@article{14356, abstract = {Aminoacyl-tRNA synthetases (ARSs) are essential enzymes for faithful assignment of amino acids to their cognate tRNA. Variants in ARS genes are frequently associated with clinically heterogeneous phenotypes in humans and follow both autosomal dominant or recessive inheritance patterns in many instances. Variants in tryptophanyl-tRNA synthetase 1 (WARS1) cause autosomal dominantly inherited distal hereditary motor neuropathy and Charcot-Marie-Tooth disease. Presently, only one family with biallelic WARS1 variants has been described. We present three affected individuals from two families with biallelic variants (p.Met1? and p.(Asp419Asn)) in WARS1, showing varying severities of developmental delay and intellectual disability. Hearing impairment and microcephaly, as well as abnormalities of the brain, skeletal system, movement/gait, and behavior were variable features. Phenotyping of knocked down wars-1 in a Caenorhabditis elegans model showed depletion is associated with defects in germ cell development. A wars1 knockout vertebrate model recapitulates the human clinical phenotypes, confirms variant pathogenicity, and uncovers evidence implicating the p.Met1? variant as potentially impacting an exon critical for normal hearing. Together, our findings provide consolidating evidence for biallelic disruption of WARS1 as causal for an autosomal recessive neurodevelopmental syndrome and present a vertebrate model that recapitulates key phenotypes observed in patients.}, author = {Lin, Sheng-Jia and Vona, Barbara and Porter, Hillary M. and Izadi, Mahmoud and Huang, Kevin and Lacassie, Yves and Rosenfeld, Jill A. and Khan, Saadullah and Petree, Cassidy and Ali, Tayyiba A. and Muhammad, Nazif and Khan, Sher A. and Muhammad, Noor and Liu, Pengfei and Haymon, Marie-Louise and Rueschendorf, Franz and Kong, Il-Keun and Schnapp, Linda and Shur, Natasha and Chorich, Lynn and Layman, Lawrence and Haaf, Thomas and Pourkarimi, Ehsan and Kim, Hyung-Goo and Varshney, Gaurav K.}, issn = {1059-7794}, journal = {Human Mutation}, keywords = {autosomal recessive, biallelic variants, C, elegans, translation initiation sites, tryptophanyl-tRNA synthetase 1 (WARS1), WHEP domain, zebrafish}, number = {10}, pages = {1472--1489}, publisher = {Wiley}, title = {{Biallelic variants in WARS1 cause a highly variable neurodevelopmental syndrome and implicate a critical exon for normal auditory function}}, doi = {10.1002/humu.24435}, volume = {43}, year = {2022}, } @article{14357, abstract = {Aminoacylation of transfer RNA (tRNA) is a key step in protein biosynthesis, carried out by highly specific aminoacyl-tRNA synthetases (ARSs). ARSs have been implicated in autosomal dominant and autosomal recessive human disorders. Autosomal dominant variants in tryptophanyl-tRNA synthetase 1 (WARS1) are known to cause distal hereditary motor neuropathy and Charcot-Marie-Tooth disease, but a recessively inherited phenotype is yet to be clearly defined. Seryl-tRNA synthetase 1 (SARS1) has rarely been implicated in an autosomal recessive developmental disorder. Here, we report five individuals with biallelic missense variants in WARS1 or SARS1, who presented with an overlapping phenotype of microcephaly, developmental delay, intellectual disability, and brain anomalies. Structural mapping showed that the SARS1 variant is located directly within the enzyme’s active site, most likely diminishing activity, while the WARS1 variant is located in the N-terminal domain. We further characterize the identified WARS1 variant by showing that it negatively impacts protein abundance and is unable to rescue the phenotype of a CRISPR/Cas9 wars1 knockout zebrafish model. In summary, we describe two overlapping autosomal recessive syndromes caused by variants in WARS1 and SARS1, present functional insights into the pathogenesis of the WARS1-related syndrome and define an emerging disease spectrum: ARS-related developmental disorders with or without microcephaly.}, author = {Boegershausen, Nina and Krawczyk, Hannah E. and Jamra, Rami A. and Lin, Sheng-Jia and Yigit, Goekhan and Huening, Irina and Polo, Anna M. and Vona, Barbara and Huang, Kevin and Schmidt, Julia and Altmueller, Janine and Luppe, Johannes and Platzer, Konrad and Doergeloh, Beate B. and Busche, Andreas and Biskup, Saskia and Mendes, I, Marisa and Smith, Desiree E. C. and Salomons, Gajja S. and Zibat, Arne and Bueltmann, Eva and Nuernberg, Peter and Spielmann, Malte and Lemke, Johannes R. and Li, Yun and Zenker, Martin and Varshney, Gaurav K. and Hillen, Hauke S. and Kratz, Christian P. and Wollnik, Bernd}, issn = {1059-7794}, journal = {Human Mutation}, keywords = {aminoacylation, aminoacyl-tRNA synthetase, ARS, CRISPR, Cas9, intellectual