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Utrecht University Repository: Recent submissions

  • Respiratory viral infection promotes the awakening and outgrowth of dormant metastatic breast cancer cells in lungs 
    Chia, Shi B; Johnson, Bryan J; Hu, Junxiao; Vermeulen, Roel; Chadeau-Hyam, Marc; Guntoro, Fernando; Montgomery, Hugh; Boorgula, Meher Preethi; Sreekanth, Varsha; Goodspeed, Andrew; Davenport, Bennett; Pereira, Felipe V; Zaberezhnyy, Vadym; Schleicher, Wolfgang E; Gao, Dexiang; Cadar, Andreia N; Papanicolaou, Michael; Beheshti, Afshin; Baylin, Stephen B; Costello, James; Bartley, Jenna M; Morrison, Thomas E; Aguirre-Ghiso, Julio A; Rincon, Mercedes; DeGregori, James (Research Square, 2024-04-05)
    Breast cancer is the second most common cancer globally. Most deaths from breast cancer are due to metastatic disease which often follows long periods of clinical dormancy 1. Understanding the mechanisms that disrupt the ...
  • Global Energy System Transitions 
    Edmonds, Jae; Fujimori, Shinichiro; Iyer, Gokul; McJeon, Haewon; O’Rourke, Patrick; Tristan, Jiesper; van Vuuren, Detlef; Yu, Sha (Oxford University Press, 2024-02-14)
    Energy systems power the world’s economies. They are pivotal to providing sustained economic prosperity that provides the goods and services that humans desire. Climate change is intimately linked with energy systems because ...
  • The societal roles and responsibilities of plant scientists in the context of genome-edited crops 
    So, Aisha M.; Habets, Michelle G. J. L.; Testerink, Christa; Macnaghten, Phil (Wiley, 2024-05)
    Societal Impact Statement The societal debate on the use of genome-edited crops has been polarised from the start. While policymakers struggle to democratically resolve this dilemma, plant scientists have been criticised ...
  • Public Service Professionals as Human Rights Actors: Positioning the Social Worker 
    Dibbets, A (Johns Hopkins University Press, 2024-02)
    Daily decisions taken by public service professionals such as social workers may directly impact their client’s rights, especially if they are working in a law and policy context that is questionable in human rights terms. ...
  • Redox geochemical signatures in Mediterranean sapropels: Implications to constrain deoxygenation dynamics in deep-marine settings 
    Monedero-Contreras, Ricardo D.; Martínez-Ruiz, Francisca; Rodríguez-Tovar, Francisco J.; de Lange, Gert (Elsevier Saunders, 2024-01-15)
    Global warming and anthropogenic activity are boosting marine deoxygenation in many regions around the globe. Deoxygenation is a critical ocean stressor with profound implications for marine ecosystems and biogeochemical ...
  • Environmental variables influencing occurrence and distribution of Delphinus delphis in the eastern Aegean Sea (eastern Mediterranean Sea) 
    Ingrosso, Maurizio; Tintoré, Beatriz; Cipriano, Giulia; Ricci, Pasquale; Grandjean, Tim; Tsimpidis, Thodoris; Nomikou, Paraskevi; Carlucci, Roberto; Miliou, Anastasia (John Wiley and Sons Ltd, 2024-01)
    Cetaceans are considered bioindicators of the health state of marine ecosystems owing to their wide distribution across the different aquatic ecosystems in the world and their significant top-down control role in the food ...
  • A mean-field theory for predicting single polymer collapse induced by neutral crowders 
    Chaboche, Quentin; Campos-Villalobos, Gerardo; Giunta, Giuliana; Dijkstra, Marjolein; Cosentino Lagomarsino, Marco; Scolari, Vittore F. (The Royal Society of Chemistry, 2024)
    Macromolecular crowding can induce the collapse of a single long polymer into a globular form due to depletion forces of entropic nature. This phenomenon has been shown to play a significant role in compacting the genome ...
  • The impact of patient-reported frailty on cardiovascular outcomes in elderly patients after non-ST-acute coronary syndrome 
    van den Broek, W. W.A.; Gimbel, M. E.; Hermanides, R. S.; Runnett, C.; Storey, R. F.; Knaapen, P.; Emans, M. E.; Oemrawsingh, R. M.; Cooke, J.; Galasko, G.; Walhout, R.; Stoel, M. G.; von Birgelen, C.; van Bergen, Paul F.M.M.; Brinckman, S. L.; Aksoy, I.; Liem, A.; van't Hof, A. W.J.; Jukema, J. W.; Heestermans, A. A.C.M.; Nicastia, D.; Alber, H.; Austin, D.; Nasser, A.; Deneer, V.; ten Berg, J. M. (Elsevier Ireland Ltd., 2024-06-15)
    Background: As life expectancy increases, the population of older individuals with coronary artery disease and frailty is growing. We aimed to assess the impact of patient-reported frailty on the treatment and prognosis ...
  • Structures, electronic properties, and delithiation thermodynamics of the heteroepitaxial α-Al2O3//LiMn2O4 (001) and (111) interfaces 
    Ramogayana, Brian; Santos-Carballal, David; Maenetja, Khomotso P.; Ngoepe, Phuti E.; de Leeuw, Nora H. (Elsevier BV, 2024-05)
    Surface coatings play a pivotal role in enhancing the performance of secondary lithium-ion batteries by mitigating undesirable electrolyte activity towards the cathode materials. Metal oxide candidates have been investigated ...
