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Utrecht University Repository: Recent submissions

  • Thermoresponsive oil-continuous gels based on double-interpenetrating colloidal-particle networks 
    Macias-Rodriguez, Braulio A.; Gouzy, Roland; Coulais, Corentin; Velikov, Krassimir P. (The Royal Society of Chemistry, 2024-04-14)
    Gels composed of multicomponent building blocks offer promising opportunities for the development of novel soft materials with unique and useful structures. While interpenetrating polymer networks have been extensively ...
  • Development of an Untargeted LC-MS Metabolomics Method with Postcolumn Infusion for Matrix Effect Monitoring in Plasma and Feces 
    Zhu, Pingping; Dubbelman, Anne Charlotte; Hunter, Christie; Genangeli, Michele; Karu, Naama; Harms, Amy; Hankemeier, Thomas (Springer, 2024-03-06)
    Untargeted metabolomics based on reverse phase LC-MS (RPLC-MS) plays a crucial role in biomarker discovery across physiological and disease states. Standardizing the development process of untargeted methods requires paying ...
  • Single-arm trials supporting the approval of anticancer medicinal products in the European Union: contextualization of trial results and observed clinical benefit 
    Mulder, J.; Teerenstra, S.; van Hennik, P. B.; Pasmooij, A. M.G.; Stoyanova-Beninska, V.; Voest, E. E.; de Boer, A. (BMJ Publishing Group, 2023-04)
    Background: Single-arm trials (SATs) can sometimes be used to support marketing authorization of anticancer medicinal products in the European Union. The level and durability of antitumor activity of the product as well ...
  • Drug repurposing screens identify Tubercidin as a potent antiviral agent against porcine nidovirus infections 
    Wang, Tianliang; Zheng, Guanmin; Chen, Zilu; Wang, Yue; Zhao, Chenxu; Li, Yaqin; Yuan, Yixin; Duan, Hong; Zhu, Hongsen; Yang, Xia; Li, Wentao; Du, Wenjuan; Li, Yongtao; Li, Dongliang (Elsevier, 2024-01-02)
    The emergence of new coronaviruses poses a significant threat to animal husbandry and human health. Porcine epidemic diarrhea virus (PEDV) is considered a re-emerging porcine enteric coronavirus, which causes fatal watery ...
  • Procedural metadata for geographic information using an algebra of core concept transformations 
    Steenbergen, Niels; Top, Eric; Nyamsuren, Enkhbold; Scheider, Simon (The National Center for Geographic Information and Analysis (NCGIA), 2023)
    Transformations are essential for dealing with geographic information. They are involved not only in the conversion between geodata formats and reference systems, but also in turning geodata into useful information according ...
  • Long-term exposure to ambient air pollution and risk of leukemia and lymphoma in a pooled European cohort 
    Taj, Tahir; Chen, Jie; Rodopoulou, Sophia; Strak, Maciej; de Hoogh, Kees; Poulsen, Aslak Harbo; Andersen, Zorana J.; Bellander, Tom; Brandt, Jørgen; Zitt, Emanuel; Fecht, Daniela; Forastiere, Francesco; Gulliver, John; Hertel, Ole; Hoffmann, Barbara; Hvidtfeldt, Ulla Arthur; Jørgensen, Jeanette T.; Katsouyanni, Klea; Ketzel, Matthias; Lager, Anton; Leander, Karin; Liu, Shuo; Ljungman, Petter; Severi, Gianluca; Besson, Caroline; Magnusson, Patrik K.E.; Nagel, Gabriele; Pershagen, Göran; Peters, Annette; Rizzuto, Debora; Samoli, Evangelia; Sørensen, Mette; Stafoggia, Massimo; Tjønneland, Anne; Weinmayr, Gudrun; Wolf, Kathrin; Brunekreef, Bert; Hoek, Gerard; Raaschou-Nielsen, Ole (Elsevier Ltd, 2024-02-15)
    Leukemia and lymphoma are the two most common forms of hematologic malignancy, and their etiology is largely unknown. Pathophysiological mechanisms suggest a possible association with air pollution, but little empirical ...