disability, microcephaly, SARS1, tRNA, WARS1, zebrafish}, number = {10}, pages = {1454--1471}, publisher = {Wiley}, title = {{WARS1 and SARS1: Two tRNA synthetases implicated in autosomal recessive microcephaly}}, doi = {10.1002/humu.24430}, volume = {43}, year = {2022}, } @article{14381, abstract = {Expander graphs (sparse but highly connected graphs) have, since their inception, been the source of deep links between Mathematics and Computer Science as well as applications to other areas. In recent years, a fascinating theory of high-dimensional expanders has begun to emerge, which is still in a formative stage but has nonetheless already lead to a number of striking results. Unlike for graphs, in higher dimensions there is a rich array of non-equivalent notions of expansion (coboundary expansion, cosystolic expansion, topological expansion, spectral expansion, etc.), with differents strengths and applications. In this talk, we will survey this landscape of high-dimensional expansion, with a focus on two main results. First, we will present Gromov’s Topological Overlap Theorem, which asserts that coboundary expansion (a quantitative version of vanishing mod 2 cohomology) implies topological expansion (roughly, the property that for every map from a simplicial complex to a manifold of the same dimension, the images of a positive fraction of the simplices have a point in common). Second, we will outline a construction of bounded degree 2-dimensional topological expanders, due to Kaufman, Kazhdan, and Lubotzky.}, author = {Wagner, Uli}, issn = {2102-622X}, journal = {Bulletin de la Societe Mathematique de France}, pages = {281--294}, publisher = {Societe Mathematique de France}, title = {{High-dimensional expanders (after Gromov, Kaufman, Kazhdan, Lubotzky, and others)}}, doi = {10.24033/ast.1188}, volume = {438}, year = {2022}, } @article{14437, abstract = {Future LEDs could be based on lead halide perovskites. A breakthrough in preparing device-compatible solids composed of nanoscale perovskite crystals overcomes a long-standing hurdle in making blue perovskite LEDs.}, author = {Utzat, Hendrik and Ibáñez, Maria}, issn = {1476-4687}, journal = {Nature}, keywords = {Multidisciplinary}, number = {7941}, pages = {638--639}, publisher = {Springer Nature}, title = {{Molecular engineering enables bright blue LEDs}}, doi = {10.1038/d41586-022-04447-0}, volume = {612}, year = {2022}, } @misc{14520, abstract = {This dataset comprises all data shown in the figures of the submitted article "Compact vacuum gap transmon qubits: Selective and sensitive probes for superconductor surface losses" at arxiv.org/abs/2206.14104. Additional raw data are available from the corresponding author on reasonable request.}, author = {Zemlicka, Martin and Redchenko, Elena and Peruzzo, Matilda and Hassani, Farid and Trioni, Andrea and Barzanjeh, Shabir and Fink, Johannes M}, publisher = {Zenodo}, title = {{Compact vacuum gap transmon qubits: Selective and sensitive probes for superconductor surface losses}}, doi = {10.5281/ZENODO.8408897}, year = {2022}, } @unpublished{14597, abstract = {Phase-field models such as the Allen-Cahn equation may give rise to the formation and evolution of geometric shapes, a phenomenon that may be analyzed rigorously in suitable scaling regimes. In its sharp-interface limit, the vectorial Allen-Cahn equation with a potential with N≥3 distinct minima has been conjectured to describe the evolution of branched interfaces by multiphase mean curvature flow. In the present work, we give a rigorous proof for this statement in two and three ambient dimensions and for a suitable class of potentials: As long as a strong solution to multiphase mean curvature flow exists, solutions to the vectorial Allen-Cahn equation with well-prepared initial data converge towards multiphase mean curvature flow in the limit of vanishing interface width parameter ε↘0. We even establish the rate of convergence O(ε1/2). Our approach is based on the gradient flow structure of the Allen-Cahn equation and its limiting motion: Building on the recent concept of "gradient flow calibrations" for multiphase mean curvature flow, we introduce a notion of relative entropy for the vectorial Allen-Cahn equation with multi-well potential. This enables us to overcome the limitations of other approaches, e.g. avoiding the need for a stability analysis of the Allen-Cahn operator or additional convergence hypotheses for the energy at positive times.