Commentary on: "Pityriasis Rosea Recurrence is Much Higher than Previously Known: A Prospective Study".

Abstract is missing (Correspondence

Micropublications: a Semantic Model for Claims, Evidence, Arguments and Annotations in Biomedical Communications

The Micropublications semantic model for scientific claims, evidence, argumentation and annotation in biomedical publications, is a metadata model of scientific argumentation, designed to support several key requirements for exchange and value-addition of semantic metadata across the biomedical publications ecosystem. Micropublications allow formalizing the argument structure of scientific publications so that (a) their internal structure is semantically clear and computable; (b) citation networks can be easily constructed across large corpora; (c) statements can be formalized in multiple useful abstraction models; (d) statements in one work may cite statements in another, individually; (e) support, similarity and challenge of assertions can be modelled across corpora; (f) scientific assertions, particularly in review articles, may be transitively closed to supporting evidence and methods. The model supports natural language statements; data; methods and materials specifications; discussion and commentary; as well as challenge and disagreement. A detailed analysis of nine use cases is provided, along with an implementation in OWL 2 and SWRL, with several example instantiations in RDF.Comment: Version 4. Minor revision

A cerebral bridge from olfactory cognition to spatial navigation

An evolutionary paradox is the variability of the olfactory bulb size, in contrast to the other brain regions, which are sized proportionally to the peripheral function. This variability seems to be the result of selection for the olfactory function. This disagreement may derive from considering smell as a sense linked to odorous discrimination. In many vertebrates and in terrestrial and marine mammals, the sense of smell has evolved into functions related to the eco-localization. So, if the olfactory function involves spatial perception and navigation, this, couldexplain the proportional discrepancy between the olfactory bulb and olfactory cortex. Humans are able to discriminate a spatial position as a function of olfactory cues. Vice versa, in neurodegenerative syndromes the orientation capacity and olfactory perception are impaired. This leads us to think that could be a common cross-modal processing, of phylogenetic origin, which links olfactory perception and spatial orientation. Starting from these theoretical assumptions, we conducted a basic research, on 100 healthy subjects, investigating, through both behavioral and electroencephalographic data, the connection between spatial memory span and olfactory spatial memory span. Subjects were assessed through a three-condition task: normal Corsi Block Test (CBT), ‘Olfactory’ Block Test (OBT) and a ‘Semantic-Olfactory’ Block Test (SOBT). CBT consisted in a test on spatial memory span; OBT consisted in a presentation a spatial sequences of 9 different odorants (i.e., Eucalyptol, Carvone, Eugenol, Isoamyl Acetate, Geraniol, Phenethyl Alcohol, Acetophenone, Cinnamon, Hexanal) instilled on paper square not recognizable by any sign, positioned on a CBT, and showed in a spatial navigation way, and SOBT consisted of a semantic labelled of olfactory spatial navigation. A GLM repeated measure highlighted significant differences during the three conditions. Subjects had different SPANs due to different conditions. The Semantic olfactory memory SPAN was inferior respect Olfactory span and Spatial Span. Furthermore was found a significant positive correlation between the three condition. The 5 subjects with higher SPAN scores, 5 with medium scores and the 5 subjects with lower SPAN scores were recruited to investigate ERP components elicited during the cross-modal task. Subjects had to perform, during a high-density EEG recording, an olfactory task (administered through the device US2017127971 (A1) “? 2017-05-11), an EEG Posner spatial cueing task and a go/no-go olfactory semantic categorization task. The results of this study will be discussed in light of a theoretical connection between these three aspects of cortical functions that seem strongly interconnected