  • Why is changing students’ entrepreneurial intentions so hard? On dissonance reduction and the self-imposed self-fulfilling prophecy 
    van Ewijk, Anne; Cheng, Junjun; Chang, Frances (Elsevier, 2023-11)
    While most policymakers and researchers focus on how students' entrepreneurial intentions can be increased, this study examines what makes the change so difficult, i.e., why pre- and post-course entrepreneurial intentions ...
  • DeepRank-GNN-esm: A graph neural network for scoring protein-protein models using protein language model 
    Xu, Xiaotong; Bonvin, Alexandre M.J.J. (Oxford University Press, 2024-01-05)
    Motivation: Protein-Protein interactions (PPIs) play critical roles in numerous cellular processes. By modelling the 3D structures of the correspond protein complexes valuable insights can be obtained, providing, e.g. ...
  • Impact of AlphaFold on Structure Prediction of Protein Complexes: The CASP15-CAPRI Experiment 
    Lensink, Marc; Brysbaert, Guillaume; Raouraoua, Nessim; Bates, Paul; Giulini, Marco; Honorato, Rodrigo Vargas; Noort, Charlotte van; Teixeira, João; Bonvin, Alexandre M.J.J.; Kong, Ren; Shi, Hang; Lu, Xufeng; Chang, Shan; Liu, Jian; Guo, Zhiye; Chen, Xiao; Morehead, Alex; Roy, Raj; Wu, Tianqi; Giri, Nabin; Quadir, Farhan; Chen, Chen; Cheng, Jianlin; Carpio, Carlos Del; Ichiishi, Eichiro; Luis, Rodriguez-Lumbreras A; Fernández-Recio, Juan; Harmalkar, Ameya; Chu, Lee-Shin; Canner, Sam; Smanta, Rituparna; Gray, Jeffrey; Li, Hao; Lin, Peicong; He, Jiahua; Tao, Huanyu; Huang, Shengyou; Roel, Jorge; Jimenez-Garcia, Brian; Christoffer, Charles; Anika, Jain J; Kagaya, Yuki; Kannan, Harini; Nakamura, Tsukasa; Terashi, Genki; Verburgt, Jacob; Zhang, Yuanyuan; Zhang, Zicong; Fujuta, Hayato; Sekijima, Masakazu; Kihara, Daisuke; Khan, Omeir; Kotelnikov, Sergei; Ghani, Usman; Padhorny, Dzmitry; Beglov, Dmitri; Vajda, Sandor; Kozakov, Dima; Surendra, Negi S; Ricciardelli, Tiziana; Barradas-Bautista, Didier; Cao, Zhen; Chawla, Mohit; Cavallo, Luigi; Oliva, Romina; Yin, Rujie; Cheung, Melyssa; Guest, Johnathan; Lee, Jessica; Pierce, Brian; Shor, Ben; Cohen, Tomer; Halfon, Matan; Schneidman-Duhovny, Dina; Zhu, Shaowen; Yin, Rujie; Sun, Yuanfei; Shen, Yang; Maszota-Zieleniak, Martyna; Krzysztof, Bojarski K; Lubecka, Emilia; Marcisz, Mateusz; Danielsson, Annemarie; Dziadek, Lukasz; Gaardlos, Margrethe; Giełdoń, Artur; Liwo, Jozef; Samsonov, Sergey; Slusarz, Rafal; Zieba, Karolina; Sieradzan, Adam; Czaplewski, Cezary; Kobayashi, Shinpei; Miyakawa, Yuta; Kiyota, Yasuomi; Takeda-Shitaka, Mayuko; Olechnovič, Kliment; Valančauskas, Lukas; Dapkūnas, Justas; Venclovas, Ceslovas; Wallner, Björn; Yang, Lin; Hou, Chengyu; He, Xiaodong; Guo, Shuai; Jiang, Shenda; Ma, Xiaoliang; Duan, Rui; Qiu, Liming; Xu, Xianjin; Zou, Xiaoqin; Velankar, Sameer; Shoshana, Wodak J (Authorea, 2023-07-09)
    We present the results for CAPRI Round 54, the 5th joint CASP-CAPRI protein assembly prediction challenge. The Round offered 37 targets, including 14 homo-dimers, 3 homo-trimers, 13 hetero-dimers including 3 antibody-antigen ...