}, author = {Fischer, Julian L and Marveggio, Alice}, booktitle = {arXiv}, title = {{Quantitative convergence of the vectorial Allen-Cahn equation towards multiphase mean curvature flow}}, doi = {10.48550/ARXIV.2203.17143}, year = {2022}, } @unpublished{14600, 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 = {arXiv}, title = {{Learning control policies for stochastic systems with reach-avoid guarantees}}, doi = {10.48550/ARXIV.2210.05308}, year = {2022}, } @unpublished{14601, abstract = {In this work, we address the problem of learning provably stable neural network policies for stochastic control systems. While recent work has demonstrated the feasibility of certifying given policies using martingale theory, the problem of how to learn such policies is little explored. Here, we study the effectiveness of jointly learning a policy together with a martingale certificate that proves its stability using a single learning algorithm. We observe that the joint optimization problem becomes easily stuck in local minima when starting from a randomly initialized policy. Our results suggest that some form of pre-training of the policy is required for the joint optimization to repair and verify the policy successfully.}, author = {Zikelic, Dorde and Lechner, Mathias and Chatterjee, Krishnendu and Henzinger, Thomas A}, booktitle = {arXiv}, title = {{Learning stabilizing policies in stochastic control systems}}, doi = {10.48550/arXiv.2205.11991}, year = {2022}, } @article{10016, abstract = {Auxin has always been at the forefront of research in plant physiology and development. Since the earliest contemplations by Julius von Sachs and Charles Darwin, more than a century-long struggle has been waged to understand its function. This largely reflects the failures, successes, and inevitable progress in the entire field of plant signaling and development. Here I present 14 stations on our long and sometimes mystical journey to understand auxin. These highlights were selected to give a flavor of the field and to show the scope and limits of our current knowledge. A special focus is put on features that make auxin unique among phytohormones, such as its dynamic, directional transport network, which integrates external and internal signals, including self-organizing feedback. Accented are persistent mysteries and controversies. The unexpected discoveries related to rapid auxin responses and growth regulation recently disturbed our contentment regarding understanding of the auxin signaling mechanism. These new revelations, along with advances in technology, usher us into a new, exciting era in auxin research. }, author = {Friml, Jiří}, issn = {1943-0264}, journal = {Cold Spring Harbor Perspectives in Biology}, number = {5}, publisher = {Cold Spring Harbor Laboratory}, title = {{Fourteen stations of auxin}}, doi = {10.1101/cshperspect.a039859 }, volume = {14}, year = {2022}, } @article{10018, abstract = {In order to study integral points of bounded log-anticanonical height on weak del Pezzo surfaces, we classify weak del Pezzo pairs. As a representative example, we consider a quartic del Pezzo surface of singularity type A1 + A3 and prove an analogue of Manin's conjecture for integral points with respect to its singularities and its lines.}, author = {Derenthal, Ulrich and Wilsch, Florian Alexander}, issn = {1475-3030 }, journal = {Journal of the Institute of Mathematics of Jussieu}, keywords = {Integral points, del Pezzo surface, universal torsor, Manin’s conjecture}, publisher = {Cambridge University Press}, title = {{Integral points on singular del Pezzo surfaces}}, doi = {10.1017/S1474748022000482}, year = {2022}, } @article{10042, abstract = {SnSe has emerged as one of the most promising materials for thermoelectric energy conversion due to its extraordinary performance in its single-crystal form and its low-cost constituent elements. However, to achieve an economic impact, the polycrystalline counterpart needs to replicate the performance of the single crystal. Herein, we optimize the thermoelectric performance of polycrystalline SnSe produced by consolidating solution-processed and surface-engineered SnSe particles. In particular, the SnSe particles are coated with CdSe molecular complexes that crystallize during the sintering process, forming CdSe nanoparticles. The presence of CdSe nanoparticles inhibits SnSe grain growth during the consolidation step due to Zener pinning, yielding a material with a high density of grain boundaries. Moreover, the resulting SnSe–CdSe nanocomposites present a large number of defects at different length scales, which significantly reduce the thermal conductivity. The produced SnSe–CdSe nanocomposites exhibit thermoelectric figures of merit up to 2.2 at 786 K, which is among the highest reported for solution-processed SnSe.