270 research outputs found

    The Somatic Genomic Landscape of Glioblastoma

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    We describe the landscape of somatic genomic alterations based on multi-dimensional and comprehensive characterization of more than 500 glioblastoma tumors (GBMs). We identify several novel mutated genes as well as complex rearrangements of signature receptors including EGFR and PDGFRA. TERT promoter mutations are shown to correlate with elevated mRNA expression, supporting a role in telomerase reactivation. Correlative analyses confirm that the survival advantage of the proneural subtype is conferred by the G-CIMP phenotype, and MGMT DNA methylation may be a predictive biomarker for treatment response only in classical subtype GBM. Integrative analysis of genomic and proteomic profiles challenges the notion of therapeutic inhibition of a pathway as an alternative to inhibition of the target itself. These data will facilitate the discovery of therapeutic and diagnostic target candidates, the validation of research and clinical observations and the generation of unanticipated hypotheses that can advance our molecular understanding of this lethal cancer

    Multiplatform Analysis of 12 Cancer Types Reveals Molecular Classification within and across Tissues of Origin

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    Recent genomic analyses of pathologically-defined tumor types identify “within-a-tissue” disease subtypes. However, the extent to which genomic signatures are shared across tissues is still unclear. We performed an integrative analysis using five genome-wide platforms and one proteomic platform on 3,527 specimens from 12 cancer types, revealing a unified classification into 11 major subtypes. Five subtypes were nearly identical to their tissue-of-origin counterparts, but several distinct cancer types were found to converge into common subtypes. Lung squamous, head & neck, and a subset of bladder cancers coalesced into one subtype typified by TP53 alterations, TP63 amplifications, and high expression of immune and proliferation pathway genes. Of note, bladder cancers split into three pan-cancer subtypes. The multi-platform classification, while correlated with tissue-of-origin, provides independent information for predicting clinical outcomes. All datasets are available for data-mining from a unified resource to support further biological discoveries and insights into novel therapeutic strategies

    Plantmonitoring op basis van fotosynthese sensoren : ontwikkelen en testen van sensoren

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    The basic process for crop growth and production is photosynthesis. Measuring crop photosynthesis is therefore important to monitor the status of the crop and whether the greenhouse climate is set to the needs of the crop. In this project, two monitoring systems for crop photosynthesis were developed and tested. (1) The crop photosynthesis monitor is a soft sensor that can calculate the CO2 uptake of an entire crop. The basis for these calculations are the balance between CO2 supply and CO2 loss via ventilation and crop photosynthesis. By measuring the CO2 concentration and humidity inside and outside the greenhouse, the crop photosynthesis can be calculated. (2) The CropObserver is a fluorescence sensor that measures the light use efficiency of photosynthesis of a large crop area (3 x 3 m2). The crop receives light pulses from a laser in the top of the greenhouse, the sensor measures the fluorescence signal of the crop. Both sensors were tested in a tomato crop in 2014 with promising results. The sensors functioned without problems and delivered patterns of daily photosynthesis which matched the reference measurements reasonably well up to well

    Plantmonitoring op basis van fotosynthese sensoren : Praktijktesten in de teelt van tomaat en gerbera

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    Wageningen University & Research, Business Unit Glastuinbouw has investigated two methods of monitoring crop photosynthesis that might be used in greenhouse horticulture: the crop photosynthesis monitor and the CropObserver. This project was funded by ‘Kas als Energiebron’ and executed together with PhenoVation and PlantDynamics. The data of the crop photosynthesis monitor were compared to those of the photosynthesis module of the crop growth model INTKAM. Furthermore, the pattern of stomatal opening during the day was calculated with the Stomata sensor. Measurements showed that the crop photosynthesis monitor was too sensitive to changes in window opening and in CO2 supply to determine the crop photosynthesis accurately. The CropObserver was useful in determining the relative light use efficiency of the crop. The best methods to accurately and reliably determine crop photosynthesis might be the following: 1. By a photosynthesis model (as in INTKAM) to calculate the crop photosynthesis, coupled to a sensor that monitors the crop status to register when the performance of the crop deviates from what might be expected, or 2. Via the CropObserver to which a module is added that determines the stomatal conductance and a measurement of the CO2 concentration which is necessary to translate the signal of the CropObserver to CO2 uptake by the cro

    The caregiving bind: concealing the demands of informal care can undermine the caregiving identity