Broadening the Scope of Nanopublications

In this paper, we present an approach for extending the existing concept of nanopublications --- tiny entities of scientific results in RDF representation --- to broaden their application range. The proposed extension uses English sentences to represent informal and underspecified scientific claims. These sentences follow a syntactic and semantic scheme that we call AIDA (Atomic, Independent, Declarative, Absolute), which provides a uniform and succinct representation of scientific assertions. Such AIDA nanopublications are compatible with the existing nanopublication concept and enjoy most of its advantages such as information sharing, interlinking of scientific findings, and detailed attribution, while being more flexible and applicable to a much wider range of scientific results. We show that users are able to create AIDA sentences for given scientific results quickly and at high quality, and that it is feasible to automatically extract and interlink AIDA nanopublications from existing unstructured data sources. To demonstrate our approach, a web-based interface is introduced, which also exemplifies the use of nanopublications for non-scientific content, including meta-nanopublications that describe other nanopublications.Comment: To appear in the Proceedings of the 10th Extended Semantic Web Conference (ESWC 2013

NIGER-DELTA: ENVIRONMENT, OGONI CRISIS AND THE STATE

Among the well agreed-on benefits of a guideline computerisation, with respect to the traditional text format, there are the disambiguation, the possibility of looking at the guideline at different levels of detail and the possibility of generating patient-tailored suggestions. Nevertheless, the connection of guidelines with patient records is still a challenging problem, as well as their effective integration into the clinical workflow. In this paper, we describe the evolution of our environment for representing and running guidelines. The main new features concern the choice of a commercial product as the middle layer with the electronic patient record, the consequent possibility of gathering information from different legacy systems, and the extension of this "virtual medical record" to the storage of process data. This last feature allows managing exceptions, i.e. decisions that do not comply with guidelines

Assessing escapes from short rotation plantations of the invasive tree species Robinia pseudoacacia L. in Mediterranean ecosystems: a study in central Italy

Black locust (Robinia pseudoacacia L.) is a fast growing tree species native to temperate North America, and widely diffused and naturalized in Europe. It is one of the candidate species for establishing bioenergy plantations on mar- ginal lands in temperate and sub-Mediterranean regions. This potential is in contrast to its well-known invasive habit, leading to a potential damage to plant biodiversity in many European countries. Advise against black locust plantation in regions where it is already invasive has been issued by several international reports, as well as the adoption of mitigation measures (e.g., “containment” buffer zones) to prevent the spread of the species into natural and semi-natural habitats. In the Mediterranean basin, however, no studies have been carried out aimed at quantifying the escape rate of black locust saplings from plantation stands and its recruitment into natural habitats, together with the effectiveness of a buffer zone in reducing the spread. In this study we investigated the spread of black locust along 35 transects surround- ing three 20-year- old plantations and including three different land cover types: abandoned arable land, semi-natural woodland and a buffer zone (orchards) with a low degree of farming input. In addition, the effect of soil disturbance on seed propagation was investigated. Our results demonstrate that the density of black locust regeneration is strongly affected by the land cover, abandoned agricultural land being the most prone to black locust colo- nization. Contrastingly, the spread was minimal in the buffer zone and negligi- ble in semi-natural woodland. During the investigated year, seed generative propagation was also negligible. The semi-natural woodland seems to resist well to black locust invasion, though further observations are needed to assess the consequences of stand harvesting disturbance as well, according to local standard forest management. Buffer zones seem to be very effective in con- trolling black locust invasion. Best management practices, with active farming inputs, are also discussed