}, author = {Liu, Yu and Calcabrini, Mariano and Yu, Yuan and Lee, Seungho and Chang, Cheng and David, Jérémy and Ghosh, Tanmoy and Spadaro, Maria Chiara and Xie, Chenyang and Cojocaru-Mirédin, Oana and Arbiol, Jordi and Ibáñez, Maria}, issn = {1936-086X}, journal = {ACS Nano}, keywords = {tin selenide, nanocomposite, grain growth, Zener pinning, thermoelectricity, annealing, solution processing}, number = {1}, pages = {78--88}, publisher = {American Chemical Society }, title = {{Defect engineering in solution-processed polycrystalline SnSe leads to high thermoelectric performance}}, doi = {10.1021/acsnano.1c06720}, volume = {16}, year = {2022}, } @article{10182, abstract = {The mitochondrial oxidative phosphorylation system is central to cellular metabolism. It comprises five enzymatic complexes and two mobile electron carriers that work in a mitochondrial respiratory chain. By coupling the oxidation of reducing equivalents coming into mitochondria to the generation and subsequent dissipation of a proton gradient across the inner mitochondrial membrane, this electron transport chain drives the production of ATP, which is then used as a primary energy carrier in virtually all cellular processes. Minimal perturbations of the respiratory chain activity are linked to diseases; therefore, it is necessary to understand how these complexes are assembled and regulated and how they function. In this Review, we outline the latest assembly models for each individual complex, and we also highlight the recent discoveries indicating that the formation of larger assemblies, known as respiratory supercomplexes, originates from the association of the intermediates of individual complexes. We then discuss how recent cryo-electron microscopy structures have been key to answering open questions on the function of the electron transport chain in mitochondrial respiration and how supercomplexes and other factors, including metabolites, can regulate the activity of the single complexes. When relevant, we discuss how these mechanisms contribute to physiology and outline their deregulation in human diseases.}, author = {Vercellino, Irene and Sazanov, Leonid A}, issn = {1471-0080}, journal = {Nature Reviews Molecular Cell Biology}, pages = {141–161}, publisher = {Springer Nature}, title = {{The assembly, regulation and function of the mitochondrial respiratory chain}}, doi = {10.1038/s41580-021-00415-0}, volume = {23}, year = {2022}, } @article{10208, abstract = {It is practical to collect a huge amount of movement data and environmental context information along with the health signals of individuals because there is the emergence of new generations of positioning and tracking technologies and rapid advancements of health sensors. The study of the relations between these datasets and their sequence similarity analysis is of interest to many applications such as health monitoring and recommender systems. However, entering all movement parameters and health signals can lead to the complexity of the problem and an increase in its computational load. In this situation, dimension reduction techniques can be used to avoid consideration of simultaneous dependent parameters in the process of similarity measurement of the trajectories. The present study provides a framework, named CaDRAW, to use spatial–temporal data and movement parameters along with independent context information in the process of measuring the similarity of trajectories. In this regard, the omission of dependent movement characteristic signals is conducted by using an unsupervised feature selection dimension reduction technique. To evaluate the effectiveness of the proposed framework, it was applied to a real contextualized movement and related health signal datasets of individuals. The results indicated the capability of the proposed framework in measuring the similarity and in decreasing the characteristic signals in such a way that the similarity results -before and after reduction of dependent characteristic signals- have small differences. The mean differences between the obtained results before and after reducing the dimension were 0.029 and 0.023 for the round path, respectively.}, author = {Goudarzi, Samira and Sharif, Mohammad and Karimipour, Farid}, issn = {1868-5145}, journal = {Journal of Ambient Intelligence and Humanized Computing}, keywords = {general computer science}, pages = {2621–2635}, publisher = {Springer Nature}, title = {{A context-aware dimension reduction framework for trajectory and health signal analyses}}, doi = {10.1007/s12652-021-03569-z}, volume = {13}, year = {2022}, } @article{10284, abstract = {Infections early in life can have enduring effects on an organism's development and immunity. In this study, we show that this equally applies to developing ‘superorganisms’––incipient social insect colonies. When we exposed newly mated Lasius niger ant queens to a low pathogen dose, their colonies grew more slowly than controls before winter, but reached similar sizes afterwards. Independent of exposure, queen hibernation survival improved when the ratio of pupae to workers was small. Queens that reared fewer pupae before worker emergence exhibited lower pathogen levels, indicating that high brood rearing efforts interfere with the ability of the queen's immune system to suppress pathogen proliferation. Early-life queen pathogen exposure also improved the immunocompetence of her worker offspring, as demonstrated by challenging the workers to the same pathogen a year later. Transgenerational transfer of the queen's pathogen experience to her workforce can hence durably reduce the disease susceptibility of the whole superorganism.