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UMC Repository: Recent submissions

  • Derivation of functional thymic epithelial organoid lines from adult murine thymus 
    Lim, Sangho; J. F. van Son, Gijs; Wisma Eka Yanti, Ni Luh; Andersson-Rolf, Amanda; Willemsen, Sam; Korving, Jeroen; Lee, Hong Gyun; Begthel, Harry; Clevers, Hans (Cell Press, 2024-04-23)
    Thymic epithelial cells (TECs) orchestrate T cell development by imposing positive and negative selection on thymocytes. Current studies on TEC biology are hampered by the absence of long-term ex vivo culture platforms, ...
  • p53 regulates diverse tissue-specific outcomes to endogenous DNA damage in mice 
    Hill, Ross J.; Bona, Nazareno; Smink, Job; Webb, Hannah K.; Crisp, Alastair; Garaycoechea, Juan I.; Crossan, Gerry P. (Nature Publishing Group, 2024-03-21)
    DNA repair deficiency can lead to segmental phenotypes in humans and mice, in which certain tissues lose homeostasis while others remain seemingly unaffected. This may be due to different tissues facing varying levels of ...
  • Single-cell DNA sequencing reveals a high incidence of chromosomal abnormalities in human blastocysts 
    Chavli, Effrosyni A.; Klaasen, Sjoerd J.; Van Opstal, Diane; Laven, Joop S.E.; Kops, Geert J.P.L.; Baart, Esther B. (American Society for Clinical Investigation, 2024-03-15)
    Aneuploidy, a deviation from the normal chromosome copy number, is common in human embryos and is considered a primary cause of implantation failure and early pregnancy loss. Meiotic errors lead to uniformly abnormal ...
  • Multi-omic dataset of patient-derived tumor organoids of neuroendocrine neoplasms 
    Alcala, Nicolas; Voegele, Catherine; Mangiante, Lise; Sexton-Oates, Alexandra; Clevers, Hans; Fernandez-Cuesta, Lynnette; Dayton, Talya L.; Foll, Matthieu (Oxford University Press, 2024-03-07)
    Background: Organoids are 3-dimensional experimental models that summarize the anatomical and functional structure of an organ. Although a promising experimental model for precision medicine, patient-derived tumor organoids ...
  • Improved detection of colibactin-induced mutations by genotoxic E. coli in organoids and colorectal cancer 
    Rosendahl Huber, Axel; Pleguezuelos-Manzano, Cayetano; Puschhof, Jens; Ubels, Joske; Boot, Charelle; Saftien, Aurelia; Verheul, Mark; Trabut, Laurianne T.; Groenen, Niels; van Roosmalen, Markus; Ouyang, Kyanna S.; Wood, Henry; Quirke, Phil; Meijer, Gerrit; Cuppen, Edwin; Clevers, Hans; van Boxtel, Ruben (Cell Press, 2024-03-11)
    Co-culture of intestinal organoids with a colibactin-producing pks+ E. coli strain (EcC) revealed mutational signatures also found in colorectal cancer (CRC). E. coli Nissle 1917 (EcN) remains a commonly used probiotic, ...
  • Human Airway and Alveolar Organoids from BAL Fluid 
    Liu, Monica Yun; Chen, Belinda; Borji, Mehdi; de Alba Rivas, Carolina Garcia; Dost, Antonella F.M.; Moye, Aaron L.; Abdulla, Nusrath Movval; Paschini, Margherita; Rollins, Stuart D.; Wang, Ruobing; Schnapp, Lynn M.; Khalil, Hassan A.; Wu, Catherine J.; Sharma, Nirmal S.; Kim, Carla F. (American Thoracic Society, 2024-06-15)
  • Human conjunctiva organoids to study ocular surface homeostasis and disease 
    Bannier-Hélaouët, Marie; Korving, Jeroen; Ma, Ziliang; Begthel, Harry; Giladi, Amir; Lamers, Mart M.; van de Wetering, Willine J.; Yawata, Nobuyo; Yawata, Makoto; LaPointe, Vanessa L.S.; Dickman, Mor M.; Kalmann, Rachel; Imhoff, Saskia M.; van Es, Johan H.; López-Iglesias, Carmen; Peters, Peter J.; Haagmans, Bart L.; Wu, Wei; Clevers, Hans (Cell Press, 2024-02-01)
    The conjunctival epithelium covering the eye contains two main cell types: mucus-producing goblet cells and water-secreting keratinocytes, which present mucins on their apical surface. Here, we describe long-term expanding ...