  • Potential of notochordal cells within injectable biomaterials to promote intervertebral disc regeneration 
    Williams, R. J.; Basatvat, S.; Schmitz, T. C.; Janani, R.; Sammon, C.; Benz, K.; Ito, K.; Tryfonidou, M. A.; Snuggs, J. W.; Le Maitre, C. L. (Swiss Society for Biomaterials, 2024-03-01)
    Low back pain is the leading cause of disability worldwide and is strongly associated with degeneration of the intervertebral disc (IVD).During degeneration the nucleus pulposus (NP) in the core of the IVD, is affected by ...
  • A new approach and insights on modelling the impact of production diseases on dairy cow welfare 
    Edwardes, F.; van der Voort, M.; Rodenburg, T. B.; Hogeveen, H. (Cambridge University Press, 2024-04)
    Animal welfare is becoming an important consideration in animal health-related decision-making. Integrating considerations of animal welfare into the decision-making process of farmers involves recognising the significance ...
  • Polycarbonate Ultracentrifuge Tube Re-use in Proteomic Analyses of Extracellular Vesicles 
    Cahalane, Rachel M.E.; Turner, Mandy E.; Clift, Cassandra L.; Blaser, Mark C.; Bogut, Gabrielle; Levy, Sydney; Kasai, Taku; Driedonks, Tom A.P.; Nolte-‘T Hoen, Esther N.M.; Aikawa, Masanori; Singh, Sasha A.; Aikawa, Elena (MYJoVE Corporation, 2024-03-08)
    Single-use laboratory plastics exacerbate the pollution crisis and contribute to consumable costs. In extracellular vesicle (EV) isolation, polycarbonate ultracentrifuge (UC) tubes are used to endure the associated high ...
  • Teaching the enthymeme: On becoming a critical-rhetorical consumer of verbal and visual arguments 
    Burke, Michael; Vlah, Ana (University of Warsaw, 2023)
    In this chapter we consider the enthymeme: first of all, what it entails, and secondly, how to best teach it in a lecture format in order to help people become critical, rhetorical consumers of both verbal and visual ...
  • Surgical tooth extraction in cats and dogs. Part 2: dental extraction techniques 
    van Velzen, Hannah; Haseler, James; Perry, Andrew (Wiley-Blackwell, 2024-03)
    Background: Considering over 80 per cent of canine and feline patients over the age of three years have dental disease (Kortegaard and others 2008), dental extractions are undoubtedly some of the most commonly performed ...
  • Using Chao's Estimator as a Stopping Criterion for Technology-Assisted Review 
    Bron, M.P.; Van der Heijden, P.G.M.; Feelders, A.J.; Siebes, A.P.J.M. (arXiv, 2024)
    Technology-Assisted Review (TAR) aims to reduce the human effort required for screening processes such as abstract screening for systematic literature reviews. Human reviewers label documents as relevant or irrelevant ...
  • Structure dependent fermentation kinetics of dietary carrot rhamnogalacturonan-I in an in vitro gut model 
    Desai, Krishna; Van den Abbeele, Pieter; Duysburgh, Cindy; Albers, Ruud; Wennekes, Tom; Schols, Henk A.; Mercenier, Annick (Elsevier, 2024-08)
    Plant derived dietary polysaccharides are important for gut health and have the potential to modulate the gut microbial community. Dietary rhamnogalacturonan-I obtained by enzymatic treatment of carrot pomace has shown ...
  • Pathways to assisted self-help housing: the evolution of Mexico’s housing governability system 
    Valenzuela, Lucía; Friendly, Abigail; van Noorloos, Femke (Liverpool University Press, 2024-04-02)
    Assisted self-help housing is a process whereby people are actively involved in the decision-making of their homes’ consolidation, receiving tools to better manage resources in building them. While such support is embedded ...
