| 1. |
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| 2. |
- Lopes, Fatima, et al.
(author)
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Identification of novel genetic causes of Rett syndrome-like phenotypes
- 2016
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In: Journal of Medical Genetics. - : BMJ. - 0022-2593 .- 1468-6244. ; 53:3, s. 190-199
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Journal article (peer-reviewed)abstract
- Background The aim of this work was to identify new genetic causes of Rett-like phenotypes using array comparative genomic hybridisation and a whole exome sequencing approach. Methods and results We studied a cohort of 19 Portuguese patients (16 girls, 3 boys) with a clinical presentation significantly overlapping Rett syndrome (RTT). Genetic analysis included filtering of the single nucleotide variants and indels with preference for de novo, homozygous/compound heterozygous, or maternally inherited X linked variants. Examination by MRI and muscle biopsies was also performed. Pathogenic genomic imbalances were found in two patients (10.5%): an 18q21.2 deletion encompassing four exons of the TCF4 gene and a mosaic UPD of chromosome 3. Variants in genes previously implicated in neurodevelopmental disorders (NDD) were identified in six patients (32%): de novo variants in EEF1A2, STXBP1 and ZNF238 were found in three patients, maternally inherited X linked variants in SLC35A2, ZFX and SHROOM4 were detected in two male patients and one homozygous variant in EIF2B2 was detected in one patient. Variants were also detected in five novel NDD candidate genes (26%): we identified de novo variants in the RHOBTB2, SMARCA1 and GABBR2 genes; a homozygous variant in EIF4G1; compound heterozygous variant in HTT. Conclusions Network analysis reveals that these genes interact by means of protein interactions with each other and with the known RTT genes. These findings expand the phenotypical spectrum of previously known NDD genes to encompass RTT-like clinical presentations and identify new candidate genes for RTT-like phenotypes.
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| 3. |
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| 4. |
- Mendieta-Leiva, Glenda, et al.
(author)
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EpIG-DB: A database of vascular epiphyte assemblages in the Neotropics
- 2020
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In: Journal of Vegetation Science. - : Wiley. - 1100-9233 .- 1654-1103. ; 31, s. 518-528
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Journal article (peer-reviewed)abstract
- Vascular epiphytes are a diverse and conspicuous component of biodiversity in tropical and subtropical forests. Yet, the patterns and drivers of epiphyte assemblages are poorly studied in comparison with soil-rooted plants. Current knowledge about diversity patterns of epiphytes mainly stems from local studies or floristic inventories, but this information has not yet been integrated to allow a better understanding of large-scale distribution patterns. EpIG-DB, the first database on epiphyte assemblages at the continental scale, resulted from an exhaustive compilation of published and unpublished inventory data from the Neotropics. The current version of EpIG-DB consists of 463,196 individual epiphytes from 3,005 species, which were collected from a total of 18,148 relevés (host trees and ‘understory’ plots). EpIG-DB reports the occurrence of ‘true’ epiphytes, hemiepiphytes and nomadic vines, including information on their cover, abundance, frequency and biomass. Most records (97%) correspond to sampled host trees, 76% of them aggregated in forest plots. The data is stored in a TURBOVEG database using the most up-to-date checklist of vascular epiphytes. A total of 18 additional fields were created for the standardization of associated data commonly used in epiphyte ecology (e.g. by considering different sampling methods). EpIG-DB currently covers six major biomes across the whole latitudinal range of epiphytes in the Neotropics but welcomes data globally. This novel database provides, for the first time, unique biodiversity data on epiphytes for the Neotropics and unified guidelines for future collection of epiphyte data. EpIG-DB will allow exploration of new ways to study the community ecology and biogeography of vascular epiphytes.
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| 5. |
- Barbosa, Pedro, et al.
