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He, M. (author), van Wijk, E. (author), van Wietmarschen, H. (author), Wang, M. (author), Sun, M. (author), Koval, S. (author), van Wijk, R. (author), Hankemeier, T. (author), van der Greef, J. (author)
The increasing prevalence of rheumatoid arthritis has driven the development of new approaches and technologies for investigating the pathophysiology of this devastating, chronic disease. From the perspective of systems biology, combining comprehensive personal data such as metabolomics profiling with ultra-weak photon emission (UPE) data may...
article 2017
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Burgos, R.C.R. (author), Cervinková, K. (author), van der Laan, T. (author), Ramautar, R. (author), van Wijk, E.P.A. (author), Cifra, M. (author), Koval, S. (author), Berger, R. (author), Hankemeier, T. (author), van der Greef, J. (author)
Ultra-weak photon emission (UPE) is light emitted spontaneously by biological systems without the use of specific luminescent complexes. UPE is emitted in the near-UV/UV–Vis/near-IR spectra during oxidative metabolic reactions; however, the specific pathways involved in UPE remain poorly understood. Here, we used HL-60 cells, a human...
article 2016
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Schoeman, J.C. (author), Harms, A.C. (author), van Wietmarschen, H.A. (author), Vreeken, R.J. (author), Berger, R. (author), Cuppen, B.V.J. (author), Lafeber, F.P.J.G. (author), van der Greef, J. (author), Hankemeier, T. (author)
Oxidised lipids, covering enzymatic and auto-oxidation-synthesised mediators, are important signalling metabolites in inflammation while also providing a readout for oxidative stress, both of which are prominent physiological processes in a plethora of diseases. Excretion of these metabolites via urine is enhanced through the phase-II...
article 2016
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Kaduk, M. (author), Hoefsloot, H.C.J. (author), Vis, D.J. (author), Reijmers, T. (author), van der Greef, J. (author), Smilde, A.K. (author), Hendriks, M.M.W.B. (author)
Modern chromatography-based metabolomics measurements generate large amounts of data in the form of abundances of metabolites. An increasingly popular way of representing and analyzing such data is by means of association networks. Ideally, such a network can be interpreted in terms of the underlying biology. A property of chromatography-based...
article 2014
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Saccenti, E. (author), Tenori, L. (author), Verbruggen, P. (author), Timmerman, M.E. (author), Bouwman, J. (author), van der Greef, J. (author), Luchinat, C. (author), Smilde, A.K. (author)
Background: Metabolomics has attracted the interest of the medical community for its potential in predicting early derangements from a healthy to a diseased metabolic phenotype. One key issue is the diversity observed in metabolic profiles of different healthy individuals, commonly attributed to the variation of intrinsic (such as (epi)genetic...
article 2014
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Ramautar, R. (author), Berger, R. (author), van der Greef, J. (author), Hankemeier, T. (author)
Metabolomics provides a direct functional read-out of the physiological status of an organism and is in principle ideally suited to describe someone's health status. Whereas only a limited number of small metabolites are used in the clinics, in inborn errors of metabolism an extensive repertoire of metabolites are used as biomarkers. We discuss...
article 2013
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Draisma, H.H. (author), Reijmers, T.H. (author), Meulman, J.J. (author), van der Greef, J. (author), Hankemeier, T. (author), Boomsma, D.I. (author)
Twin and family studies are typically used to elucidate the relative contribution of genetic and environmental variation to phenotypic variation. Here, we apply a quantitative genetic method based on hierarchical clustering, to blood plasma lipidomics data obtained in a healthy cohort consisting of 37 monozygotic and 28 dizygotic twin pairs, and...
article 2013
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van der Kloet, F.M. (author), Tempels, F.W.A. (author), Ismail, N. (author), van der Heijden, R. (author), Kasper, P.T. (author), Rojas-Cherto, M. (author), van Doorn, R. (author), Spijksma, G. (author), Koek, M. (author), van der Greef, J. (author), Mäkinen, V.P. (author), Forsblom, C. (author), Holthöfer, H. (author), Groop, P.H. (author), Reijmers, T.H. (author), Hankemeier, T. (author)
Diabetic kidney disease (DKD) is a devastating complication that affects an estimated third of patients with type 1 diabetes mellitus (DM). There is no cure once the disease is diagnosed, but early treatment at a sub-clinical stage can prevent or at least halt the progression. DKD is clinically diagnosed as abnormally high urinary albumin...
article 2012
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TNO Kwaliteit van Leven (author), Huber, M. (author), van de Vijver, L.P.L. (author), Parmentier, H. (author), Savelkoul, H. (author), Coulier, L. (author), Wopereis, S. (author), Verheij, E. (author), van der Greef, J. (author), Nierop, D. (author), Hoogenboom, R.A.P. (author)
Consumers expect organic products to be healthier. However, limited research has been performed to study the effect of organic food on health. The present study aimed to identify biomarkers of health to enable future studies in human subjects. A feeding experiment was performed in two generations of three groups of chickens differing in immune...
article 2010
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Hu, C. (author), van der Heijden, R. (author), Wang, M. (author), van der Greef, J. (author), Hankemeier, T. (author), Xu, G. (author), TNO Kwaliteit van Leven (author)
Lipidomics is a lipid-targeted metabolomics approach aiming at comprehensive analysis of lipids in biological systems. Recently, lipid profiling, or so-called lipidomics research, has captured increased attention due to the well-recognized roles of lipids in numerous human diseases to which lipid-associated disorders contribute, such as diabetes...
