@article{14786,
  abstract     = {Acanthocephalans, intestinal parasites of vertebrates, are characterised by orders of magnitude higher metal accumulation than free-living organisms, but the mechanism of such effective metal accumulation is still unknown. The aim of our study was to gain new insights into the high-resolution localization of elements in the bodies of acanthocephalans, thus taking an initial step towards elucidating metal uptake and accumulation in organisms under real environmental conditions. For the first time, nanoscale secondary ion mass spectrometry (NanoSIMS) was used for high-resolution mapping of 12 elements (C, Ca, Cu, Fe, N, Na, O, P, Pb, S, Se, and Tl) in three selected body parts (trunk spines, inner part of the proboscis receptacle and inner surface of the tegument) of Dentitruncus truttae, a parasite of brown trout (Salmo trutta) from the Krka River in Croatia. In addition, the same body parts were examined using transmission electron microscopy (TEM) and correlated with NanoSIMS images. Metal concentrations determined using HR ICP-MS confirmed higher accumulation in D. truttae than in the fish intestine. The chemical composition of the acanthocephalan body showed the highest density of C, Ca, N, Na, O, S, as important and constitutive elements in living cells in all studied structures, while Fe was predominant among trace elements. In general, higher element density was found in trunk spines and tegument, as body structures responsible for substance absorption in parasites. The results obtained with NanoSIMS and TEM-NanoSIMS correlative imaging represent pilot data for mapping of elements at nanoscale resolution in the ultrastructure of various body parts of acanthocephalans and generally provide a contribution for further application of this technique in all parasite species.},
  author       = {Filipović Marijić, Vlatka and Subirana, Maria Angels and Schaumlöffel, Dirk and Barišić, Josip and Gontier, Etienne and Krasnici, Nesrete and Mijošek, Tatjana and Hernández-Orts, Jesús S. and Scholz, Tomáš and Erk, Marijana},
  issn         = {0048-9697},
  journal      = {Science of The Total Environment},
  keywords     = {Pollution, Waste Management and Disposal, Environmental Chemistry, Environmental Engineering},
  publisher    = {Elsevier},
  title        = {{First insight in element localisation in different body parts of the acanthocephalan Dentitruncus truttae using TEM and NanoSIMS}},
  doi          = {10.1016/j.scitotenv.2023.164010},
  volume       = {887},
  year         = {2023},
}

@article{14787,
  abstract     = {Understanding the phenotypic and genetic architecture of reproductive isolation is a long‐standing goal of speciation research. In several systems, large‐effect loci contributing to barrier phenotypes have been characterized, but such causal connections are rarely known for more complex genetic architectures. In this study, we combine “top‐down” and “bottom‐up” approaches with demographic modelling toward an integrated understanding of speciation across a monkeyflower hybrid zone. Previous work suggests that pollinator visitation acts as a primary barrier to gene flow between two divergent red‐ and yellow‐flowered ecotypes of<jats:italic>Mimulus aurantiacus</jats:italic>. Several candidate isolating traits and anonymous single nucleotide polymorphism loci under divergent selection have been identified, but their genomic positions remain unknown. Here, we report findings from demographic analyses that indicate this hybrid zone formed by secondary contact, but that subsequent gene flow was restricted by widespread barrier loci across the genome. Using a novel, geographic cline‐based genome scan, we demonstrate that candidate barrier loci are broadly distributed across the genome, rather than mapping to one or a few “islands of speciation.” Quantitative trait locus (QTL) mapping reveals that most floral traits are highly polygenic, with little evidence that QTL colocalize, indicating that most traits are genetically independent. Finally, we find little evidence that QTL and candidate barrier loci overlap, suggesting that some loci contribute to other forms of reproductive isolation. Our findings highlight the challenges of understanding the genetic architecture of reproductive isolation and reveal that barriers to gene flow other than pollinator isolation may play an important role in this system.},
  author       = {Stankowski, Sean and Chase, Madeline A. and McIntosh, Hanna and Streisfeld, Matthew A.},
  issn         = {1365-294X},
  journal      = {Molecular Ecology},
  keywords     = {Genetics, Ecology, Evolution, Behavior and Systematics},
  number       = {8},
  pages        = {2041--2054},
  publisher    = {Wiley},
  title        = {{Integrating top‐down and bottom‐up approaches to understand the genetic architecture of speciation across a monkeyflower hybrid zone}},
  doi          = {10.1111/mec.16849},
  volume       = {32},
  year         = {2023},
}