(author)
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Bariatric Surgery Induces Alterations in the Immune Profile of Peripheral Blood T Cells
- 2024
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In: Biomolecules. - : MDPI. - 2218-273X. ; 14:2
-
Journal article (peer-reviewed)abstract
- Low-grade inflammation is closely linked to obesity and obesity-related comorbidities; therefore, immune cells have become an important topic in obesity research. Here, we performed a deep phenotypic characterization of circulating T cells in people with obesity, using flow cytometry. Forty-one individuals with obesity (OB) and clinical criteria for bariatric surgery were enrolled in this study. We identified and quantified 44 different circulating T cell subsets and assessed their activation status and the expression of immune-checkpoint molecules, immediately before (T1) and 7-18 months after (T2) the bariatric surgery. Twelve age- and sex-matched healthy individuals (nOB) were also recruited. The OB participants showed higher leukocyte counts and a higher percentage of neutrophils. The percentage of circulating Th1 cells were negatively correlated to HbA1c and insulin levels. OB Th1 cells displayed a higher activation status and lower PD-1 expression. The percentage of Th17 and Th1/17 cells were increased in OB, whereas the CD4+ Tregs' percentage was decreased. Interestingly, a higher proportion of OB CD4+ Tregs were polarized toward Th1- and Th1/17-like cells and expressed higher levels of CCR5. Bariatric surgery induced the recovery of CD4+ Treg cell levels and the expansion and activation of Tfh and B cells. Our results show alterations in the distribution and phenotype of circulating T cells from OB people, including activation markers and immune-checkpoint proteins, demonstrating that different metabolic profiles are associated to distinct immune profiles, and both are modulated by bariatric surgery.
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| 6. |
- Barbosa, Pedro, et al.
(author)
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CD8+Treg cells play a role in the obesity-associated insulin resistance
- 2024
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In: Life Sciences. - : Elsevier. - 0024-3205 .- 1879-0631. ; 336
-
Journal article (peer-reviewed)abstract
- Obesity-related chronic low-grade inflammation may trigger insulin resistance and type 2 diabetes (T2D) development. Cells with regulatory phenotype have been shown to be reduced during obesity, especially CD4+ Treg cells. However, little is known about the CD8+ Treg cells. Therefore, we aim to characterize the CD8+ Treg cells in human peripheral blood and adipose tissue, specifically, to address the effect of obesity and insulin resistance in this regulatory immune cell population. A group of 42 participants with obesity (OB group) were recruited. Fourteen of them were evaluated pre-and post-bariatric surgery. A group of age-and sex-matched healthy volunteers (n = 12) was also recruited (nOB group). CD8+ Treg cell quantification and phenotype were evaluated by flow cytometry, in peripheral blood (PB), subcutaneous (SAT), and visceral adipose tissues (VAT). The OB group displayed a higher percentage of CD8+ Treg cells in PB, compared to the nOB. In addition, they were preferentially polarized into Tc1-and Tc1/17-like CD8+ Treg cells, compared to nOB. Moreover, SAT displayed the highest content of CD8+ Tregs infiltrated, compared to PB or VAT, while CD8+ Tregs infiltrating VAT displayed a higher percentage of cells with Tc1-like phenotype. Participants with pre-diabetes displayed a reduced percentage of TIM-3+CD8+ Tregs in circulation, and PD-1+CD8+ Tregs infiltrated in the VAT. An in-crease in the percentage of circulating Tc1-like CD8+ Treg cells expressing PD-1 was observed post-surgery. In conclusion, obesity induces significant alterations in CD8+ Treg cells, affecting their percentage and phenotype, as well as the expression of important immune regulatory molecules.
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| 7. |
- Barbosa, Pedro M., et al.
