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Makrodimitris, S. (author), Pronk, I.B. (author), Abdelaal, T.R.M. (author), Reinders, M.J.T. (author)Multi-omic analyses are necessary to understand the complex biological processes taking place at the tissue and cell level, but also to make reliable predictions about, for example, disease outcome. Several linear methods exist that create a joint embedding using paired information per sample, but recently there has been a rise in the...review 2024
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Smit, J.M. (author), Krijthe, J.H. (author), Kant, W. M.R. (author), Labrecque, J. A. (author), Komorowski, M. (author), Gommers, D.A.M.P.J. (author), van Bommel, J. (author), Reinders, M.J.T. (author), van Genderen, M. E. (author)This scoping review focuses on the essential role of models for causal inference in shaping actionable artificial intelligence (AI) designed to aid clinicians in decision-making. The objective was to identify and evaluate the reporting quality of studies introducing models for causal inference in intensive care units (ICUs), and to provide...review 2023
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Lähnemann, David (author), Köster, Johannes (author), Robinson, Mark D. (author), Vallejos, Catalina A. (author), Campbell, Kieran R. (author), Beerenwinkel, Niko (author), Pinello, Luca (author), Lelieveldt, B.P.F. (author), Reinders, M.J.T. (author)The recent boom in microfluidics and combinatorial indexing strategies, combined with low sequencing costs, has empowered single-cell sequencing technology. Thousands-or even millions-of cells analyzed in a single experiment amount to a data revolution in single-cell biology and pose unique data science problems. Here, we outline eleven...review 2020
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Naseri Jahfari, A. (author), Tax, D.M.J. (author), Reinders, M.J.T. (author), van der Bilt, Ivo (author)Background: Wearable technology has the potential to improve cardiovascular health monitoring by using machine learning. Such technology enables remote health monitoring and allows for the diagnosis and prevention of cardiovascular diseases. In addition to the detection of cardiovascular disease, it can exclude this diagnosis in symptomatic...review 2022
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Makrodimitris, S. (author), van Ham, R.C.H.J. (author), Reinders, M.J.T. (author)The current rate at which new DNA and protein sequences are being generated is too fast to experimentally discover the functions of those sequences, emphasizing the need for accurate Automatic Function Prediction (AFP) methods. AFP has been an active and growing research field for decades and has made considerable progress in that time....review 2020
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Reinders, Angèle (author), Übermasser, Stefan (author), van Sark, Wilfried (author), Gercek, Cihan (author), Schram, Wouter (author), Obinna, Uchechi (author), Lehfuss, Felix (author), van Mierlo, Barbara (author), Robledo, C.B. (author), van Wijk, A.J.M. (author)In this paper, a framework is presented for the evaluation of smart grid environment which is called the three-layer model. This three-layer model comprises three specific categories, or 'layers', namely, the stakeholder, market and technologies layers. Each layer is defined and explored herein, using an extensive literature study regarding...review 2018
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Wassenberg, F. (author), Verhage, R. (author), Reinders, L. (author)De buitenwijken van Franse steden staan niet goed bekend. Rellen. Hoogbouwflats. Troosteloos. Triest. Kansarm. De grands ensembles in de banlieue. In dit rapport vergelijken we Franse en Nederlandse wijken, en tevens het vernieuwingsbeleid in beide landen. Er zijn opvallende overeenkomsten en verschillen.report 2006
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- Reinders, J.E.A. (author), Ham, J.M. (author) report 2003
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- Reinders, A. (author) public lecture 2011
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van den Berg, B.A. (author), Reinders, M.J.T. (author), Pel, HJ (author), Wu, L (author), Roubos, J.A. (author), de Ridder, D. (author)Aspergillus niger is widely used for industrial enzyme production. Knowledge on high-level protein secretion could be useful to improve production rates. We used sequencebased classification methods to identify important properties<br/>for successful high-level secretion, which will be used to redesign proteins for improved secretion.poster 2011
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Babaei, S. (author), Hulsman, M. (author), Reinders, M.J.T. (author), de Ridder, J. (author)We introduce a multi-scale kernel diffusion framework and apply it to a large collection of murine retroviral insertional mutagenesis data. The diffusion strength plays the role of scale parameter. As a result, in addition to detecting genes with frequent mutations in their genomic vicinity (red nodes in the interaction graph) we can also find...poster 2012
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- van den Berg, B.A. (author), Reinders, M.J.T. (author), Pel, HJ (author), Roubos, J.A. (author), de Ridder, D. (author) poster 2012
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Mahfouz, A.M.E.T.A. (author), Lelieveldt, B.P.F. (author), Grefhorst, Aldo (author), Mol, Isabel M. (author), Sips, Hetty C.M. (author), van den Heuvel, José K. (author), Visser, Jenny A. (author), Reinders, M.J.T. (author), Meijer, Onno C. (author)Steroid hormones coordinate the activity of many brain regions by binding to nuclear receptors that act as transcription factors. This study uses genome-wide correlation of gene expression in the mouse brain to discover (i) brain regions that respond in a similar manner to particular steroids, (ii) signaling pathways that are used in a steroid...poster 2015
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- Gehrmann, T. (author), Pelkmans, Jordi F. (author), Wösten, Han A.B. (author), Ohm, Robin (author), Sonnenberg, Anton (author), Baars, Johan J.P. (author), Reinders, M.J.T. (author), Abeel, T.E.P.M.F. (author) poster 2016
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- Gehrmann, T. (author), Pelkmans, Jordi F. (author), Lugones, Luis G. (author), Wösten, Han A.B. (author), Reinders, M.J.T. (author) poster 2013
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Huisman, S.M.H. (author), Eising, E (author), Mahfouz, A.M.E.T.A. (author), Vijfhuizen, L.S. (author), Lelieveldt, B.P.F. (author), van den Maagdenberg, AMJM (author), Reinders, M.J.T. (author)Migraine is a common brain disorder, with a heritability of 50%. Genome-wide association studies have identified several loci, but interpretation remains challenging. We integrated migraine GWAS data with spatial gene expression data of adult brains from the Allen Human Brain Atlas, to identify specific brain regions and molecular pathways...poster 2016
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Taskesen, E. (author), Havermans, Marije (author), van Lom, Kirsten (author), Sanders, Mathijs (author), van Norden, Yvette (author), Bindels, Eric (author), Hoogenboezem, Remco (author), Reinders, M.J.T. (author), Valk, P.J.M. (author)Acute Myeloid Leukemia is a highly diverse disease containing many cytogenetic and molecular abnormalities. We analyzed the DNA methylation<br/>(DMP) and gene expression profiles (GEP) of 344 AML patients using an unsupervised and supervised approach. We hypothesized to better<br/>characterize the disease phenotype by combing these features as...poster 2011
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- van den Berg, B.A. (author), Reinders, M.J.T. (author), Bellomo, Domenico (author) poster 2009
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Mahfouz, A.M.E.T.A. (author), Ziats, Mark N. (author), Rennert, Owen M. (author), Lelieveldt, B.P.F. (author), Reinders, M.J.T. (author)We analyzed the spatial-temporal co-expression relationships of 455 genes previously implicated in Autism spectrum disorder (ASD) using the BrainSpan transcriptome atlas. Understanding how the heterogenous set of ASD-related genes contribute to normal brain development helps identifying cellular/molecular processes which are commonly disrupted...poster 2013
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- Hulsman, M. (author), Unadkat, HV (author), Cornelissen, Kamiel (author), de Boer, Jan (author), Reinders, M.J.T. (author) poster 2011