@article{14788,
  abstract     = {Eukaryotic cells use clathrin-mediated endocytosis to take up a large range of extracellular cargo. During endocytosis, a clathrin coat forms on the plasma membrane, but it remains controversial when and how it is remodeled into a spherical vesicle.
Here, we use 3D superresolution microscopy to determine the precise geometry of the clathrin coat at large numbers of endocytic sites. Through pseudo-temporal sorting, we determine the average trajectory of clathrin remodeling during endocytosis. We find that clathrin coats assemble first on flat membranes to 50% of the coat area before they become rapidly and continuously bent, and this mechanism is confirmed in three cell lines. We introduce the cooperative curvature model, which is based on positive feedback for curvature generation. It accurately describes the measured shapes and dynamics of the clathrin coat and could represent a general mechanism for clathrin coat remodeling on the plasma membrane.},
  author       = {Mund, Markus and Tschanz, Aline and Wu, Yu-Le and Frey, Felix F and Mehl, Johanna L. and Kaksonen, Marko and Avinoam, Ori and Schwarz, Ulrich S. and Ries, Jonas},
  issn         = {1540-8140},
  journal      = {Journal of Cell Biology},
  keywords     = {Cell Biology},
  number       = {3},
  publisher    = {Rockefeller University Press},
  title        = {{Clathrin coats partially preassemble and subsequently bend during endocytosis}},
  doi          = {10.1083/jcb.202206038},
  volume       = {222},
  year         = {2023},
}

@inproceedings{14798,
  abstract     = {A faithful reproduction of gloss is inherently difficult because of the limited dynamic range, peak luminance, and 3D capabilities of display devices. This work investigates how the display capabilities affect gloss appearance with respect to a real-world reference object. To this end, we employ an accurate imaging pipeline to achieve a perceptual gloss match between a virtual and real object presented side-by-side on an augmented-reality high-dynamic-range (HDR) stereoscopic display, which has not been previously attained to this extent. Based on this precise gloss reproduction, we conduct a series of gloss matching experiments to study how gloss perception degrades based on individual factors: object albedo, display luminance, dynamic range, stereopsis, and tone mapping. We support the study with a detailed analysis of individual factors, followed by an in-depth discussion on the observed perceptual effects. Our experiments demonstrate that stereoscopic presentation has a limited effect on the gloss matching task on our HDR display. However, both reduced luminance and dynamic range of the display reduce the perceived gloss. This means that the visual system cannot compensate for the changes in gloss appearance across luminance (lack of gloss constancy), and the tone mapping operator should be carefully selected when reproducing gloss on a low dynamic range (LDR) display.},
  author       = {Chen, Bin and Jindal, Akshay and Piovarci, Michael and Wang, Chao and Seidel, Hans Peter and Didyk, Piotr and Myszkowski, Karol and Serrano, Ana and Mantiuk, Rafał K.},
  booktitle    = {Proceedings of the SIGGRAPH Asia 2023 Conference},
  isbn         = {9798400703157},
  location     = {Sydney, Australia},
  publisher    = {Association for Computing Machinery},
  title        = {{The effect of display capabilities on the gloss consistency between real and virtual objects}},
  doi          = {10.1145/3610548.3618226},
  year         = {2023},
}