(author)
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Large Seasonal and Habitat Differences in Methane Ebullition on the Amazon Floodplain
- 2021
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In: Journal of Geophysical Research - Biogeosciences. - : American Geophysical Union (AGU). - 2169-8953 .- 2169-8961. ; 126:7
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Journal article (peer-reviewed)abstract
- Tropical floodplains are an important source of methane (CH4) to the atmosphere, and ebullitive fluxes are likely to be important. We report direct measurements of CH4 ebullition in common habitats on the Amazon floodplain over two years based on floating chambers that allowed detection of bubbles, and submerged bubble traps. Ebullition was highly variable in space and time. Of the 840 floating chamber measurements (equivalent to 8,690 min of 10-min deployments), 22% captured bubbles. Ebullitive CH4 fluxes, measured using bubble traps deployed for a total of approximately 230 days, ranged from 0 to 109 mmol CH4 m−2 d−1, with a mean of 4.4 mmol CH4 m−2 d−1. During falling water, a hydroacoustic echosounder detected bubbles in 24% of the 70-m segments over 34 km. Ebullitive flux increased as the water level fell faster during falling water periods. In flooded forests, highest ebullitive fluxes occurred during falling water, while in open water and herbaceous plant habitats, higher ebullitive fluxes were measured during low water periods. The contribution of diffusive plus ebullitive CH4 flux represented by ebullition varied from 1% (high and rising water in open water of the lake) to 93% (falling water in flooded forests) based on bubble traps. Combining ebullitive and diffusive fluxes among habitats in relation to variations in water depth and areal coverage of aquatic habitats provides the basis for improved floodplain-wide estimates of CH4 evasion.Plain Language SummaryMethane is a trace gas that contributes to global warming, and wetlands are major natural sources. High concentrations of methane in sediments can lead to large releases to the atmosphere via bubbling (called ebullition). The Amazon basin is known to be an important source of CH4 to the atmosphere. We measured CH4 ebullition over two years in flooded forest, macrophytes and open water habitats in an Amazon floodplain using floating chambers that allowed detection of bubbles, and bubble traps; we also used hydroacoustics to detect bubbles in the water column. We found high spatial and temporal variability in all habitats, with ebullitive fluxes tending to be higher when water level was low or falling. While ebullition was often the major route of evasion of methane to the atmosphere, it varied from only about 1% to 93% of the diffusive plus ebullitive flux. The episodic nature and spatial variations of ebullition introduce considerable uncertainty in estimates of ebullitive CH4 flux. Our results have important implications for the regionalization of CH4 fluxes for Amazon floodplains and inland waters elsewhere, and emphasize the inter-related temporal and spatial variations in habitats and fluxes especially in aquatic systems with large seasonal variations in extent.
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| 8. |
- Bose, Sourav, et al.
(author)
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Optical Lithography Patterning of SiO2 Layers for Interface Passivation of Thin Film Solar Cells
- 2018
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In: Solar RRL. - : Wiley. - 2367-198X. ; 2:12
-
Journal article (peer-reviewed)abstract
- Ultrathin Cu(In,Ga)Se-2 solar cells are a promising way to reduce costs and to increase the electrical performance of thin film solar cells. An optical lithography process that can produce sub-micrometer contacts in a SiO2 passivation layer at the CIGS rear contact is developed in this work. Furthermore, an optimization of the patterning dimensions reveals constrains over the features sizes. High passivation areas of the rear contact are needed to passivate the CIGS interface so that high performing solar cells can be obtained. However, these dimensions should not be achieved by using long distances between the contacts as they lead to poor electrical performance due to poor carrier extraction. This study expands the choice of passivation materials already known for ultrathin solar cells and its fabrication techniques.
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| 9. |
- Cunha, Jose M. V., et al.
(author)
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High-Performance and Industrially Viable Nanostructured SiOx Layers for Interface Passivation in Thin Film Solar Cells
- 2021
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In: Solar RRL. - : John Wiley & Sons. - 2367-198X. ; 5:3
-
Journal article (peer-reviewed)abstract
- Herein, it is demonstrated, by using industrial techniques, that a passivation layer with nanocontacts based on silicon oxide (SiOx) leads to significant improvements in the optoelectronical performance of ultrathin Cu(In,Ga)Se-2 (CIGS) solar cells. Two approaches are applied for contact patterning of the passivation layer: point contacts and line contacts. For two CIGS growth conditions, 550 and 500 degrees C, the SiOx passivation layer demonstrates positive passivation properties, which are supported by electrical simulations. Such positive effects lead to an increase in the light to power conversion efficiency value of 2.6% (absolute value) for passivated devices compared with a nonpassivated reference device. Strikingly, both passivation architectures present similar efficiency values. However, there is a trade-off between passivation effect and charge extraction, as demonstrated by the trade-off between open-circuit voltage (V-oc) and short-circuit current density (J(sc)) compared with fill factor (FF). For the first time, a fully industrial upscalable process combining SiOx as rear passivation layer deposited by chemical vapor deposition, with photolithography for line contacts, yields promising results toward high-performance and low-cost ultrathin CIGS solar cells with champion devices reaching efficiency values of 12%, demonstrating the potential of SiOx as a passivation material for energy conversion devices.