}, author = {Casillas Perez, Barbara E and Pull, Christopher and Naiser, Filip and Naderlinger, Elisabeth and Matas, Jiri and Cremer, Sylvia}, issn = {1461-0248}, journal = {Ecology Letters}, number = {1}, pages = {89--100}, publisher = {Wiley}, title = {{Early queen infection shapes developmental dynamics and induces long-term disease protection in incipient ant colonies}}, doi = {10.1111/ele.13907}, volume = {25}, year = {2022}, } @article{10335, abstract = {Van der Holst and Pendavingh introduced a graph parameter σ, which coincides with the more famous Colin de Verdière graph parameter μ for small values. However, the definition of a is much more geometric/topological directly reflecting embeddability properties of the graph. They proved μ(G) ≤ σ(G) + 2 and conjectured σ(G) ≤ σ(G) for any graph G. We confirm this conjecture. As far as we know, this is the first topological upper bound on σ(G) which is, in general, tight. Equality between μ and σ does not hold in general as van der Holst and Pendavingh showed that there is a graph G with μ(G) ≤ 18 and σ(G) ≥ 20. We show that the gap appears at much smaller values, namely, we exhibit a graph H for which μ(H) ≥ 7 and σ(H) ≥ 8. We also prove that, in general, the gap can be large: The incidence graphs Hq of finite projective planes of order q satisfy μ(Hq) ∈ O(q3/2) and σ(Hq) ≥ q2.}, author = {Kaluza, Vojtech and Tancer, Martin}, issn = {0209-9683}, journal = {Combinatorica}, pages = {1317--1345}, publisher = {Springer Nature}, title = {{Even maps, the Colin de Verdière number and representations of graphs}}, doi = {10.1007/s00493-021-4443-7}, volume = {42}, year = {2022}, } @article{10364, abstract = {This paper characterizes the latency of the simplified successive-cancellation (SSC) decoding scheme for polar codes under hardware resource constraints. In particular, when the number of processing elements P that can perform SSC decoding operations in parallel is limited, as is the case in practice, the latency of SSC decoding is O(N1-1/μ + N/P log2 log2 N/P), where N is the block length of the code and μ is the scaling exponent of the channel. Three direct consequences of this bound are presented. First, in a fully-parallel implementation where P = N/2, the latency of SSC decoding is O(N1-1/μ), which is sublinear in the block length. This recovers a result from our earlier work. Second, in a fully-serial implementation where P = 1, the latency of SSC decoding scales as O(N log2 log2 N). The multiplicative constant is also calculated: we show that the latency of SSC decoding when P = 1 is given by (2 + o(1))N log2 log2 N. Third, in a semi-parallel implementation, the smallest P that gives the same latency as that of the fully-parallel implementation is P = N1/μ. The tightness of our bound on SSC decoding latency and the applicability of the foregoing results is validated through extensive simulations.}, author = {Hashemi, Seyyed Ali and Mondelli, Marco and Fazeli, Arman and Vardy, Alexander and Cioffi, John and Goldsmith, Andrea}, issn = {1558-2248}, journal = {IEEE Transactions on Wireless Communications}, number = {6}, pages = {3909--3920}, publisher = {Institute of Electrical and Electronics Engineers}, title = {{Parallelism versus latency in simplified successive-cancellation decoding of polar codes}}, doi = {10.1109/TWC.2021.3125626}, volume = {21}, year = {2022}, } @article{10411, abstract = {The phytohormone auxin is the major growth regulator governing tropic responses including gravitropism. Auxin build-up at the lower side of stimulated shoots promotes cell expansion, whereas in roots it inhibits growth, leading to upward shoot bending and downward root bending, respectively. Yet it remains an enigma how the same signal can trigger such opposite cellular responses. In this review, we discuss several recent unexpected insights into the mechanisms underlying auxin regulation of growth, challenging several existing models. We focus on the divergent mechanisms of apoplastic pH regulation in shoots and roots revisiting the classical Acid Growth Theory and discuss coordinated involvement of multiple auxin signaling pathways. From this emerges a more comprehensive, updated picture how auxin regulates growth.