@misc{14812,
  abstract     = {This repository contains the code and VCF files needed to conduct the analyses in our MS. Each folder contains a readMe document explaining the nature of each file and dataset and the results and analyses that they relate to. The same anlaysis code (but not VCF files) is also available at https://github.com/seanstankowski/Littorina_reproductive_mode},
  author       = {Stankowski, Sean},
  publisher    = {Zenodo},
  title        = {{Data and code for: The genetic architecture of a recent transition to live-bearing in marine snails}},
  doi          = {10.5281/ZENODO.8318995},
  year         = {2023},
}

@article{14815,
  abstract     = {In the last few years, various communication compression techniques have emerged as an indispensable tool helping to alleviate the communication bottleneck in distributed learning. However, despite the fact biased compressors often show superior performance in practice when compared to the much more studied and understood unbiased compressors, very little is known about them. In this work we study three classes of biased compression operators, two of which are new, and their performance when applied to (stochastic) gradient descent and distributed (stochastic) gradient descent. We show for the first time that biased compressors can lead to linear convergence rates both in the single node and distributed settings. We prove that distributed compressed SGD method, employed with error feedback mechanism, enjoys the ergodic rate O(δLexp[−μKδL]+(C+δD)Kμ), where δ≥1 is a compression parameter which grows when more compression is applied, L and μ are the smoothness and strong convexity constants, C captures stochastic gradient noise (C=0 if full gradients are computed on each node) and D captures the variance of the gradients at the optimum (D=0 for over-parameterized models). Further, via a theoretical study of several synthetic and empirical distributions of communicated gradients, we shed light on why and by how much biased compressors outperform their unbiased variants. Finally, we propose several new biased compressors with promising theoretical guarantees and practical performance.},
  author       = {Beznosikov, Aleksandr and Horvath, Samuel and Richtarik, Peter and Safaryan, Mher},
  issn         = {1533-7928},
  journal      = {Journal of Machine Learning Research},
  pages        = {1--50},
  publisher    = {Journal of Machine Learning Research},
  title        = {{On biased compression for distributed learning}},
  volume       = {24},
  year         = {2023},
}

@inproceedings{14829,
  abstract     = {This paper explores a modular design architecture aimed at helping blockchains (and other SMR implementation) to scale to a very large number of processes. This comes in contrast to existing monolithic architectures that interleave transaction dissemination, ordering, and execution in a single functionality. To achieve this we first split the monolith to multiple layers which can use existing distributed computing primitives. The exact specifications of the data dissemination part are formally defined by the Proof of Availability & Retrieval (PoA &R) abstraction. Solutions to the PoA &R problem contain two related sub-protocols: one that “pushes” information into the network and another that “pulls” this information. Regarding the latter, there is a dearth of research literature which is rectified in this paper. We present a family of pulling sub-protocols and rigorously analyze them. Extensive simulations support the theoretical claims of efficiency and robustness in case of a very large number of players. Finally, actual implementation and deployment on a small number of machines (roughly the size of several industrial systems) demonstrates the viability of the architecture’s paradigm.},
  author       = {Cohen, Shir and Goren, Guy and Kokoris Kogias, Eleftherios and Sonnino, Alberto and Spiegelman, Alexander},
  booktitle    = {27th International Conference on Financial Cryptography and Data Security},
  isbn         = {9783031477508},
  issn         = {1611-3349},
  location     = {Bol, Brac, Croatia},
  pages        = {36--53},
  publisher    = {Springer Nature},
  title        = {{Proof of availability and retrieval in a modular blockchain architecture}},
  doi          = {10.1007/978-3-031-47751-5_3},
  volume       = {13951},
  year         = {2023},
}

