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Identification of new biomarker candidates for glucocorticoid induced insulin resistance using literature mining

Fleuren, Wilco WM; Toonen, Erik JM; Verhoeven, Stefan; Frijters, Raoul; Hulsen, Tim; Rullmann, Ton; van Schaik, René; de Vlieg, Jacob; Alkema, Wynand

Background: Glucocorticoids are potent anti-inflammatory agents used for the treatment of diseases such as rheumatoid arthritis, asthma, inflammatory bowel disease and psoriasis. Unfortunately, usage is limited because of metabolic side-effects, e.g. insulin resistance, glucose intolerance and diabetes. …

2013-02-04AlgemeenArtikel

The role of Coproporphyrinogen III oxidase and Ferrochelatase genes in heme biosynthesis and regulation in Aspergillus niger

C.A. van den Hondel; P.J. Punt; H. Haas; Arthur F.J. Ram; M. Werner; S. de Weert; A.C. Franken; Christien Lokman

Heme is a suggested limiting factor in peroxidase production by Aspergillus spp., which are well-known suitable hosts for heterologous protein production. In this study, the role of genes coding for coproporphyrinogen III oxidase (hemF) and ferrochelatase (hemH) was analyzed by means of deletion and …

2013AlgemeenArtikel

Identification of biomarkers to detect residual pertussis toxin using microarray analysis of dendritic cells

R.J. Vandebriel; Saertje Verkoeijen (Lid Lectoraat); A.M. Akkermans; Stefan Vaessen (Lid Lectoraat); M.W.P. Bruysters; J.L.A. Pennings; R. Bos; Cyrille Krul (Lector)

tIn this study we aimed to identify genes that are responsive to pertussis toxin (PTx) and might eventu-ally be used as biological markers in a testing strategy to detect residual PTx in vaccines. By microarrayanalysis we screened six human cell types (bronchial epithelial cell line BEAS-2B, fetal lung …

2013Natuur & LandbouwArtikel

Org 214007-0

van Lierop, Marie-José C; Alkema, Wynand; Laskewitz, Anke J; Dijkema, Rein; van der Maaden, Hans M; Smit, Martin J; Plate, Ralf; Conti, Paolo G M; Jans, Christan G J M; Timmers, C Marco; van Boeckel, Constant A A; Lusher, Scott J; McGuire, Ross; van Schaik, Rene C; de Vlieg, Jacob; Smeets, Ruben L; Hofstra, Claudia L; Boots, Annemieke M H; van Duin, Marcel; Ingelse, Benno A; Schoonen, Willem G E J; Grefhorst, Aldo; van Dijk, Theo H; Kuipers, Folkert; Dokter, Wim H A

Glucocorticoids (GCs) such as prednisolone are potent immunosuppressive drugs but suffer from severe adverse effects, including the induction of insulin resistance. Therefore, development of so-called Selective Glucocorticoid Receptor Modulators (SGRM) is highly desirable. Here we describe a non-steroidal …

2012-11-12AlgemeenArtikel

Metagenomics for biogas production

Wedema, Ronald; Hofstede, Gert (Life Sciences & Renewable Energy); Warris, Sven; Noback, Michiel; Faber, Folkert (Life Sciences & Renewable Energy); Nap, Jan Peter

Next-generation sequencing technology allows culture- independent analysis of species and genes present in a complex microbial community. Such metagenomics may overcome the inability to culture microbes in isolation. Microbial communities of interest are for example responsible for making biogas. Many …

2012-11-07AlgemeenConferentiebijdrage

Comparative next-generation mapping of the Phytophthora infestans resistance gene Rpi-dlc2 in a European accession of Solanum dulcamara

Golas, T.M.; van de Geest, H.; Gros, J.; Sikkema, A.; D'Agostino, N.; Nap, Jan Peter; Mariani, C.; Allefs, J.J.H.M.; Rieu, I.

Phytophthora infestans, the causal agent of late blight, remains the main threat to potato production worldwide. Screening of 19 accessions of Solanum dulcamara with P. infestans isolate Ipo82001 in detached leaf assays revealed strong resistance in an individual belonging to accession A54750069-1. This …

2012-08-21AlgemeenArtikel

Molecular pathway profiling of T lymphocyte signal transduction pathways; Th1 and Th2 genomic fingerprints are defined by TCR and CD28-mediated signaling

Smeets, Ruben L; Fleuren, Wilco W M; He, Xuehui; Vink, Paul M; Wijnands, Frank; Gorecka, Monika; Klop, Henri; Bauerschmidt, Sussane; Garritsen, Anja; Koenen, Hans J P M; Joosten, Irma; Boots, Annemieke M H; Alkema, Wynand

BACKGROUND: T lymphocytes are orchestrators of adaptive immunity. Naïve T cells may differentiate into Th1, Th2, Th17 or iTreg phenotypes, depending on environmental co-stimulatory signals. To identify genes and pathways involved in differentiation of Jurkat T cells towards Th1 and Th2 subtypes we performed …

2012-03-14AlgemeenArtikel

Prednisolone-induced changes in gene-expression profiles in healthy volunteers

Toonen, Erik J M; Fleuren, Wilco W M; Nässander, Ulla; van Lierop, Marie-José C; Bauerschmidt, Susanne; Dokter, Wim H A; Alkema, Wynand

BACKGROUND: Prednisolone and other glucocorticoids (GCs) are potent anti-inflammatory and immunosuppressive drugs. However, prolonged use at a medium or high dose is hampered by side effects of which the metabolic side effects are most evident. Relatively little is known about their effect on gene-expression …

2011-07-25AlgemeenArtikel

CoPub update

Fleuren, Wilco W M; Verhoeven, Stefan; Frijters, Raoul; Heupers, Bart; Polman, Jan; van Schaik, René; de Vlieg, Jacob; Alkema, Wynand

In this article, we present CoPub 5.0, a publicly available text mining system, which uses Medline abstracts to calculate robust statistics for keyword co-occurrences. CoPub was initially developed for the analysis of microarray data, but we broadened the scope by implementing new technology and new …

2011-05-27AlgemeenArtikel

Literature mining for the discovery of hidden connections between drugs, genes and diseases

Frijters, Raoul; van Vugt, Marianne; Smeets, Ruben; van Schaik, René; de Vlieg, Jacob; Alkema, Wynand

The scientific literature represents a rich source for retrieval of knowledge on associations between biomedical concepts such as genes, diseases and cellular processes. A commonly used method to establish relationships between biomedical concepts from literature is co-occurrence. Apart from its use …

2010-09-23AlgemeenArtikel

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