand, Ralph S. and Schübeler, Dirk and Michael, Alicia and Thomä, Nicolas H.}, issn = {1097-2765}, journal = {Molecular Cell}, number = {15}, pages = {2919--2936.e12}, publisher = {Elsevier}, title = {{Nucleosomes specify co-factor access to p53}}, doi = {10.1016/j.molcel.2025.06.027}, volume = {85}, year = {2025}, } @article{20402, abstract = {The recent classification of the onset of turbulence as a directed percolation (DP) phase transition has been applied to all major shear flows including pipe, channel, Couette and boundary layer flows. A cornerstone of the DP analogy is the memoryless (Poisson) property of turbulent sites. We here show that, for the classic case of channel flow, neither the decay nor the proliferation of turbulent stripes is memoryless. As demonstrated by a standard analysis of the respective survival curves, isolated channel stripes, in the immediate vicinity of the critical point, age. Consequently, the one to one mapping between turbulent stripes and active DP-sites is not fulfilled in this low Reynolds number regime. In addition, the interpretation of turbulence as a chaotic saddle with supertransient properties, the basis of recent theoretical progress, does not apply to individual localized stripes. The discrepancy between channel flow and the transition models established for pipe and Couette flow, illustrates that seemingly minor geometrical differences between flows can give rise to instabilities and growth mechanisms that fundamentally alter the nature of the transition to turbulence.}, author = {Vasudevan, Mukund and Paranjape, Chaitanya S and Sitte, Michael Philip and Yalniz, Gökhan and Hof, Björn}, issn = {2041-1723}, journal = {Nature Communications}, publisher = {Springer Nature}, title = {{Aging and memory of transitional turbulence}}, doi = {10.1038/s41467-025-63044-7}, volume = {16}, year = {2025}, }