@inproceedings{14830,
  abstract     = {We study the problem of learning controllers for discrete-time non-linear stochastic dynamical systems with formal reach-avoid guarantees. This work presents the first method for providing formal reach-avoid guarantees, which combine and generalize stability and safety guarantees, with a tolerable probability threshold p in [0,1] over the infinite time horizon. Our method leverages advances in machine learning literature and it represents formal certificates as neural networks. In particular, we learn a certificate in the form of a reach-avoid supermartingale (RASM), a novel notion that we introduce in this work. Our RASMs provide reachability and avoidance guarantees by imposing constraints on what can be viewed as a stochastic extension of level sets of Lyapunov functions for deterministic systems. Our approach solves several important problems -- it can be used to learn a control policy from scratch, to verify a reach-avoid specification for a fixed control policy, or to fine-tune a pre-trained policy if it does not satisfy the reach-avoid specification. We validate our approach on 3 stochastic non-linear reinforcement learning tasks.},
  author       = {Zikelic, Dorde and Lechner, Mathias and Henzinger, Thomas A and Chatterjee, Krishnendu},
  booktitle    = {Proceedings of the 37th AAAI Conference on Artificial Intelligence},
  issn         = {2374-3468},
  keywords     = {General Medicine},
  location     = {Washington, DC, United States},
  number       = {10},
  pages        = {11926--11935},
  publisher    = {Association for the Advancement of Artificial Intelligence},
  title        = {{Learning control policies for stochastic systems with reach-avoid guarantees}},
  doi          = {10.1609/aaai.v37i10.26407},
  volume       = {37},
  year         = {2023},
}

@article{14831,
  abstract     = {Catalysis, the acceleration of product formation by a substance that is left unchanged, typically results from multiple elementary processes, including diffusion of the reactants toward the catalyst, chemical steps, and release of the products. While efforts to design catalysts are often focused on accelerating the chemical reaction on the catalyst, catalysis is a global property of the catalytic cycle that involves all processes. These are controlled by both intrinsic parameters such as the composition and shape of the catalyst and extrinsic parameters such as the concentration of the chemical species at play. We examine here the conditions that catalysis imposes on the different steps of a reaction cycle and the respective role of intrinsic and extrinsic parameters of the system on the emergence of catalysis by using an approach based on first-passage times. We illustrate this approach for various decompositions of a catalytic cycle into elementary steps, including non-Markovian decompositions, which are useful when the presence and nature of intermediate states are a priori unknown. Our examples cover different types of reactions and clarify the constraints on elementary steps and the impact of species concentrations on catalysis.},
  author       = {Sakref, Yann and Muñoz Basagoiti, Maitane and Zeravcic, Zorana and Rivoire, Olivier},
  issn         = {1520-5207},
  journal      = {The Journal of Physical Chemistry B},
  keywords     = {Materials Chemistry, Surfaces, Coatings and Films, Physical and Theoretical Chemistry},
  number       = {51},
  pages        = {10950--10959},
  publisher    = {American Chemical Society},
  title        = {{On kinetic constraints that catalysis imposes on elementary processes}},
  doi          = {10.1021/acs.jpcb.3c04627},
  volume       = {127},
  year         = {2023},
}

@article{14833,
  abstract     = {Understanding the factors that have shaped the current distributions and diversity of species is a central and longstanding aim of evolutionary biology. The recent inclusion of genomic data into phylogeographic studies has dramatically improved our understanding in organisms where evolutionary relationships have been challenging to infer. We used whole-genome sequences to study the phylogeography of the intertidal snail Littorina saxatilis, which has successfully colonized and diversified across a broad range of coastal environments in the Northern Hemisphere amid repeated cycles of glaciation. Building on past studies based on short DNA sequences, we used genome-wide data to provide a clearer picture of the relationships among samples spanning most of the species natural range. Our results confirm the trans-Atlantic colonization of North America from Europe, and have allowed us to identify rough locations of glacial refugia and to infer likely routes of colonization within Europe. We also investigated the signals in different datasets to account for the effects of genomic architecture and non-neutral evolution, which provides new insights about diversification of four ecotypes of L. saxatilis (the crab, wave, barnacle, and brackish ecotypes) at different spatial scales. Overall, we provide a much clearer picture of the biogeography of L. saxatilis, providing a foundation for more detailed phylogenomic and demographic studies.},
  author       = {Stankowski, Sean and Zagrodzka, Zuzanna B and Galindo, Juan and Montaño-Rendón, Mauricio and Faria, Rui and Mikhailova, Natalia and Blakeslee, April M H and Arnason, Einar and Broquet, Thomas and Morales, Hernán E and Grahame, John W and Westram, Anja M and Johannesson, Kerstin and Butlin, Roger K},
  issn         = {2752-938X},
  journal      = {Evolutionary Journal of the Linnean Society},
  number       = {1},
  publisher    = {Oxford University Press},
  title        = {{Whole-genome phylogeography of the intertidal snail Littorina saxatilis}},
  doi          = {10.1093/evolinnean/kzad002},
  volume       = {2},
  year         = {2023},
}