}, author = {Li, Lanxin and Gallei, Michelle C and Friml, Jiří}, issn = {1360-1385}, journal = {Trends in Plant Science}, number = {5}, pages = {440--449}, publisher = {Cell Press}, title = {{Bending to auxin: Fast acid growth for tropisms}}, doi = {10.1016/j.tplants.2021.11.006}, volume = {27}, year = {2022}, } @article{10413, abstract = {Motivated by the recent introduction of the intrinsic semilattice entropy, we study generalized quasi-metric semilattices and their categories. We investigate the relationship between these objects and generalized semivaluations, extending Nakamura and Schellekens' approach. Finally, we use this correspondence to compare the intrinsic semilattice entropy and the semigroup entropy induced in particular situations, like sets, torsion abelian groups and vector spaces.}, author = {Dikranjan, Dikran and Giordano Bruno, Anna and Künzi, Hans Peter and Zava, Nicolò and Toller, Daniele}, issn = {0166-8641}, journal = {Topology and its Applications}, publisher = {Elsevier}, title = {{Generalized quasi-metric semilattices}}, doi = {10.1016/j.topol.2021.107916}, volume = {309}, year = {2022}, } @article{10530, abstract = {Cell dispersion from a confined area is fundamental in a number of biological processes, including cancer metastasis. To date, a quantitative understanding of the interplay of single cell motility, cell proliferation, and intercellular contacts remains elusive. In particular, the role of E- and N-Cadherin junctions, central components of intercellular contacts, is still controversial. Combining theoretical modeling with in vitro observations, we investigate the collective spreading behavior of colonies of human cancer cells (T24). The spreading of these colonies is driven by stochastic single-cell migration with frequent transient cell-cell contacts. We find that inhibition of E- and N-Cadherin junctions decreases colony spreading and average spreading velocities, without affecting the strength of correlations in spreading velocities of neighboring cells. Based on a biophysical simulation model for cell migration, we show that the behavioral changes upon disruption of these junctions can be explained by reduced repulsive excluded volume interactions between cells. This suggests that in cancer cell migration, cadherin-based intercellular contacts sharpen cell boundaries leading to repulsive rather than cohesive interactions between cells, thereby promoting efficient cell spreading during collective migration. }, author = {Zisis, Themistoklis and Brückner, David and Brandstätter, Tom and Siow, Wei Xiong and d’Alessandro, Joseph and Vollmar, Angelika M. and Broedersz, Chase P. and Zahler, Stefan}, issn = {0006-3495}, journal = {Biophysical Journal}, keywords = {Biophysics}, number = {1}, pages = {P44--60}, publisher = {Elsevier}, title = {{Disentangling cadherin-mediated cell-cell interactions in collective cancer cell migration}}, doi = {10.1016/j.bpj.2021.12.006}, volume = {121}, year = {2022}, } @article{10547, abstract = {We establish global-in-time existence results for thermodynamically consistent reaction-(cross-)diffusion systems coupled to an equation describing heat transfer. Our main interest is to model species-dependent diffusivities, while at the same time ensuring thermodynamic consistency. A key difficulty of the non-isothermal case lies in the intrinsic presence of cross-diffusion type phenomena like the Soret and the Dufour effect: due to the temperature/energy dependence of the thermodynamic equilibria, a nonvanishing temperature gradient may drive a concentration flux even in a situation with constant concentrations; likewise, a nonvanishing concentration gradient may drive a heat flux even in a case of spatially constant temperature. We use time discretisation and regularisation techniques and derive a priori estimates based on a suitable entropy and the associated entropy production. Renormalised solutions are used in cases where non-integrable diffusion fluxes or reaction terms appear.}, author = {Fischer, Julian L and Hopf, Katharina and Kniely, Michael and Mielke, Alexander}, issn = {0036-1410}, journal = {SIAM Journal on Mathematical Analysis}, keywords = {Energy-Reaction-Diffusion Systems, Cross Diffusion, Global-In-Time Existence of Weak/Renormalised Solutions, Entropy Method, Onsager System, Soret/Dufour Effect}, number = {1}, pages = {220--267}, publisher = {Society for Industrial and Applied Mathematics}, title = {{Global existence analysis of energy-reaction-diffusion systems}}, doi = {10.1137/20M1387237}, volume = {54}, year = {2022}, }