  • Lipidome characterisation and sex-specific differences in type 1 and type 2 diabetes mellitus 
    Barranco-Altirriba, Maria; Alonso, Núria; Weber, Ralf J.M.; Lloyd, Gavin R.; Hernandez, Marta; Yanes, Oscar; Capellades, Jordi; Jankevics, Andris; Winder, Catherine; Falguera, Mireia; Franch-Nadal, Josep; Dunn, Warwick B.; Perera-Lluna, Alexandre; Castelblanco, Esmeralda; Mauricio, Didac (BioMed Central, 2024-03-29)
    Background: In this study, we evaluated the lipidome alterations caused by type 1 diabetes (T1D) and type 2 diabetes (T2D), by determining lipids significantly associated with diabetes overall and in both sexes, and lipids ...
  • Associations of Anti–COVID-19 Measures and Lifestyle Changes During the COVID-19 Pandemic With Sleep Patterns in the Netherlands: A Longitudinal Study 
    Sandoval-Diez, Nekane; Smit, Lidwien A M; Boer, Jolanda M A; de Rooij, Myrna M T; Koppelman, Gerard H; van Kersen, Warner; Vonk, Judith M; Vermeulen, Roel; Gehring, Ulrike; Huss, Anke (Oxford University Press, 2024-04)
    Although there is scientific evidence for an increased prevalence of sleep disorders during the coronavirus disease 2019 (COVID-19) pandemic, there is still limited information on how lifestyle factors might have affected ...
  • Bi-allelic ACBD6 variants lead to a neurodevelopmental syndrome with progressive and complex movement disorders 
    Kaiyrzhanov, Rauan; Rad, Aboulfazl; Lin, Sheng-Jia; Bertoli-Avella, Aida; Kallemeijn, Wouter W; Godwin, Annie; Zaki, Maha S; Huang, Kevin; Lau, Tracy; Petree, Cassidy; Efthymiou, Stephanie; Ghayoor Karimiani, Ehsan; Hempel, Maja; Normand, Elizabeth A; Rudnik-Schöneborn, Sabine; Schatz, Ulrich A; Baggelaar, Marc P; Ilyas, Muhammad; Sultan, Tipu; Alvi, Javeria Raza; Ganieva, Manizha; Fowler, Ben; Aanicai, Ruxandra; Akay Tayfun, Gulsen; Al Saman, Abdulaziz; Alswaid, Abdulrahman; Amiri, Nafise; Asilova, Nilufar; Shotelersuk, Vorasuk; Yeetong, Patra; Azam, Matloob; Babaei, Meisam; Bahrami Monajemi, Gholamreza; Mohammadi, Pouria; Samie, Saeed; Banu, Selina Husna; Basto, Jorge Pinto; Kortüm, Fanny; Bauer, Mislen; Bauer, Peter; Beetz, Christian; Garshasbi, Masoud; Hameed Issa, Awatif; Eyaid, Wafaa; Ahmed, Hind; Hashemi, Narges; Hassanpour, Kazem; Herman, Isabella; Ibrohimov, Sherozjon; Abdul-Majeed, Ban A; Imdad, Maria; Isrofilov, Maksudjon; Kaiyal, Qassem; Khan, Suliman; Kirmse, Brian; Koster, Janet; Lourenço, Charles Marques; Mitani, Tadahiro; Moldovan, Oana; Murphy, David; Najafi, Maryam; Pehlivan, Davut; Rocha, Maria Eugenia; Salpietro, Vincenzo; Schmidts, Miriam; Shalata, Adel; Mahroum, Mohammad; Talbeya, Jawabreh Kassem; Taylor, Robert W; Vazquez, Dayana; Vetro, Annalisa; Waterham, Hans R; Zaman, Mashaya; Schrader, Tina A; Chung, Wendy K; Guerrini, Renzo; Lupski, James R; Gleeson, Joseph; Suri, Mohnish; Jamshidi, Yalda; Bhatia, Kailash P; Vona, Barbara; Schrader, Michael; Severino, Mariasavina; Guille, Matthew; Tate, Edward W; Varshney, Gaurav K; Houlden, Henry; Maroofian, Reza (Oxford University Press, 2024-04)
    The acyl-CoA-binding domain-containing protein 6 (ACBD6) is ubiquitously expressed, plays a role in the acylation of lipids and proteins and regulates the N-myristoylation of proteins via N-myristoyltransferase enzymes ...