@article{14835,
  abstract     = {Aromatische Seitenketten sind wichtige Indikatoren für die Plastizität von Proteinen und bilden oft entscheidende Kontakte bei Protein‐Protein‐Wechselwirkungen. Wir untersuchten aromatische Reste in den beiden strukturell homologen cross‐β Amyloidfibrillen HET‐s und HELLF mit Hilfe eines spezifischen Ansatzes zur Isotopenmarkierung und Festkörper NMR mit Drehung am magischen Winkel. Das dynamische Verhalten der aromatischen Reste Phe und Tyr deutet darauf hin, dass der hydrophobe Amyloidkern starr ist und keine Anzeichen von “atmenden Bewegungen” auf einer Zeitskala von Hunderten von Millisekunden zeigt. Aromatische Reste, die exponiert an der Fibrillenoberfläche sitzen, haben zwar eine starre Ringachse, weisen aber Ringflips auf verschiedenen Zeitskalen von Nanosekunden bis Mikrosekunden auf. Unser Ansatz bietet einen direkten Einblick in die Bewegungen des hydrophoben Kerns und ermöglicht eine bessere Bewertung der Konformationsheterogenität, die aus einem NMR‐Strukturensemble einer solchen Cross‐β‐Amyloidstruktur hervorgeht.},
  author       = {Becker, Lea Marie and Berbon, Mélanie and Vallet, Alicia and Grelard, Axelle and Morvan, Estelle and Bardiaux, Benjamin and Lichtenecker, Roman and Ernst, Matthias and Loquet, Antoine and Schanda, Paul},
  issn         = {1521-3757},
  journal      = {Angewandte Chemie},
  keywords     = {General Medicine},
  number       = {19},
  publisher    = {Wiley},
  title        = {{Der starre Kern und die flexible Oberfläche von Amyloidfibrillen – Magic‐Angle‐Spinning NMR Spektroskopie von aromatischen Resten}},
  doi          = {10.1002/ange.202219314},
  volume       = {135},
  year         = {2023},
}

@inbook{14847,
  abstract     = {Understanding the mechanisms of chaperones at the atomic level generally requires producing chaperone–client complexes in vitro. This task comes with significant challenges, because one needs to find conditions in which the client protein is presented to the chaperone in a state that binds and at the same time avoid the pitfalls of protein aggregation that are often inherent to such states. The strategy differs significantly for different client proteins and chaperones, but there are common underlying principles. Here, we discuss these principles and deduce the strategies that can be successfully applied for different chaperone–client complexes. We review successful biochemical strategies applied to making the client protein “binding competent” and illustrate the different strategies with examples of recent biophysical and biochemical studies.},
  author       = {Sučec, I. and Schanda, Paul},
  booktitle    = {Biophysics of Molecular Chaperones},
  editor       = {Hiller, Sebastian and Liu, Maili and He, Lichun},
  isbn         = {9781839162824},
  pages        = {136--161},
  publisher    = {Royal Society of Chemistry},
  title        = {{Preparing Chaperone–Client Protein Complexes for Biophysical and Structural Studies}},
  doi          = {10.1039/bk9781839165986-00136},
  volume       = {29},
  year         = {2023},
}