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| 10. |
- de Melo, Michaela L, et al.
(author)
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Flood pulse regulation of bacterioplankton community composition in an Amazonian floodplain lake
- 2019
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In: Freshwater Biology. - : Wiley. - 0046-5070 .- 1365-2427. ; 64:1, s. 108-120
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Journal article (peer-reviewed)abstract
- Understanding spatial and temporal dynamics of microbial communities is a central challenge in microbial ecology since microorganisms play a key role in ecosystem functioning and biogeochemical cycles. Amazonian aquatic systems comprise a dynamic mosaic of heterogeneous habits but are understudied and there is limited information about the mechanisms that shape bacterial community composition (BCC). There is a consensus that environmental selection (species sorting) and dispersal processes (source?sink dynamics) act in concert to shape the composition of these communities, but the relative importance of each mechanism may vary dramatically through time and between systems. Applying 16S rRNA gene amplicon high-throughput sequencing, we studied factors and processes that modulate BCC in an Amazonian floodplain lake and used source-tracking models to trace the main dispersal sources of microorganisms in the whole floodplain system during a full hydrological cycle. Our source-tracking models indicated that dispersal processes were predominant, explaining most of the BCC variability throughout the study period. We observed more sources contributing to the sink community during the falling water than rising water period, when contributions from the Solim?es River dominated. There was a clear seasonal pattern in BCC, closely related to environmental variables, suggesting that the successful establishment of dispersing bacteria also depends on environmental filtering that is linked to water flow. In summary, source?sink dynamics and species sorting were strongly affected by water exchange and connectivity with the main river that varied throughout the flood pulse cycle. Our results demonstrated the influence of lateral transport and temporal dynamics on BCC in Amazonian floodplain lakes that could ultimately impact regional carbon budgets and biogeochemical cycles.
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| 11. |
- Felizardo, Katia Romero, et al.
(author)
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Visual Text Mining : Ensuring the Presence of Relevant Studies in Systematic Literature Reviews
- 2015
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In: International journal of software engineering and knowledge engineering. - : World Scientific. - 0218-1940. ; 25:5, s. 909-928
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Journal article (peer-reviewed)abstract
- One of the activities associated with the Systematic Literature Review (SLR) process is the selection review of primary studies. When the researcher faces large volumes of primary studies to be analyzed, the process used to select studies can be arduous. In a previous experiment, we conducted a pilot test to compare the performance and accuracy of PhD students in conducting the selection review activity manually and using Visual Text Mining (VTM) techniques. The goal of this paper is to describe a replication study involving PhD and Master students. The replication study uses the same experimental design and materials of the original experiment. This study also aims to investigate whether the researcher's level of experience with conducting SLRs and research in general impacts the outcome of the primary study selection step of the SLR process. The replication results have con¯rmed the outcomes of the original experiment, i.e., VTM is promising and can improve the performance of the selection review of primary studies. We also observed that both accuracy and performance increase in function of the researcher's experience level in conducting SLRs. The use of VTM can indeed be beneficial during the selection review activity.
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| 12. |
- Hatos, Andras, et al.
(author)
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DisProt : intrinsic protein disorder annotation in 2020
- 2020
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In: Nucleic Acids Research. - : Oxford University Press (OUP). - 0305-1048 .- 1362-4962. ; 48:D1, s. D269-D276
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Journal article (peer-reviewed)abstract
- The Database of Protein Disorder (DisProt, URL:https://disprot.org) provides manually curated annotations of intrinsically disordered proteins from the literature. Here we report recent developments with DisProt (version 8), including the doubling of protein entries, a new disorder ontology, improvements of the annotation format and a completely new website. The website includes a redesigned graphical interface, a better search engine, a clearer API for programmatic access and a new annotation interface that integrates text mining technologies. The new entry format provides a greater flexibility, simplifies maintenance and allows the capture of more information from the literature. The new disorder ontology has been formalized and made interoperable by adopting the OWL format, as well as its structure and term definitions have been improved. The new annotation interface has made the curation process faster and more effective. We recently showed that new DisProt annotations can be effectively used to train and validate disorder predictors. We believe the growth of DisProt will accelerate, contributing to the improvement of function and disorder predictors and therefore to illuminate the 'dark' proteome.
