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Search Results: 1 - 10 of 145401 matches for " Jacoline B. ten Brink "
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A New Strategy to Identify and Annotate Human RPE-Specific Gene Expression
Judith C. Booij,Jacoline B. ten Brink,Sigrid M. A. Swagemakers,Annemieke J. M. H. Verkerk,Anke H. W. Essing,Peter J. van der Spek,Arthur A. B. Bergen
PLOS ONE , 2012, DOI: 10.1371/journal.pone.0009341
Abstract: To identify and functionally annotate cell type-specific gene expression in the human retinal pigment epithelium (RPE), a key tissue involved in age-related macular degeneration and retinitis pigmentosa.
Gene Expression and Functional Annotation of the Human Ciliary Body Epithelia
Sarah F. Janssen, Theo G. M. F. Gorgels, Koen Bossers, Jacoline B. ten Brink, Anke H. W. Essing, Martijn Nagtegaal, Peter J. van der Spek, Nomdo M. Jansonius, Arthur A. B. Bergen
PLOS ONE , 2012, DOI: 10.1371/journal.pone.0044973
Abstract: Purpose The ciliary body (CB) of the human eye consists of the non-pigmented (NPE) and pigmented (PE) neuro-epithelia. We investigated the gene expression of NPE and PE, to shed light on the molecular mechanisms underlying the most important functions of the CB. We also developed molecular signatures for the NPE and PE and studied possible new clues for glaucoma. Methods We isolated NPE and PE cells from seven healthy human donor eyes using laser dissection microscopy. Next, we performed RNA isolation, amplification, labeling and hybridization against 44×k Agilent microarrays. For microarray conformations, we used a literature study, RT-PCRs, and immunohistochemical stainings. We analyzed the gene expression data with R and with the knowledge database Ingenuity. Results The gene expression profiles and functional annotations of the NPE and PE were highly similar. We found that the most important functionalities of the NPE and PE were related to developmental processes, neural nature of the tissue, endocrine and metabolic signaling, and immunological functions. In total 1576 genes differed statistically significantly between NPE and PE. From these genes, at least 3 were cell-specific for the NPE and 143 for the PE. Finally, we observed high expression in the (N)PE of 35 genes previously implicated in molecular mechanisms related to glaucoma. Conclusion Our gene expression analysis suggested that the NPE and PE of the CB were quite similar. Nonetheless, cell-type specific differences were found. The molecular machineries of the human NPE and PE are involved in a range of neuro-endocrinological, developmental and immunological functions, and perhaps glaucoma.
Gene Expression and Functional Annotation of the Human and Mouse Choroid Plexus Epithelium
Sarah F. Janssen, Sophie J. F. van der Spek, Jacoline B. ten Brink, Anke H. W. Essing, Theo G. M. F. Gorgels, Peter J. van der Spek, Nomdo M. Jansonius, Arthur A. B. Bergen
PLOS ONE , 2013, DOI: 10.1371/journal.pone.0083345
Abstract: Background The choroid plexus epithelium (CPE) is a lobed neuro-epithelial structure that forms the outer blood-brain barrier. The CPE protrudes into the brain ventricles and produces the cerebrospinal fluid (CSF), which is crucial for brain homeostasis. Malfunction of the CPE is possibly implicated in disorders like Alzheimer disease, hydrocephalus or glaucoma. To study human genetic diseases and potential new therapies, mouse models are widely used. This requires a detailed knowledge of similarities and differences in gene expression and functional annotation between the species. The aim of this study is to analyze and compare gene expression and functional annotation of healthy human and mouse CPE. Methods We performed 44k Agilent microarray hybridizations with RNA derived from laser dissected healthy human and mouse CPE cells. We functionally annotated and compared the gene expression data of human and mouse CPE using the knowledge database Ingenuity. We searched for common and species specific gene expression patterns and function between human and mouse CPE. We also made a comparison with previously published CPE human and mouse gene expression data. Results Overall, the human and mouse CPE transcriptomes are very similar. Their major functionalities included epithelial junctions, transport, energy production, neuro-endocrine signaling, as well as immunological, neurological and hematological functions and disorders. The mouse CPE presented two additional functions not found in the human CPE: carbohydrate metabolism and a more extensive list of (neural) developmental functions. We found three genes specifically expressed in the mouse CPE compared to human CPE, being ACE, PON1 and TRIM3 and no human specifically expressed CPE genes compared to mouse CPE. Conclusion Human and mouse CPE transcriptomes are very similar, and display many common functionalities. Nonetheless, we also identified a few genes and pathways which suggest that the CPE between mouse and man differ with respect to transport and metabolic functions.