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    Disagreements and misunderstandings between informal caregivers and care-receivers have been widely reported, but the causes are unclear. The present article compares the views of people with acquired brain injury and their main informal caregivers (28 dyads, n = 56). First, we report a quantitative analysis finding that the majority of disagreements were about caregivers' identity. Caregivers saw themselves as less confident, less intelligent, more embarrassed, more independent and more overprotective than care-receivers rated them to be. Caregivers understood the care-receivers' ratings but disagreed with them' Second, we report a qualitative analysis focussing on how caregivers felt themselves to be perceived by significant others. Caregivers felt that the care-receiver, family members, the general public, health services and even friends often have negative views of them. The ‘caregiving bind’ is proposed as a cause of caregivers' negative identity. It arises when caregivers try to protect the care-receiver's identity by concealing the extent of informal care provision, with the unintended consequence of undermining the prospects of the caregiver receiving positive social recognition for the challenging work of caregiving. The caregiving bind has implications for therapy and points to the potential of friends and health services to provide caregivers with positive social recognition

    Levilactobacillus paucivorans PAUCIVORANS 2020, COMB. NOV.

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    DESCRIPTIONOF <i>LEVILACTOBACILLUS PAUCIVORANS</i> COMB. NOV. <p> <i>Levilactobacillus paucivorans</i> (pau.ci.vo’rans. L. masc. adj. <i>paucus</i> few, low in number; L. part. pres. <i>vorans</i> devouring; N.L. part. adj. <i>paucivorans</i>, eating few [carbohydrates], referring to the few sugars that are fermented by the type strain).</p> <p> Basonym: <i>Lactobacillus paucivorans</i> Ehrmann <i>et al.</i> 2010, 2356 VP</p> <p>Characteristics of the species are as described [299]. The genome size of the type strain is 2.37 Mbp. The mol% G+C content of DNA is 49.1.</p> <p>Isolated from a storage tank of a brewery.</p> <p> Thetypestrainis TMW 18045 T =LMG 25291 T.</p> 1.1424 T =DSM 22467 T =JCM <p>Genome sequence accession number: JQCA00000000.</p> <p>16S rRNA gene accession number: FN185731.</p>Published as part of <i>Zheng, Jinshui, Wittouck, Stijn, Salvetti, Elisa, Franz, Charles M. A. P., Harris, Hugh M. B., Mattarelli, Paola, O'Toole, Paul W., Pot, Bruno, Vandamme, Peter, Walter, Jens, Watanabe, Koichi, Wuyts, Sander, Felis, Giovanna E., GĂ€nzle, Michael G. & Lebeer, Sarah, 2020, A taxonomic note on the genus Lactobacillus: Description of 23 novel genera, emended description of the genus Lactobacillus Beijerinck 1901, and union of Lactobacillaceae and Leuconostocaceae, pp. 2782-2858 in International Journal of Systematic and Evolutionary Microbiology 70</i> on page 2839, DOI: 10.1099/ijsem.0.004107, <a href="http://zenodo.org/record/4730536">http://zenodo.org/record/4730536</a&gt

    Liquorilactobacillus cacaonum CACAONUM 2020, COMB. NOV.

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    DESCRIPTIONOF <i>LIQUORILACTOBACILLUS CACAONUM</i> COMB. NOV. <p> <i>Liquorilactobacillus cacaonum</i> (ca.ca.o <i>′</i> num. N.L. gen. pl. n. <i>cacaonum</i>, of cacao beans).</p> <p> Basonym: <i>Lactobacillus cacaonum</i> De Bruyne <i>et al</i>. 2009, 11 VP</p> <p> <i>L. cacaonum</i> cells are non-motile small rods, they grow at 37C in MRS broth at pH 3.9; no growth is observed in MRS supplemented with NaCl [198]. The genome size of the type strain is 1.92 Mbp. Themol% G+C content of DNA is 33.9.</p> <p>Isolated from cocoa fermentation.</p> <p> Thetypestrainis R-34119 T = DSM 21116 T = LMG 24285 T.</p> <p>Genome sequence accession number: AYZE00000000.</p> <p>16S rRNA gene accession number: AM905389.</p>Published as part of <i>Zheng, Jinshui, Wittouck, Stijn, Salvetti, Elisa, Franz, Charles M. A. P., Harris, Hugh M. B., Mattarelli, Paola, O'Toole, Paul W., Pot, Bruno, Vandamme, Peter, Walter, Jens, Watanabe, Koichi, Wuyts, Sander, Felis, Giovanna E., GĂ€nzle, Michael G. & Lebeer, Sarah, 2020, A taxonomic note on the genus Lactobacillus: Description of 23 novel genera, emended description of the genus Lactobacillus Beijerinck 1901, and union of Lactobacillaceae and Leuconostocaceae, pp. 2782-2858 in International Journal of Systematic and Evolutionary Microbiology 70</i> on page 2819, DOI: 10.1099/ijsem.0.004107, <a href="http://zenodo.org/record/4730536">http://zenodo.org/record/4730536</a&gt
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