@article{14849,
  abstract     = {We establish a precise three-term asymptotic expansion, with an optimal estimate of the error term, for the rightmost eigenvalue of an n×n random matrix with independent identically distributed complex entries as n tends to infinity. All terms in the expansion are universal.},
  author       = {Cipolloni, Giorgio and Erdös, László and Schröder, Dominik J and Xu, Yuanyuan},
  issn         = {0091-1798},
  journal      = {The Annals of Probability},
  keywords     = {Statistics, Probability and Uncertainty, Statistics and Probability},
  number       = {6},
  pages        = {2192--2242},
  publisher    = {Institute of Mathematical Statistics},
  title        = {{On the rightmost eigenvalue of non-Hermitian random matrices}},
  doi          = {10.1214/23-aop1643},
  volume       = {51},
  year         = {2023},
}

@article{14854,
  abstract     = {We study the spectrum of the Fröhlich Hamiltonian for the polaron at fixed total momentum. We prove the existence of excited eigenvalues between the ground state energy and the essential spectrum at strong coupling. In fact, our main result shows that the number of excited energy bands diverges in the strong coupling limit. To prove this we derive upper bounds for the min-max values of the corresponding fiber Hamiltonians and compare them with the bottom of the essential spectrum, a lower bound on which was recently obtained by Brooks and Seiringer (Comm. Math. Phys. 404:1 (2023), 287–337). The upper bounds are given in terms of the ground state energy band shifted by momentum-independent excitation energies determined by an effective Hamiltonian of Bogoliubov type.},
  author       = {Mitrouskas, David Johannes and Seiringer, Robert},
  issn         = {2578-5885},
  journal      = {Pure and Applied Analysis},
  keywords     = {General Medicine},
  number       = {4},
  pages        = {973--1008},
  publisher    = {Mathematical Sciences Publishers},
  title        = {{Ubiquity of bound states for the strongly coupled polaron}},
  doi          = {10.2140/paa.2023.5.973},
  volume       = {5},
  year         = {2023},
}

@misc{14861,
  abstract     = {Cover Page},
  author       = {Becker, Lea Marie and Berbon, Mélanie and Vallet, Alicia and Grelard, Axelle and Morvan, Estelle and Bardiaux, Benjamin and Lichtenecker, Roman and Ernst, Matthias and Loquet, Antoine and Schanda, Paul},
  booktitle    = {Angewandte Chemie International Edition},
  issn         = {1521-3773},
  keywords     = {General Chemistry, Catalysis},
  number       = {19},
  publisher    = {Wiley},
  title        = {{Cover Picture: The rigid core and flexible surface of amyloid fibrils probed by Magic‐Angle‐Spinning NMR spectroscopy of aromatic residues}},
  doi          = {10.1002/anie.202304138},
  volume       = {62},
  year         = {2023},
}

@inproceedings{14864,
  author       = {Stöllner, Andrea and Lenton, Isaac C and Muller, Caroline J and Waitukaitis, Scott R},
  booktitle    = {EGU General Assembly 2023},
  location     = {Vienna, Austria & Virtual},
  publisher    = {European Geosciences Union},
  title        = {{Measuring spontaneous charging of single aerosol particles}},
  doi          = {10.5194/egusphere-egu23-6166},
  year         = {2023},
}

@inproceedings{14865,
  author       = {Hwong, Yi-Ling and Colin, Maxime and Aglas, Philipp and Muller, Caroline J and Sherwood, Steven},
  booktitle    = {EGU General Assembly 2023},
  location     = {Vienna, Austria & Virtual},
  publisher    = {European Geosciences Union},
  title        = {{Evaluating memory properties in convection schemes using idealised tests}},
  doi          = {10.5194/egusphere-egu23-4968},
  year         = {2023},
}