The ERCC6 Gene and Age-Related Macular Degeneration
Dominique C. Baas,Dominiek D. Despriet,Theo G. M. F. Gorgels,Julie Bergeron-Sawitzke,André G. Uitterlinden,Albert Hofman,Cornelia M. van Duijn,Joanna E. Merriam,R. Theodore Smith,Gaetano R. Barile,Jacoline B. ten Brink,Johannes R. Vingerling,Caroline C. W. Klaver,Rando Allikmets,Michael Dean,Arthur A. B. Bergen
PLOS ONE , 2012, DOI: 10.1371/journal.pone.0013786
Abstract: Age-related macular degeneration (AMD) is the leading cause of irreversible visual loss in the developed countries and is caused by both environmental and genetic factors. A recent study (Tuo et al., PNAS) reported an association between AMD and a single nucleotide polymorphism (SNP) (rs3793784) in the ERCC6 (NM_000124) gene. The risk allele also increased ERCC6 expression. ERCC6 is involved in DNA repair and mutations in ERCC6 cause Cockayne syndrome (CS). Amongst others, photosensitivity and pigmentary retinopathy are hallmarks of CS.
Common Genetic Determinants of Intraocular Pressure and Primary Open-Angle Glaucoma
Leonieke M. E. van Koolwijk equal contributor,Wishal D. Ramdas equal contributor,M. Kamran Ikram,Nomdo M. Jansonius,Francesca Pasutto,Pirro G. Hysi,Stuart Macgregor,Sarah F. Janssen,Alex W. Hewitt,Ananth C. Viswanathan,Jacoline B. ten Brink,S. Mohsen Hosseini,Najaf Amin,Dominiek D. G. Despriet,Jacqueline J. M. Willemse-Assink,Rogier Kramer,Fernando Rivadeneira,Maksim Struchalin,Yurii S. Aulchenko,Nicole Weisschuh,Matthias Zenkel,Christian Y. Mardin,Eugen Gramer,Ulrich Welge-Lüssen,Grant W. Montgomery,Francis Carbonaro,Terri L. Young,The DCCT/EDIC Research Group,Céline Bellenguez,Peter McGuffin,Paul J. Foster,Fotis Topouzis,Paul Mitchell,Jie Jin Wang,Tien Y. Wong,Monika A. Czudowska,Albert Hofman,Andre G. Uitterlinden,Roger C. W. Wolfs,Paulus T. V. M. de Jong,Ben A. Oostra,Andrew D. Paterson,Wellcome Trust Case Control Consortium 2,David A. Mackey,Arthur A. B. Bergen,André Reis,Christopher J. Hammond,Johannes R. Vingerling,Hans G. Lemij,Caroline C. W. Klaver,Cornelia M. van Duijn
PLOS Genetics , 2012, DOI: 10.1371/journal.pgen.1002611
Abstract: Intraocular pressure (IOP) is a highly heritable risk factor for primary open-angle glaucoma and is the only target for current glaucoma therapy. The genetic factors which determine IOP are largely unknown. We performed a genome-wide association study for IOP in 11,972 participants from 4 independent population-based studies in The Netherlands. We replicated our findings in 7,482 participants from 4 additional cohorts from the UK, Australia, Canada, and the Wellcome Trust Case-Control Consortium 2/Blue Mountains Eye Study. IOP was significantly associated with rs11656696, located in GAS7 at 17p13.1 (p = 1.4×10?8), and with rs7555523, located in TMCO1 at 1q24.1 (p = 1.6×10?8). In a meta-analysis of 4 case-control studies (total N = 1,432 glaucoma cases), both variants also showed evidence for association with glaucoma (p = 2.4×10?2 for rs11656696 and p = 9.1×10?4 for rs7555523). GAS7 and TMCO1 are highly expressed in the ciliary body and trabecular meshwork as well as in the lamina cribrosa, optic nerve, and retina. Both genes functionally interact with known glaucoma disease genes. These data suggest that we have identified two clinically relevant genes involved in IOP regulation.
IL-10 Is Critically Involved in Mycobacterial HSP70 Induced Suppression of Proteoglycan-Induced Arthritis
Lotte Wieten, Suzanne E. Berlo, Corlinda B. ten Brink, Peter J. van Kooten, Mahavir Singh, Ruurd van der Zee, Tibor T. Glant, Femke Broere, Willem van Eden
PLOS ONE , 2009, DOI: 10.1371/journal.pone.0004186
Abstract: Background The anti-inflammatory capacity of heat shock proteins (HSP) has been demonstrated in various animal models of inflammatory diseases and in patients. However, the mechanisms underlying this anti-inflammatory capacity are poorly understood. Therefore, the possible protective potential of HSP70 and its mechanisms were studied in proteoglycan (PG) induced arthritis (PGIA), a chronic and relapsing, T cell mediated murine model of arthritis. Methodology/Principal Findings HSP70 immunization, 10 days prior to disease induction with PG, inhibited arthritis both clinically and histologically. In addition, it significantly reduced PG-specific IgG2a but not IgG1 antibody production. Furthermore, IFN-γ and IL-10 production upon in vitro restimulation with HSP70 was indicative of the induction of an HSP70-specific T cell response in HSP70 immunized mice. Remarkably, HSP70 treatment also modulated the PG-specific T cell response, as shown by the increased production of IL-10 and IFN-γ upon in vitro PG restimulation. Moreover, it increased IL-10 mRNA expression in CD4+CD25+ cells. HSP70 vaccination did not suppress arthritis in IL-10?/? mice, indicating the crucial role of IL-10 in the protective effect. Conclusions/Significance In conclusion, a single mycobacterial HSP70 immunization can suppress inflammation and tissue damage in PGIA and results in an enhanced regulatory response as shown by the antigen-specific IL-10 production. Moreover, HSP70 induced protection is critically IL-10 dependent.