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| 13. |
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| 14. |
- Lopes, Tomas S., et al.
(author)
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Rear Optical Reflection and Passivation Using a Nanopatterned Metal/Dielectric Structure in Thin-Film Solar Cells
- 2019
-
In: IEEE Journal of Photovoltaics. - : IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC. - 2156-3381 .- 2156-3403. ; 9:5, s. 1421-1427
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Journal article (peer-reviewed)abstract
- Currently, one of the main limitations in ultrathin Cu(In,Ga)Se-2 (CIGS) solar cells are the optical losses, since the absorber layer is thinner than the light optical path. Hence, light management, including rear optical reflection, and light trapping is needed. In this paper, we focus on increasing the rear optical reflection. For this, a novel structure based on having a metal interlayer in between the Mo rear contact and the rear passivation layer is presented. In total, eight different metallic interlayers are compared. For the whole series, the passivation layer is aluminum oxide (Al2O3). The interlayers are used to enhance the reflectivity of the rear contact and thereby increasing the amount of light reflected back into the absorber. In order to understand the effects of the interlayer in the solar cell performance both from optical and/or electrical point of view, optical simulations were performed together with fabrication and electrical measurements. Optical simulations results are compared with current density-voltage (J-V) behavior and external quantum efficiency measurements. A detailed comparison between all the interlayers is done, in order to identify the material with the greatest potential to he used as a rear reflective layer for ultrathin CIGS solar cells and to establish fabrication challenges. The Ti-W alloy is a promising a rear reflective layer since it provides solar cells with light to power conversion efficiency values of 9.9%, which is 2.2% (abs) higher than the passivated ultrathin sample and 3.7% (abs) higher than the unpassivated ultrathin reference sample.
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| 15. |
- Meyer, Peter A., et al.
(author)
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Data publication with the structural biology data grid supports live analysis
- 2016
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In: Nature Communications. - : Springer Science and Business Media LLC. - 2041-1723. ; 7
-
Journal article (peer-reviewed)abstract
- Access to experimental X-ray diffraction image data is fundamental for validation and reproduction of macromolecular models and indispensable for development of structural biology processing methods. Here, we established a diffraction data publication and dissemination system, Structural Biology Data Grid (SBDG; data. sbgrid. org), to preserve primary experimental data sets that support scientific publications. Data sets are accessible to researchers through a community driven data grid, which facilitates global data access. Our analysis of a pilot collection of crystallographic data sets demonstrates that the information archived by SBDG is sufficient to reprocess data to statistics that meet or exceed the quality of the original published structures. SBDG has extended its services to the entire community and is used to develop support for other types of biomedical data sets. It is anticipated that access to the experimental data sets will enhance the paradigm shift in the community towards a much more dynamic body of continuously improving data analysis.
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| 16. |
- Mishra, A, et al.
(author)
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Diminishing benefits of urban living for children and adolescents' growth and development
- 2023
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In: Nature. - : Springer Science and Business Media LLC. - 1476-4687 .- 0028-0836. ; 615:7954, s. 874-883
-
Journal article (peer-reviewed)abstract
- Optimal growth and development in childhood and adolescence is crucial for lifelong health and well-being1–6. Here we used data from 2,325 population-based studies, with measurements of height and weight from 71 million participants, to report the height and body-mass index (BMI) of children and adolescents aged 5–19 years on the basis of rural and urban place of residence in 200 countries and territories from 1990 to 2020. In 1990, children and adolescents residing in cities were taller than their rural counterparts in all but a few high-income countries. By 2020, the urban height advantage became smaller in most countries, and in many high-income western countries it reversed into a small urban-based disadvantage. The exception was for boys in most countries in sub-Saharan Africa and in some countries in Oceania, south Asia and the region of central Asia, Middle East and north Africa. In these countries, successive cohorts of boys from rural places either did not gain height or possibly became shorter, and hence fell further behind their urban peers. The difference between the age-standardized mean BMI of children in urban and rural areas was <1.1 kg m–2 in the vast majority of countries. Within this small range, BMI increased slightly more in cities than in rural areas, except in south Asia, sub-Saharan Africa and some countries in central and eastern Europe. Our results show that in much of the world, the growth and developmental advantages of living in cities have diminished in the twenty-first century, whereas in much of sub-Saharan Africa they have amplified.