Signaling in natural killer cells: SHIP, 2B4 and the Kinome

The NK cell is a large granular lymphocyte that plays a key role in protecting the body against numerous pathogens including parasites, intracellular bacteria, viral infections, as well as showing anti-tumor activity and playing a role in the rejection of allogeneic BM. Unlike other lymphocytic cell types, that utilize rearranging receptors, NK cells are regulated by a complex array of germ line encoded activating and inhibitory receptors. NK cells are often described as a front line or rapid defense given their response to stimuli can be immediate, although they also maintain functions that extend their role well into the adaptive immune system. Inhibitory receptors that recognize MHC class I molecules regulate NK cell responses and self-tolerance. Recent evidence indicates self-ligands not present in the MHC locus can also modulate NK function. We previously demonstrated that the NK receptor repertoire is disrupted by SHIP-deficiency. Here we show that an inhibitory receptor, 2B4, that recognizes an MHC-independent ligand is over expressed in NK cells of SHIP-/- mice at all stages of NK development and differentiation. Overexpression of 2B4 compromises key cytolytic NK functions, including killing of allogeneic, tumor and viral targets. These results demonstrate that in SHIP-/- NK cell 2B4 is the dominant inhibitory receptor. We then furthered this finding by examining the molecular basis of 2B4 dominance. We show that in SHIP-/- NK cells there is increased 2B4 expression as well as a strong bias towards the 2B4L isoform. We have also identified a greater than tenfold increase in SHP1 recruitment to 2B4. Consistent with this SHP1 over recruitment,both a broad and a selective SHP1 inhibitor restore SHIP-/- NK killing of complex targets.Through this study we have identified the molecular mechanism of 2B4 receptor dominance as SHP1 over-recruitment.In addition we have utilized protein array technology to explore NK signaling through the determination of the NK kinome. To this end we have been able to identify multiple pathways that may mark crucial differences between the mature and immature NK cell

The Organization of the Pig T-Cell Receptor γ (TRG) Locus Provides Insights into the Evolutionary Patterns of the TRG Genes across Cetartiodactyla

The domestic pig (Sus scrofa) is a species representative of the Suina, one of the four suborders within Cetartiodactyla. In this paper, we reported our analysis of the pig TRG locus in comparison with the loci of species representative of the Ruminantia, Tylopoda, and Cetacea suborders. The pig TRG genomic structure reiterates the peculiarity of the organization of Cetartiodactyla loci in TRGC "cassettes", each containing the basic V-J-J-C unit. Eighteen genes arranged in four TRGC cassettes, form the pig TRG locus. All the functional TRG genes were expressed, and the TRGV genes preferentially rearrange with the TRGJ genes within their own cassette, which correlates the diversity of the γ-chain repertoire with the number of cassettes. Among them, the TRGC5, located at the 5' end of the locus, is the only cassette that retains a marked homology with the corresponding TRGC cassettes of all the analyzed species. The preservation of the TRGC5 cassette for such a long evolutionary time presumes a highly specialized function of its genes, which could be essential for the survival of species. Therefore, the maintenance of this cassette in pigs confirms that it is the most evolutionarily ancient within Cetartiodactyla, and it has undergone a process of duplication to give rise to the other TRGC cassettes in the different artiodactyl species in a lineage-specific manner

Comparing the first and the second waves of COVID-19 in Italy: differences in epidemiological features and CT findings using a semi-quantitative score

Purpose: CT findings of hospitalized COVID-19 patients were analyzed during both the first and the second waves of the pandemic, in order to detect any significant differences between the two groups. Methods: In this observational, retrospective, monocentric study, all hospitalized patients who underwent CT for suspected COVID-19 pneumonia from February 27 to March 27, 2020 (first wave) and from October 26 to November 24, 2020 (second wave) were enrolled. Epidemiological data, radiological pattern according to the RSNA consensus statement and visual score extension using a semi-quantitative score were compared. Results: Two hundred and eleven patients (mean age, 64.52 years ± 15.14, 144 males) were evaluated during the first wave while 455 patients (mean age, 68.26 years ± 16.34, 283 males) were studied during the second wave. The same prevalence of patterns was documented in both the first and the second waves (p = 0.916), with non-typical patterns always more frequently observed in elderly patients, especially the “indeterminate” pattern. Compared to those infected during the first wave, the patients of the second wave were older (64.52 vs.68.26, p = 0.005) and presented a slightly higher mean semi-quantitative score (9.0 ± 2.88 vs. 8.4 ± 3.06, p = 0.042). Age and semi-quantitative score showed a positive correlation (r = 0.15, p = 0.001). Conclusions: There was no difference regarding CT pattern prevalence between the first and the second waves, confirming both the validity of the RSNA consensus and the most frequent radiological COVID-19 features. Non-typical COVID-19 features were more frequently observed in older patients, thus should not be underestimated in the elderly population