Massive MIMO: How many antennas do we need?
Jakob Hoydis,Stephan ten Brink,Merouane Debbah
Mathematics , 2011,
Abstract: We consider a multicell MIMO uplink channel where each base station (BS) is equipped with a large number of antennas N. The BSs are assumed to estimate their channels based on pilot sequences sent by the user terminals (UTs). Recent work has shown that, as N grows infinitely large, (i) the simplest form of user detection, i.e., the matched filter (MF), becomes optimal, (ii) the transmit power per UT can be made arbitrarily small, (iii) the system performance is limited by pilot contamination. The aim of this paper is to assess to which extent the above conclusions hold true for large, but finite N. In particular, we derive how many antennas per UT are needed to achieve \eta % of the ultimate performance. We then study how much can be gained through more sophisticated minimum-mean-square-error (MMSE) detection and how many more antennas are needed with the MF to achieve the same performance. Our analysis relies on novel results from random matrix theory which allow us to derive tight approximations of achievable rates with a class of linear receivers.
On the Convergence Speed of Spatially Coupled LDPC Ensembles
Vahid Aref,Laurent Schmalen,Stephan ten Brink
Computer Science , 2013,
Abstract: Spatially coupled low-density parity-check codes show an outstanding performance under the low-complexity belief propagation (BP) decoding algorithm. They exhibit a peculiar convergence phenomenon above the BP threshold of the underlying non-coupled ensemble, with a wave-like convergence propagating through the spatial dimension of the graph, allowing to approach the MAP threshold. We focus on this particularly interesting regime in between the BP and MAP thresholds. On the binary erasure channel, it has been proved that the information propagates with a constant speed toward the successful decoding solution. We derive an upper bound on the propagation speed, only depending on the basic parameters of the spatially coupled code ensemble such as degree distribution and the coupling factor $w$. We illustrate the convergence speed of different code ensembles by simulation results, and show how optimizing degree profiles helps to speed up the convergence.
Editorial Comments/ Redaksionele Kommentaar
Christiaan B Brink
Health SA Gesondheid , 2007, DOI: 10.4102/hsag.v12i2.244
Abstract: The current issue of Health SA Gesondheid will interest a wide audience of scientists and health professionals working in the areas of health care management, health care economics, policy making, nursing, psychology, sociology, ethics and education. Opsomming Hierdie uitgawe van Health SA Gesondheid sal ‘n wye gehoor van wetenskaplikes en professionele gesondheidswerkers, wat werksaam is in die velde van gesondheidsorgbestuur, gesondheidsorgekonomie, beleidmaking, verpleegkunde, sielkunde, sosiologie en opvoedkunde, interesseer. *Please note: This is a reduced version of the abstract. Please refer to PDF for full text.
Seedling Stage Strategies as a Means of Habitat Specialization in Herbaceous Plants
Dirk-Jan ten Brink, Hans Henrik Bruun
PLOS ONE , 2011, DOI: 10.1371/journal.pone.0023006
Abstract: The regeneration niche has been little investigated in studies of community assembly and plant distribution. We examined adaptive associations between seedling traits and habitat specialization. Two habitat contrasts were investigated across several evolutionary lineages of angiosperms: species specialized to forest vs. open habitats and to dry vs. wet habitats. We also tested whether effects of shade and drought vary independently or, alternatively, if shade may amplify effects on drought-stressed plants. Seedling response in terms of growth rate, height, slenderness, specific leaf area (SLA) and degree of elongation (longest internode; petiole or leaf-sheath depending on species' morphology) to light and watering treatments was assessed. We used a factorial design involving three light regimes and two watering frequencies. The open-shaded habitat contrast and the dry-wet habitat contrast were investigated using six and five pairs of congeneric species, respectively. The congeneric species pair design controlled for confounding effects of evolutionary history prior to divergence in habitat specialization. Seedling growth rate generally decreased with shade and reduced watering frequency. Plant height was generally largest at intermediate light. Specialization to shaded habitats was associated with a more conservative growth strategy, i.e. showing a more modest growth response to increasing light. Species from all habitats showed the highest relative elongation at intermediate light, except for the moist-habitat species, for which elongation increased with shade. Contrary to our expectations, species from dry habitats grew bigger than species from moist habitats in all treatments. SLA responded to the light treatment, but not to watering regime. The contrasting light and moisture conditions across habitats appear to not have selected for differences in SLA. We conclude that seedling phase strategies of resource allocation in temperate herbs contribute to their habitat specialization. Habitat-specific seedling strategies and trade-offs in response to resource availability and environmental conditions may be important to adaptive specialization.
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