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| 17. |
- Morales Salinas, Alberto, et al.
(author)
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Clinical Perspective on Antihypertensive Drug Treatment in Adults With Grade 1 Hypertension and Low-to-Moderate Cardiovascular Risk : An International Expert Consultation
- 2017
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In: Current problems in cardiology. - : Elsevier. - 0146-2806 .- 1535-6280. ; 42:7, s. 198-225
-
Research review (peer-reviewed)abstract
- Hypertension is a leading risk factor for disease burden globally. An unresolved question is whether grade 1 hypertension (140-159/90-99 mm Hg) with low (cardiovascular mortality < 1% at 10 years) to moderate (cardiovascular mortality ≥ 1% and <5% at 10 years) absolute total cardiovascular risk (CVR) should be treated with antihypertensive agents. A virtual international consultation process was undertaken to summarize the opinions of select experts. After holistic analysis of all epidemiological, clinical, psychosocial, and public health elements, this consultation process reached the following consensus in hypertensive adults aged < 80 years: (1) The question of whether drug treatment in grade 1 should be preceded by a period of some weeks or months during which only lifestyle measures are recommended cannot be evidence based, but the consensus opinion is to have a period of lifestyle alone reserved only to patients with grade 1 "isolated" hypertension (grade 1 uncomplicated hypertension with low absolute total CVR, and without other major CVR factors and risk modifiers). (2) The initiation of antihypertensive drug therapy in grade 1 hypertension with moderate absolute total CVR should not be delayed. (3) Men ≥ 55 years and women ≥ 60 years with uncomplicated grade 1 hypertension should automatically be classified within the moderate absolute total CVR category, even in the absence of other major CVR factors and risk modifiers. (4) Statins should be considered along with blood-pressure lowering therapy, irrespective of cholesterol levels, in patients with grade 1 hypertensive with moderate CVR.
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| 18. |
- Quaglia, Federica, et al.
(author)
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DisProt in 2022 : improved quality and accessibility of protein intrinsic disorder annotation
- 2022
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In: Nucleic Acids Research. - : Oxford University Press (OUP). - 0305-1048 .- 1362-4962. ; 50:D1, s. D480-D487
-
Journal article (peer-reviewed)abstract
- The Database of Intrinsically Disordered Proteins (DisProt, URL: https://disprot.org) is the major repository of manually curated annotations of intrinsically disordered proteins and regions from the literature. We report here recent updates of DisProt version 9, including a restyled web interface, refactored Intrinsically Disordered Proteins Ontology (IDPO), improvements in the curation process and significant content growth of around 30%. Higher quality and consistency of annotations is provided by a newly implemented reviewing process and training of curators. The increased curation capacity is fostered by the integration of DisProt with APICURON, a dedicated resource for the proper attribution and recognition of biocuration efforts. Better interoperability is provided through the adoption of the Minimum Information About Disorder (MIADE) standard, an active collaboration with the Gene Ontology (GO) and Evidence and Conclusion Ontology (ECO) consortia and the support of the ELIXIR infrastructure.
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| 19. |
- Rezende de Jesus, Rainde Naiara, et al.