  • Orbital- and millennial-scale Asian winter monsoon variability across the Pliocene–Pleistocene glacial intensification 
    Ao, Hong; Liebrand, Diederik; Dekkers, Mark J.; Roberts, Andrew P.; Jonell, Tara N.; Jin, Zhangdong; Song, Yougui; Liu, Qingsong; Sun, Qiang; Li, Xinxia; Huang, Chunju; Qiang, Xiaoke; Zhang, Peng (Nature Publishing Group, 2024-04-19)
    Intensification of northern hemisphere glaciation (iNHG), ~2.7 million years ago (Ma), led to establishment of the Pleistocene to present-day bipolar icehouse state. Here we document evolution of orbital- and millennial-scale ...
  • On hierarchical competition through reduction of individual growth 
    Barril, Carles; Calsina, Àngel; Diekmann, Odo; Farkas, József Z. (Springer, 2024-06)
    We consider a population organised hierarchically with respect to size in such a way that the growth rate of each individual depends only on the presence of larger individuals. As a concrete example one might think of a ...
  • Integrating taxonomic signals from MAGs and contigs improves read annotation and taxonomic profiling of metagenomes 
    Hauptfeld, Ernestina; Pappas, Nikolaos; van Iwaarden, Sandra; Snoek, Basten L.; Aldas-Vargas, Andrea; Dutilh, Bas E.; von Meijenfeldt, F. A.Bastiaan (Nature Publishing Group, 2024-04-20)
    Metagenomic analysis typically includes read-based taxonomic profiling, assembly, and binning of metagenome-assembled genomes (MAGs). Here we integrate these steps in Read Annotation Tool (RAT), which uses robust taxonomic ...
  • Vagueness and volume: Testing the perception of depth in images with linear, sharp, or blurred contours 
    Stumpel, Jeroen F.H.J.; Volcic, Robert; Wijntjes, Maarten W.A. (The Association for Research in Vision and Ophthalmology, 2024-04-01)
    In European painting, a transition took place where artists started to consciously introduce blurred or soft contours in their works. There may have been several reasons for this. One suggestion in art historical literature ...
  • Total irrigation by crop in the Continental United States from 2008 to 2020 
    Ruess, P. J.; Konar, Megan; Wanders, Niko; Bierkens, Marc F.P. (Nature Publishing Group, 2024-04-17)
    We provide a dataset of irrigation water withdrawals by crop, county, year, and water source within the United States. We employ a framework we previously developed to establish a companion dataset to our original estimates. ...
  • Microbial Diversity and Open Questions about the Deep Tree of Life 
    Eme, Laura; Tamarit, Daniel (Oxford University Press, 2024-04-02)
    In this perspective, we explore the transformative impact and inherent limitations of metagenomics and single-cell genomics on our understanding of microbial diversity and their integration into the Tree of Life. We delve ...
  • Pour-El's Landscape 
    Kurahashi, Taishi; Visser, Albert (arXiv, 2023-10-07)
    We study the effective versions of several notions related to incompleteness, undecidability and inseparability along the lines of Pour-El's insights. Firstly, we strengthen Pour-El's theorem on the equivalence between ...
  • Certified $Σ_1$-sentences 
    Kurahashi, Taishi; Visser, Albert (arXiv, 2023-06-22)
    In this paper, we study the employment of $\Sigma_1$-sentences with certificate, i.e., $\Sigma_1$-sentences where a number of principles is added to ensure that the witness is sufficiently number-like. We develop certificates ...
  • Incompleteness of boundedly axiomatizable theories 
    Enayat, Ali; Visser, Albert (arXiv, 2023-11-23)
    Our main result (Theorem A) shows the incompleteness of any consistent sequential theory T formulated in a finite language such that T is axiomatized by a collection of sentences of bounded quantifier-alternation-depth. ...
  • Cation doping and oxygen vacancies in the orthorhombic FeNbO4 material for solid oxide fuel cell applications: A density functional theory study 
    Wang, Xingyu; Santos-Carballal, David; de Leeuw, Nora H. (American Institute of Physics, 2024-04-21)
    The orthorhombic phase of FeNbO4, a promising anode material for solid oxide fuel cells (SOFCs), exhibits good catalytic activity toward hydrogen oxidation. However, the low electronic conductivity of the material specifically ...
  • Development and validation of an ultra-performance liquid chromatography-tandem mass spectrometry method for the quantification of the antimalarial drug pyronaridine in human whole blood 
    Schouten, Wietse M.; Roseboom, Ignace C.; Lucas, Luc; Kabalu Tshiongo, Japhet; Muhindo Mavoko, Hypolite; Kayentao, Kassoum; Rosing, Hilde; Huitema, Alwin D.R.; Beijnen, Jos H.; Dorlo, Thomas P.C. (Elsevier, 2024-08-01)
    Malaria remains a major health concern, aggravated by emerging resistance of the parasite to existing treatments. The World Health Organization recently endorsed the use of artesunate-pyronaridine to treat uncomplicated ...