@inproceedings{14866,
  author       = {Abramian, Sophie and Muller, Caroline J and Risi, Camille},
  booktitle    = {EGU General Assembly 2023},
  location     = {Vienna, Austria & Virtual},
  publisher    = {European Geosciences Union},
  title        = {{Extreme precipitation in tropical squall lines}},
  doi          = {10.5194/egusphere-egu23-15870},
  year         = {2023},
}

@inproceedings{14867,
  abstract     = {<jats:p>Starting with the empty graph on $[n]$, at each round, a set of $K=K(n)$ edges is presented chosen uniformly at random from the ones that have not been presented yet. We are then asked to choose at most one of the presented edges and add it to the current graph. Our goal is to construct a Hamiltonian graph with $(1+o(1))n$ edges within as few rounds as possible. We show that in this process, one can build a Hamiltonian graph of size $(1+o(1))n$ in $(1+o(1))(1+(\log n)/2K) n$ rounds w.h.p. The case $K=1$ implies that w.h.p. one can build a Hamiltonian graph by choosing $(1+o(1))n$ edges in an online fashion as they appear along the first $(0.5+o(1))n\log n$ rounds of the random graph process. This answers a question of Frieze, Krivelevich and Michaeli. Observe that the number of rounds is asymptotically optimal as the first $0.5n\log n$ edges do not span a Hamilton cycle w.h.p. The case $K=\Theta(\log n)$ implies that the Hamiltonicity threshold of the corresponding Achlioptas process is at most $(1+o(1))(1+(\log n)/2K) n$. This matches the $(1-o(1))(1+(\log n)/2K) n$ lower bound due to Krivelevich, Lubetzky and Sudakov and resolves the problem of determining the Hamiltonicity threshold of the Achlioptas process with $K=\Theta(\log n)$. We also show that in the above process one can construct a graph $G$ that spans a matching of size $\lfloor V(G)/2) \rfloor$ and $(0.5+o(1))n$ edges within $(1+o(1))(0.5+(\log n)/2K) n$ rounds w.h.p. Our proof relies on a robust Hamiltonicity property of the strong $4$-core of the binomial random graph which we use as a black-box. This property allows it to absorb paths covering vertices outside the strong $4$-core into a cycle.</jats:p>},
  author       = {Anastos, Michael},
  booktitle    = {Proceedings of the 12th European Conference on Combinatorics, Graph Theory and Applications},
  issn         = {2788-3116},
  location     = {Prague, Czech Republic},
  pages        = {36--41},
  publisher    = {Masaryk University Press},
  title        = {{Constructing Hamilton cycles and perfect matchings efficiently}},
  doi          = {10.5817/cz.muni.eurocomb23-005},
  year         = {2023},
}

@article{14868,
  abstract     = {The role of nuclear pore complexes (NPCs) in genome organization remains poorly characterized due to technical limitations in probing genome-wide protein-DNA interactions specific to the nuclear periphery. Here, we developed a new sensitive method, NPC-DamID, which combines in vitro reconstitution of nuclear import and DamID technology. The fixation-free method identifies chromatin interactions at the NPCs in intact nuclei from cells and tissues. We found that NPCs are preferentially associated with common and hierarchically arranged super-enhancers (SEs) across multiple cell types. We also uncovered phase-separated condensates at NPCs that compartmentalize and concentrate transcriptional coactivators and structural proteins at SE-regulated genes. Our results support NPCs as anchoring sites for SE regulatory hubs and cell-type-specific transcriptional control.},
  author       = {Tyagi, Swati and Capitanio, Juliana S. and Xu, Jiawei and Chen, Fei and Sharma, Rahul and Huang, Jialiang and HETZER, Martin W},
  journal      = {eLife},
  publisher    = {eLife Sciences Publications},
  title        = {{High-precision mapping of nuclear pore-chromatin interactions reveals new principles of genome organization at the nuclear envelope}},
  doi          = {10.7554/elife.87462},
  year         = {2023},
}

