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Georges St. Laurent Yuri Vyatkin Denis Antonets Maxim Ri Yao Qi Olga Saik Dmitry Shtokalo Michiel?J.L. de?Hoon Hideya Kawaji Masayoshi Itoh Timo Lassmann Erik Arner Alistair R.R. Forrest The FANTOM consortium Estelle Nicolas Timothy A. McCaffrey Piero Carninci Yoshihide Hayashizaki Claes Wahlestedt Philipp Kapranov 《Nucleic acids research》2016,44(7):3233-3252
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Sheila N. Balinda Pascale Ondoa Ekwaro A. Obuku Aletta Kliphuis Isaac Egau Michelle Bronze Lordwin Kasambula Rob Schuurman Nicole Spieker Tobias F. Rinke de Wit Cissy Kityo ART–A consortium 《PloS one》2016,11(1)
Background
WHO recommends regular viral load (VL) monitoring of patients on antiretroviral therapy (ART) for timely detection of virological failure, prevention of acquired HIV drug resistance (HIVDR) and avoiding unnecessary switching to second-line ART. However, the cost and complexity of routine VL testing remains prohibitive in most resource limited settings (RLS). We evaluated a simple, low–cost, qualitative viral–failure assay (VFA) on dried blood spots (DBS) in three clinical settings in Uganda.Methods
We conducted a cross–sectional diagnostic accuracy study in three HIV/AIDS treatment centres at the Joint Clinical Research Centre in Uganda. The VFA employs semi-quantitative detection of HIV–1 RNA amplified from the LTR gene. We used paired dry blood spot (DBS) and plasma with the COBASAmpliPrep/COBASTaqMan, Roche version 2 (VLref) as the reference assay. We used the VFA at two thresholds of viral load, (>5,000 or >1,000 copies/ml).Results
496 paired VFA and VLref results were available for comparative analysis. Overall, VFA demonstrated 78.4% sensitivity, (95% CI: 69.7%–87.1%), 93% specificity (95% CI: 89.7%–96.4%), 89.3% accuracy (95% CI: 85%–92%) and an agreement kappa = 0.72 as compared to the VLref. The predictive values of positivity and negativity among patients on ART for >12 months were 72.7% and 99.3%, respectively.Conclusions
VFA allowed 89% of correct classification of VF. Only 11% of the patients were misclassified with the potential of unnecessary or late switch to second–line ART. Our findings present an opportunity to roll out simple and affordable VL monitoring for HIV–1 treatment in RLS. 相似文献4.
Terje A. Eikemo Rasmus Hoffmann Margarete C. Kulik Ivana Kulhánová Marlen Toch-Marquardt Gwenn Menvielle Caspar Looman Domantas Jasilionis Pekka Martikainen Olle Lundberg Johan P. Mackenbach for the EURO-GBD-SE consortium 《PloS one》2014,9(11)
Background
Socioeconomic inequalities in mortality are one of the greatest challenges for health policy in all European countries, but the potential for reducing these inequalities is unclear. We therefore quantified the impact of equalizing the distribution of six risk factors for mortality: smoking, overweight, lack of physical exercise, lack of social participation, low income, and economic inactivity.Methods
We collected and harmonized data on mortality and risk factors by educational level for 21 European populations in the early 2000s. The impact of the risk factors on mortality in each educational group was determined using Population Attributable Fractions. We estimated the impact on inequalities in mortality of two scenarios: a theoretical upward levelling scenario in which inequalities in the risk factor were completely eliminated, and a more realistic best practice scenario, in which inequalities in the risk factor were reduced to those seen in the country with the smallest inequalities for that risk factor.Findings
In general, upward levelling of inequalities in smoking, low income and economic inactivity hold the greatest potential for reducing inequalities in mortality. While the importance of low income is similar across Europe, smoking is more important in the North and East, and overweight in the South. On the basis of best practice scenarios the potential for reducing inequalities in mortality is often smaller, but still substantial in many countries for smoking and physical inactivity.Interpretation
Theoretically, there is a great potential for reducing inequalities in mortality in most European countries, for example by equity-oriented tobacco control policies, income redistribution and employment policies. Although it is necessary to achieve substantial degrees of upward levelling to make a notable difference for inequalities in mortality, the existence of best practice countries with more favourable distributions for some of these risk factors suggests that this is feasible. 相似文献5.