  • Investigating Object Affordance in People with Complex Regional Pain Syndrome: No Alterations in the Automatic Activation of Motor Plans 
    Ten Brink, Antonia F.; España, María F.; Navarro, Valentina; Dijkerman, Hendrik Chris; Bultitude, Janet H. (Churchill Livingstone, 2024-07)
    Complex Regional Pain Syndrome (CRPS) is a condition of chronic pain, predominantly affecting one limb. CRPS is characterised by motor changes including slowed or uncoordinated movements. Cognitive processes that drive ...
  • Functional consequences of somatic polyploidy in development 
    Darmasaputra, Gabriella S.; van Rijnberk, Lotte M.; Galli, Matilde (Company of Biologists Ltd, 2024-03)
    Polyploid cells contain multiple genome copies and arise in many animal tissues as a regulated part of development. However, polyploid cells can also arise due to cell division failure, DNA damage or tissue damage. Although ...
  • Harzianic acid exerts antimicrobial activity against Gram-positive bacteria and targets the cell membrane 
    Ouyang, Xudong; Hoeksma, Jelmer; Beenker, Wouter A.G.; van der Beek, Samantha; den Hertog, Jeroen (Frontiers Media S. A., 2024-01-29)
    The thermophilic fungus Oidiodendron flavum is a saprobe that is commonly isolated from soil. Here, we identified a Gram-positive bacteria-selective antimicrobial secondary metabolite from this fungal species, harzianic ...
  • Human fetal brain self-organizes into long-term expanding organoids 
    Hendriks, Delilah; Pagliaro, Anna; Andreatta, Francesco; Ma, Ziliang; van Giessen, Joey; Massalini, Simone; López-Iglesias, Carmen; van Son, Gijs J.F.; DeMartino, Jeff; Damen, J. Mirjam A.; Zoutendijk, Iris; Staliarova, Nadzeya; Bredenoord, Annelien L.; Holstege, Frank C.P.; Peters, Peter J.; Margaritis, Thanasis; Chuva de Sousa Lopes, Susana; Wu, Wei; Clevers, Hans; Artegiani, Benedetta (Elsevier, 2024-02-01)
    Human brain development involves an orchestrated, massive neural progenitor expansion while a multi-cellular tissue architecture is established. Continuously expanding organoids can be grown directly from multiple somatic ...
  • Response to the article of Neicun et al. entitled “Legal Reponses to Novel Psychoactive Substances implemented by ten European Countries: An analysis from legal epidemiology” 
    Hondebrink, Laura; Nugteren-van Lonkhuyzen, Annette; van den Berg, Jorrit; van Riel, Antoinette JHP; de lange, Dylan W. (Elsevier Limited, 2023-01)
  • Needle spiking, het drogeren met een injectienaald 
    Koppen, Hille; Gresnigt, Femke M J; van Ruyven, Paula; Balai, Majorie; Schippers, Emile F; Nugteren-van Lonkhuyzen, Annette; Touw, Daan J (Bohn Stafleu van Loghum, 2023-03-16)
    BACKGROUND: In the Netherlands therewereseveralreports on needlespiking: people have found themselvessubjectedtosurreptitiousinjections. CASE DESCRIPTION: A 23-year-old female was seenafterbeingsurroundedby a group of men ...
  • Inventory of current practices regarding hematopoietic stem cell transplantation in metachromatic leukodystrophy in Europe and neighboring countries 
    Schoenmakers, Daphne H.; Mochel, Fanny; Adang, Laura A.; Boelens, Jaap Jan; Calbi, Valeria; Eklund, Erik A.; Grønborg, Sabine W.; Fumagalli, Francesca; Groeschel, Samuel; Lindemans, Caroline; Sevin, Caroline; Schöls, Ludger; Ram, Dipak; Zerem, Ayelet; Graessner, Holm; Wolf, Nicole I. (BioMed Central, 2024-02-07)
    Background: For decades, early allogeneic stem cell transplantation (HSCT) has been used to slow neurological decline in metachromatic leukodystrophy (MLD). There is lack of consensus regarding who may benefit, and guidelines ...