(author)
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Interfacial biomechanical properties of a dual acid-etched versus a chemically modified hydrophilic dual acid-etched implant surface : an experimental study in Beagles
- 2018
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In: International Journal of Implant Dentistry. - : Springer. - 2198-4034. ; 4:28
-
Journal article (peer-reviewed)abstract
- Background: The high survival and clinical success rates of osseointegration are requisites for establishing a long-term biomechanical fixation and load-bearing potential of endosseous oral implants. The objective of this preclinical animal study was to evaluate the effect of surface microtopography and chemistry on the early stages of biomechanical rigidity with a sandblasted, dual acid-etched surface, with or without an additional chemical modification (SAE-HD and SAE, respectively), in tibia of Beagle dogs. Methods: Two pairs of implants, with the same macrogeometry but different surface technology a) dual acid-etched surface treatment with hydrochloric and sulfuric acid followed by microwave treatment and insertion in isotonic saline solution to increase hydrophilicity (SAE-HD) (test, n = 12); b) dual acid-etched surface (SAE) (control, n = 12) were installed bilaterally in the proximal tibia of six Beagle dogs. In order to determine the effect of surface modification on biomechanical fixation, a test protocol was established to assess the torque and a complete set of intrinsic properties. Maximum removal torque (in N.cm) was the primary outcome measure, while connection stiffness (N.cm/rad) and removal energy (x10-2J) were the secondary outcome measures, and were assessed after 2 and 4 weeks in vivo. A general linear statistical model was used and performed for significant differences with the One-way ANOVA followed by Tukey post-hoc test (P < 0.05). Results: The removal torque values did not reveal significant statistical differences between SAE-HD and SAE implants at any observation times (P = 0.06). Although a slight increase over time could be observed in both test and control groups. SAE-HD showed higher removal energy at 4 weeks (999.35 ± 924.94 x10-2 J) compared to 2 weeks (421.94 ± 450.58 x10-2 J), while SAE displayed lower values at the respective healing periods (P = 0.16). Regarding connection stiffness, there were no significant statistical differences neither within the groups nor over time. There was a strong, positive monotonic correlation between removal torque and removal energy (= 0.722, n = 19, P < 0.001). Conclusions: In this study, no significant differences were observed between the specific hydrophilic (SAE-HD) and hydrophobic (SAE) surfaces evaluated, in terms of biomechanical properties during the early osseointegration period.
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| 20. |
- Stervander, Martin, et al.
(author)
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Disentangling the complex evolutionary history of the Western Palearctic blue tits (Cyanistes spp.) - phylogenomic analyses suggest radiation by multiple colonisation events and subsequent isolation.
- 2015
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In: Molecular Ecology. - : Wiley. - 0962-1083. ; 24:10, s. 2477-2494
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Journal article (peer-reviewed)abstract
- Isolated islands and their often unique biota continue to play key roles for understanding the importance of drift, genetic variation, and adaptation in the process of population differentiation and speciation. One island system that has inspired and intrigued evolutionary biologists is the blue tit complex (Cyanistes spp.) in Europe and Africa, in particular the complex evolutionary history of the multiple genetically distinct taxa of the Canary Islands. Understanding Afrocanarian colonisation events is of particular importance because of recent unconventional suggestions that these island populations acted as source of the widespread population in mainland Africa. We investigated the relationship between mainland and island blue tits using a combination of Sanger sequencing at a population level (20 loci; 12,500 nucleotides) and next generation sequencing of single population representatives (>3,200,000 nucleotides), analysed in coalescence and phylogenetic frameworks. We found (i) that Afrocanarian blue tits are monophyletic and represent four major clades, (ii) that the blue tit complex has a continental origin, and that the Canary Islands were colonised three times, (iii) that all island populations have low genetic variation, indicating low long-term effective population sizes, and (iv) that populations on La Palma and in Libya represent relicts of an ancestral North African population. Further, demographic reconstructions revealed (v) that the Canary Islands, conforming to traditional views, hold sink populations, which have not served as source for back colonisation of the African mainland. Our study demonstrates the importance of complete taxon sampling and an extensive multi-marker study design to obtain robust phylogeographical inferences. This article is protected by copyright. All rights reserved.
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| 21. |
- Theodoro, Thainan S., et al.