Torque teno sus virus (TTSuV), a member of the family Anelloviridae, is a single-stranded, circular DNA virus, widely distributed in swine populations. Presently, two TTSuV genogroups are recognized: Torque teno sus virus 1 (TTSuV1) and Torque teno sus virus 2 (TTSuV2). TTSuV genomes have been found in commercial vaccines for swine, enzyme preparations and other drugs containing components of porcine origin. However, no studies have been made looking for TTSuV in cell cultures. In the present study, a search for TTSuV genomes was carried out in cell culture lineages, in sera used as supplement for cell culture media as well as in trypsin used for cell disaggregation. DNA obtained from twenty-five cell lineages (ten from cultures in routine multiplication and fifteen from frozen ampoules), nine samples of sera used in cell culture media and five batches of trypsin were examined for the presence of TTSuV DNA. Fifteen cell lineages, originated from thirteen different species contained amplifiable TTSuV genomes, including an ampoule with a cell lineage frozen in 1985. Three cell lineages of swine origin were co-infected with both TTSuV1 and TTSuV2. One batch of trypsin contained two distinct TTSuV1 plus one TTSuV2 genome, suggesting that this might have been the source of contamination, as supported by phylogenetic analyses of sequenced amplicons. Samples of fetal bovine and calf sera used in cell culture media did not contain amplifiable TTSuV DNA. This is the first report on the presence of TTSuV as contaminants in cell lineages. In addition, detection of the viral genome in an ampoule frozen in 1985 provides evidence that TTSuV contamination is not a recent event. These findings highlight the risks of TTSuV contamination in cell cultures, what may be source for contamination of biological products or compromise results of studies involving in vitro multiplied cells. 相似文献
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Bruna Muller Cardoso Tatiane Fran?a Perles de Mello Sara Negr?o Lopes Izabel Galhardo Demarchi Daniele Stefani Lopes Lera Raíssa Bocchi Pedroso Diogenes Aparício Cortez Zilda Cristiani Gazim Sandra Mara Alessi Aristides Thais Gomes Verzignassi Silveira Maria Valdrinez Campana Lonardoni 《Memórias do Instituto Oswaldo Cruz》2015,110(8):1024-1034
The herbaceous shrub Tetradenia riparia has been traditionally usedto treat inflammatory and infectious diseases. Recently, a study showed thatT. riparia essential oil (TrEO) obtained in summer hasantileishmanial effects, although these results could be influenced by seasonalvariation. This study evaluated the activity of the TrEO obtained in differentseasons against Leishmania (Leishmania) amazonensis, in vitro and invivo. The compounds in the TrEO were analysed by gas chromatography-massspectrometry; terpenoids were present and oxygenated sesquiterpenes were the majoritycompounds (55.28%). The cytotoxicity and nitric oxide (NO) production were alsotested after TrEO treatment. The TrEO from all seasons showed a 50% growth inhibitoryconcentration for promastigotes of about 15 ng/mL; at 30 ng/mL and 3 ng/mL, the TrEOreduced intracellular amastigote infection, independently of season. The TrEO fromplants harvested in summer had the highest 50% cytotoxic concentration, 1,476 ng/mLfor J774.A1 macrophages, and in spring (90.94 ng/mL) for murine macrophages. NOproduction did not change in samples of the TrEO from different seasons. Theantileishmanial effect in vivo consisted of a reduction of the parasite load in thespleen. These results suggest that the TrEO has potential effects on L. (L.)amazonensis, consonant with its traditional use to treat parasiticdiseases. 相似文献
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Ping Wang Paul P.C.A. Menheere Arne Astrup Malene R. Andersen Marleen A. van Baak Thomas M. Larsen Susan Jebb Anthony Kafatos Andreas F.H. Pfeiffer J. Alfredo Martinez Teodora Handjieva‐Darlenska Petr Hlavaty Nathalie Viguerie Dominique Langin Wim H.M. Saris Edwin C.M. Mariman Diogenes consortium 《Obesity (Silver Spring, Md.)》2013,21(10):1997-2006
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Young-Lim Lee Haruko Takeda Gabriel Costa Monteiro Moreira Latifa Karim Erik Mullaart Wouter Coppieters The GplusE consortium Ruth Appeltant Roel F. Veerkamp Martien A. M. Groenen Michel Georges Mirte Bosse Tom Druet Aniek C. Bouwman Carole Charlier 《PLoS genetics》2021,17(7)
Clinical mastitis (CM) is an inflammatory disease occurring in the mammary glands of lactating cows. CM is under genetic control, and a prominent CM resistance QTL located on chromosome 6 was reported in various dairy cattle breeds. Nevertheless, the biological mechanism underpinning this QTL has been lacking. Herein, we mapped, fine-mapped, and discovered the putative causal variant underlying this CM resistance QTL in the Dutch dairy cattle population. We identified a ~12 kb multi-allelic copy number variant (CNV), that is in perfect linkage disequilibrium with a lead SNP, as a promising candidate variant. By implementing a fine-mapping and through expression QTL mapping, we showed that the group-specific component gene (GC), a gene encoding a vitamin D binding protein, is an excellent candidate causal gene for the QTL. The multiplicated alleles are associated with increased GC expression and low CM resistance. Ample evidence from functional genomics data supports the presence of an enhancer within this CNV, which would exert cis-regulatory effect on GC. We observed that strong positive selection swept the region near the CNV, and haplotypes associated with the multiplicated allele were strongly selected for. Moreover, the multiplicated allele showed pleiotropic effects for increased milk yield and reduced fertility, hinting that a shared underlying biology for these effects may revolve around the vitamin D pathway. These findings together suggest a putative causal variant of a CM resistance QTL, where a cis-regulatory element located within a CNV can alter gene expression and affect multiple economically important traits. 相似文献
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