  • First-line palliative systemic therapy alternated with oxaliplatin-based pressurized intraperitoneal aerosol chemotherapy for unresectable colorectal peritoneal metastases: A single-arm phase II trial (CRC-PIPAC-II) 
    Rauwerdink, Paulien; van de Vlasakker, Vincent C.J.; Wassenaar, Emma C.E.; Rovers, Koen P.; Los, Maartje; Herbschleb, Karin H.; Creemers, Geert Jan M.; Thijs, Annemarie M.J.; Raicu, Mihaela G.; Huysentruyt, Clément J.R.; van der Hoeven, Erik J.R.J.; Nederend, Joost; Peeters, Rifka Y.M.; Deenen, Maarten J.; Elias, Sjoerd G.; Fijneman, Remond J.A.; Constantinides, Alexander; Kranenburg, Onno; Burger, Pim W.A.; Nienhuijs, Simon W.; Wiezer, René J.; Lurvink, Robin J.; de Hingh, Ignace H.J.T.; Boerma, Djamila (W.B. Saunders Ltd, 2024-09)
    Background: Palliative systemic therapy alternated with electrostatic precipitation oxaliplatin-based pressurized intraperitoneal aerosol chemotherapy (ePIPAC) has never been prospectively investigated in patients with ...
  • Immunisation coverage and factors associated with incomplete immunisation in children under two during the COVID-19 pandemic in Sierra Leone 
    Wassenaar, Myrte; Fombah, Augustin E.; Chen, Haily; Owusu-Kyei, Kwabena; Williams, Julian; Sunders, Joe Henry C.; Llach, Mireia; Quinto, Llorenç; Sesay, Tom; Samai, Mohamed; Menéndez, Clara; González, Raquel (BioMed Central, 2024-01-10)
    Background: Routine childhood immunisation is one of the most important life-saving public health interventions. However, many children still have inadequate access to these vaccines and millions remain (partially) ...
  • Methodology for biomarker discovery with reproducibility in microbiome data using machine learning 
    Rojas-Velazquez, David; Kidwai, Sarah; Kraneveld, Aletta D.; Tonda, Alberto; Oberski, Daniel; Garssen, Johan; Lopez-Rincon, Alejandro (BioMed Central, 2024-01-15)
    Background: In recent years, human microbiome studies have received increasing attention as this field is considered a potential source for clinical applications. With the advancements in omics technologies and AI, research ...
  • Physical comorbidities of older age bipolar disorder (OABD) patients: A global replication analysis of prevalence and sex differences 
    Teixeira, Antonio L.; Almeida, Osvaldo P.; Lavin, Paola; Barbosa, Izabela G.; Alda, Martin; Altinbas, Kursat; Balanzá-Martínez, Vicent; Briggs, Farren B.S.; Calkin, Cynthia; Chen, Peijun; Dols, Annemieke; Eyler, Lisa T.; Forester, Brent P.; Forlenza, Orestes V.; Gildengers, Ariel G.; Hajek, Tomas; Haarman, Benno; Korten, Nicole; Jimenez, Esther; Lafer, Beny; Levin, Jennifer B.; Montejo, Laura; Nunes, Paula V.; Olagunju, Andrew T.; Oluwaniyi, Stephen; Oudega, Mardien L.; Patrick, Regan E.; Radua, Joaquim; Rej, Soham; Schouws, Sigfried; Soares, Jair C.; Sutherland, Ashley N.; Vieta, Eduard; Yala, Joy; Sajatovic, Martha (Elsevier, 2024-09-01)
    OBJECTIVES: To compare the prevalence of physical morbidities between older aged patients with bipolar disorder (OABD) and non-psychiatric comparisons (NC), and to analyze sex differences in prevalence. METHODS: OABD was ...
  • Global positioning system-based food environment exposures, diet-related, and cardiometabolic health outcomes: a systematic review and research agenda 
    Siddiqui, Noreen Z.; Wei, Lai; Mackenbach, Joreintje D.; Pinho, Maria G.M.; Helbich, Marco; Schoonmade, Linda J.; Beulens, Joline W.J. (BioMed Central Ltd., 2024-02-06)
    Background: Geographic access to food may affect dietary choices and health outcomes, but the strength and direction of associations may depend on the operationalization of exposure measures. We aimed to systematically ...
  • Workshop on the design and use of clinical trials with multiple endpoints, with a focus on prevention of RSV 
    Prunas, O.; Willemsen, J.; Warren, J. L.; Bont, L.; Schwartz, J. L.; Atwell, J.; Begier, E.; Dean, N.; Hirsch, I.; Karron, R.; Klugman, K.; Kramer, R.; Leidman, E.; Link-Gelles, R.; Nair, H.; Panozzo, CA A.; Pelfrene, E.; Simões, E. A.F.; Smith, P. G.; Srikantiah, P.; Sundaram, M. E.; Thindwa, D.; Vaughn, D. W.; Wilson, E.; Zar, H. J.; Pitzer, V. E.; Weinberger, D. M. (Elsevier, 2024-08)
    A meeting held in Lisbon, Portugal, in February 2023 focused on critical aspects of clinical trial design for respiratory syncytial virus (RSV) preventative therapies. The meeting addressed two primary areas: enhancing the ...