article 2009
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Wang, J. (author), Reijmers, T. (author), Chen, L. (author), van der Heijden, R. (author), Wang, M. (author), Peng, S. (author), Hankemeier, T. (author), Xu, G. (author), van der Greef, J. (author), TNO Kwaliteit van Leven (author)
A metabolomics-based systems toxicology approach was used to profile the urinary metabolites for the toxicity related processes and pathogenesis induced by doxorubicin (DOX) to rats. Endogenous metabolite profiles were obtained with ultra performance liquid chromatography-mass spectrometry (UPLC-MS) for rats receiving different single dosages of...
article 2009
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Wang, J. (author), van der Heijden, R. (author), Spruit, S. (author), Hankermeier, T. (author), Chan, K. (author), van der Greef, J. (author), Xu, G. (author), Wang, M. (author), TNO Kwaliteit van Leven (author)
Chinese herbal medicines, often referred as Chinese materia medica (CMM), are comprised of a complex multicomponent nature. The activities are aimed at the system level via interactions with a multitude of targets in the human body. This review aims at the toxicity aspects of CMM and its preparations at the different steps of production;...
article 2009
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Angelova, N. (author), Kong, H.-W. (author), van de Heijden, R. (author), Yang, S.-Y. (author), Choi, Y.H. (author), Kim, H.K. (author), Wang, M. (author), Hankemeier, T. (author), van der Greef, J. (author), Xu, G. (author), Verpoorte, R. (author), TNO Kwaliteit van Leven (author)
This review summarises the most recent developments in ginseng analysis, in particular the novel approaches in sample pre-treatment and the use of high-performance liquid-chromatography-mass spectrometry. The review also presents novel data on analysing ginseng extracts by nuclear magnetic resonance spectroscopy and high-resolution mass...
article 2008
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Hu, C. (author), van Dommelen, J. (author), van der Heijden, R. (author), Spijksma, G. (author), Reijmers, T.H. (author), Wang, M. (author), Slee, E. (author), Lu, X. (author), Xu, G. (author), van der Greef, J. (author), Hankemeier, T. (author), TNO Kwaliteit van Leven (author)
A reversed-phase liquid chromatography-linear ion trap-Fourier transform ion cyclotron resonance-mass spectrometry method was developed for the profiling of lipids in human and mouse plasma. With the use of a fused-core C<sub>8</sub> column and a binary gradient, more than 160 lipids belonging to eight different classes were detected in a single...
article 2008
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van Doorn, M. (author), Vogels, J. (author), Tas, A. (author), van Hoogdalem, E.J. (author), Burggraaf, J. (author), Cohen, A. (author), van der Greef, J. (author), TNO Kwaliteit van Leven (author)
Aims: To explore the usefulness of metabolomics as a method to obtain a broad array of biomarkers for the pharmacological effects of rosiglitazone (RSG) in plasma and urine samples from patients with type 2 diabetes mellitus (T2DM) and healthy volunteers (HVs). Additionally, we explored the differences in metabolite concentrations between T2DM...
article 2007
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van Ginneken, V. (author), Verhey, E. (author), Poelmann, R. (author), Ramakers, R. (author), van Dijk, K.W. (author), Ham, L. (author), Voshol, P. (author), Havekes, L. (author), van Eck, M. (author), van der Greef, J. (author), TNO Kwaliteit van Leven (author)
A metabolomic approach was applied to a mouse model of starvation-induced hepatic steatosis. After 24 h of fasting it appears that starvation reduced the phospholipids (PL), free cholesterol (FC), and cholesterol esters (CE) content of low-density lipoproteins (LDL). In liver lipid profiles major changes were observed using different techniques....
article 2007
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van der Greef, J. (author), Martin, S. (author), Juhasz, P. (author), Adourian, A. (author), Plasterer, T. (author), Verheij, E.R. (author), McBurney, R.N. (author), TNO Kwaliteit van Leven (author)
Systems biology has developed in recent years from a technology-driven enterprise to a new strategic tool in Life Sciences, particularly for innovative drug discovery and drug development. Combining the ultimate in systems phenotyping with in-depth investigations of biomolecular mechanisms will enable a revolution in our understanding of disease...
article 2007
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van der Greef, J. (author), Hankemeier, T. (author), McBurney, R.N. (author), TNO Kwaliteit van Leven (author)
Personalized medicine - defined as customized medical care for each patient's unique condition - in the broader context of personalized health, will make significant strides forward when a systems approach is implemented to achieve the ultimate in disease phenotyping and to create novel therapeutics that address system-wide molecular...
article 2006
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Jansen, J.J. (author), Hoefsloot, H.C.J. (author), van der Greef, J. (author), Timmerman, M.E. (author), Smilde, A.K. (author), TNO Kwaliteit van Leven (author)
Genomics-based technologies in systems biology have gained a lot of popularity in recent years. These technologies generate large amounts of data. To obtain information from this data, multivariate data analysis methods are required. Many of the datasets generated in genomics are multilevel datasets, in which the variation occurs on different...
article 2005
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van der Greef, J. (author), Smilde, A.K. (author), TNO Kwaliteit van Leven (author)
Metabolomics is a growing area in the field of systems biology. Metabolomics has already a long history and also the connection of metabolomics with chemometrics goes back some time. This review discusses the symbiosis of metabolomics and chemometrics with emphasis on the medical domain, puts the combination of the two in historical perspective...
article 2005
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