(author)
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A Hybrid Simulation Tool for Distributed Generation Integration Studies
- 2018
-
In: 2018 Power Systems Computation Conference (PSCC). - Dublin, Ireland : IEEE conference proceedings. - 9781910963104
-
Conference paper (peer-reviewed)abstract
- This work presents a hybrid simulation tool thatcombines fast analysis of quasi-static time series or transient stability programs and electromagnetic transients ones to evaluatethe dynamic behaviour of electric power systems with distributedgeneration sources. The interaction between the two programs isperformed by means of controllable current and voltage sources,which are used to interface external and detailed systems. Thedouble second order generalized integrator (DSOGI) is used toextract the positive-sequence phasor from the detailed systemto the external one. A local network server controls the datacommunication between the two simulation environments bymeans of the TCP/IP protocol. In the present paper, the proposedtool is used to simulate the integration of a wind power plant,based on a doubly-fed induction generator (DFIG), into a 29-bus electrical network. Results and computational timings arethen compared with the ones obtained with an electromagnetictransients program, which demonstrate the accuracy and speedof the proposed strategy.
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| 22. |
- Todisco, Gabriele, et al.
(author)
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Integrated Genomic and Transcriptomic Analysis Improves Disease Classification and Risk Stratification of MDS with Ring Sideroblasts
- 2023
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In: Clinical Cancer Research. - 1078-0432 .- 1557-3265. ; 29:20, s. 4256-4267
-
Journal article (peer-reviewed)abstract
- Purpose: Ring sideroblasts (RS) define the low-risk myelodysplastic neoplasm (MDS) subgroup with RS but may also reflect erythroid dysplasia in higher risk myeloid neoplasm. The benign behavior of MDS with RS (MDSRSþ) is limited to SF3B1-mutated cases without additional high-risk genetic events, but one third of MDSRSþ carry no SF3B1 mutation, suggesting that different molecular mechanisms may underlie RS formation. We integrated genomic and transcriptomic analyses to evaluate whether transcriptome profiles may improve current risk stratification. Experimental Design: We studied a prospective cohort of MDSRSþ patients irrespective of World Health Organization (WHO) class with regard to somatic mutations, copy-number alterations, and bone marrow CD34þ cell transcriptomes to assess whether transcriptome profiles add to prognostication and provide input on disease classification. Results: SF3B1, SRSF2, or TP53 multihit mutations were found in 89% of MDSRSþ cases, and each mutation category was associated with distinct clinical outcome, gene expression, and alternative splicing profiles. Unsupervised clustering analysis identified three clusters with distinct hemopoietic stem and progenitor (HSPC) composition, which only partially overlapped with mutation groups. IPSS-M and the transcriptome-defined proportion of megakaryocyte/erythroid progenitors (MEP) independently predicted survival in multivariable analysis. Conclusions: These results provide essential input on the molecular basis of SF3B1-unmutated MDSRSþ and propose HSPC quantification as a prognostic marker in myeloid neoplasms with RS.
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| 23. |
- Zamora, Juan Carlos, et al.
(author)
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Considerations and consequences of allowing DNA sequence data as types of fungal taxa
- 2018
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In: IMA Fungus. - : INT MYCOLOGICAL ASSOC. - 2210-6340 .- 2210-6359. ; 9:1, s. 167-185
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Journal article (peer-reviewed)abstract
- Nomenclatural type definitions are one of the most important concepts in biological nomenclature. Being physical objects that can be re-studied by other researchers, types permanently link taxonomy (an artificial agreement to classify biological diversity) with nomenclature (an artificial agreement to name biological diversity). Two proposals to amend the International Code of Nomenclature for algae, fungi, and plants (ICN), allowing DNA sequences alone (of any region and extent) to serve as types of taxon names for voucherless fungi (mainly putative taxa from environmental DNA sequences), have been submitted to be voted on at the 11th International Mycological Congress (Puerto Rico, July 2018). We consider various genetic processes affecting the distribution of alleles among taxa and find that alleles may not consistently and uniquely represent the species within which they are contained. Should the proposals be accepted, the meaning of nomenclatural types would change in a fundamental way from physical objects as sources of data to the data themselves. Such changes are conducive to irreproducible science, the potential typification on artefactual data, and massive creation of names with low information content, ultimately causing nomenclatural instability and unnecessary work for future researchers that would stall future explorations of fungal diversity. We conclude that the acceptance of DNA sequences alone as types of names of taxa, under the terms used in the current proposals, is unnecessary and would not solve the problem of naming putative taxa known only from DNA sequences in a scientifically defensible way. As an alternative, we highlight the use of formulas for naming putative taxa (candidate taxa) that do not require any modification of the ICN.
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