Automated joint skull-stripping and segmentation with Multi-Task U-Net in large mouse brain MRI databases

Skull-stripping and region segmentation are fundamental steps in preclinical magnetic resonance imaging (MRI) studies, and these common procedures are usually performed manually. We present Multi-task U-Net (MU-Net), a convolutional neural network designed to accomplish both tasks simultaneously. MU-Net achieved higher segmentation accuracy than state-of-the-art multi-atlas segmentation methods with an inference time of 0.35 s and no pre-processing requirements. We trained and validated MU-Net on 128 T2-weighted mouse MRI volumes as well as on the publicly available MRM NeAT dataset of 10 MRI volumes. We tested MU-Net with an unusually large dataset combining several independent studies consisting of 1782 mouse brain MRI volumes of both healthy and Huntington animals, and measured average Dice scores of 0.906 (striati), 0.937 (cortex), and 0.978 (brain mask). Further, we explored the effectiveness of our network in the presence of different architectural features, including skip connections and recently proposed framing connections, and the effects of the age range of the training set animals. These high evaluation scores demonstrate that MU-Net is a powerful tool for segmentation and skull-stripping, decreasing inter and intra-rater variability of manual segmentation. The MU-Net code and the trained model are publicly available at https://github.com/Hierakonpolis/MU-Net

Phase diagram of the lattice Wess-Zumino model from rigorous lower bounds on the energy

We study the lattice N=1 Wess-Zumino model in two dimensions and we construct a sequence $\rho^{(L)}$ of exact lower bounds on its ground state energy density $\rho$, converging to $\rho$ in the limit $L\to\infty$. The bounds $\rho^{(L)}$ can be computed numerically on a finite lattice with $L$ sites and can be exploited to discuss dynamical symmetry breaking. The transition point is determined and compared with recent results based on large-scale Green Function Monte Carlo simulations with good agreement.Comment: 32 pages, 12 figure

Program trace optimization with constructive heuristics for combinatorial problems

This is the author accepted manuscript. The final version is available from Springer via the DOI in this record.EvoCOP: 19th European Conference on Evolutionary Computation in Combinatorial Optimisation, 24-26 April 2019, Leipzig, GermanyProgram Trace Optimisation (PTO), a highly general optimisation framework, is applied to a range of combinatorial optimisation (COP) problems. It effectively combines \smart" problem-specifi c constructive heuristics and problem-agnostic metaheuristic search, automatically and implicitly designing problem-appropriate search operators. A weakness is identifi ed in PTO's operators when applied in conjunction with smart heuristics on COP problems, and an improved method is introduced to address this. To facilitate the comparison of this new method with the original, across problems, a common format for PTO heuristics (known as generators) is demonstrated, mimicking GRASP. This also facilitates comparison of the degree of greediness (the GRASP alpha parameter) in the heuristics. Experiments across problems show that the novel operators consistently outperform the original without any loss of generality or cost in CPU time; hill-climbing is a sufficient metaheuristic; and intermediate levels of greediness are usually best

Extending the temporal context of ethnobotanical databases: the case study of the Campania region (southern Italy)

<p>Abstract</p> <p>Background</p> <p>Ethnobotanical studies generally describe the traditional knowledge of a territory according to a "hic et nunc" principle. The need of approaching this field also embedding historical data has been frequently acknowledged. With their long history of civilization some regions of the Mediterranean basin seem to be particularly suited for an historical approach to be adopted. Campania, a region of southern Italy, has been selected for a database implementation containing present and past information on plant uses.</p> <p>Methods</p> <p>A relational database has been built on the basis of information gathered from different historical sources, including diaries, travel accounts, and treatises on medicinal plants, written by explorers, botanists, physicians, who travelled in Campania during the last three centuries. Moreover, ethnobotanical uses described in historical herbal collections and in Ancient and Medieval texts from the Mediterranean Region have been included in the database.</p> <p>Results</p> <p>1672 different uses, ranging from medicinal, to alimentary, ceremonial, veterinary, have been recorded for 474 species listed in the data base. Information is not uniformly spread over the Campanian territory; Sannio being the most studied geographical area and Cilento the least one. About 50 plants have been continuously used in the last three centuries in the cure of the same affections. A comparison with the uses reported for the same species in Ancient treatises shows that the origin of present ethnomedicine from old learned medical doctrines needs a case-by-case confirmation.</p> <p>Conclusion</p> <p>The database is flexible enough to represent a useful tool for researchers who need to store and compare present and previous ethnobotanical uses from Mediterranean Countries.</p

Speaking Up for Fundamental Care: the ILC Aalborg Statement.

OBJECTIVE: The International Learning Collaborative (ILC) is an organisation dedicated to understanding why fundamental care, the care required by all patients regardless of clinical condition, fails to be provided in healthcare systems globally. At its 11th annual meeting in 2019, nursing leaders from 11 countries, together with patient representatives, confirmed that patients' fundamental care needs are still being ignored and nurses are still afraid to 'speak up' when these care failures occur. While the ILC's efforts over the past decade have led to increased recognition of the importance of fundamental care, it is not enough. To generate practical, sustainable solutions, we need to substantially rethink fundamental care and its contribution to patient outcomes and experiences, staff well-being, safety and quality, and the economic viability of healthcare systems. KEY ARGUMENTS: We present five propositions for radically transforming fundamental care delivery:Value: fundamental care must be foundational to all caring activities, systems and institutionsTalk: fundamental care must be explicitly articulated in all caring activities, systems and institutions.Do: fundamental care must be explicitly actioned and evaluated in all caring activities, systems and institutions.Own: fundamental care must be owned by each individual who delivers care, works in a system that is responsible for care or works in an institution whose mission is to deliver care. RESEARCH: fundamental care must undergo systematic and high-quality investigations to generate the evidence needed to inform care practices and shape health systems and education curricula. CONCLUSION: For radical transformation within health systems globally, we must move beyond nursing and ensure all members of the healthcare team-educators, students, consumers, clinicians, leaders, researchers, policy-makers and politicians-value, talk, do, own and research fundamental care. It is only through coordinated, collaborative effort that we will, and must, achieve real change

Phytochemical Analysis, Antioxidant, and Antimicrobial Activities of Ducrosia flabellifolia: A Combined Experimental and Computational Approaches

Ducrosia flabellifolia Boiss. is a rare desert plant known to be a promising source of bioactive compounds. In this paper, we report for the first time the phytochemical composition and biological activities of D. flabellifolia hydroalcoholic extract by using liquid chromatography-electrospray tandem mass spectrometry (ESI-MS/MS) technique. The results obtained showed the richness of the tested extract in phenols, tannins, and flavonoids. Twenty-three phytoconstituents were identified, represented mainly by chlorogenic acid, followed by ferulic acid, caffeic acid, and sinapic acid. The tested hydroalcoholic extract was able to inhibit the growth of all tested bacteria and yeast on agar Petri dishes at 3 mg/disc with mean growth inhibition zone ranging from 8.00 ± 0.00 mm for Enterococcus cloacae (E. cloacae) to 36.33 ± 0.58 mm for Staphylococcus epidermidis. Minimal inhibitory concentration ranged from 12.5 mg/mL to 200 mg/mL and the hydroalcoholic extract from D. flabellifolia exhibited a bacteriostatic and fungistatic character. In addition, D. flabellifolia hydroalcoholic extract possessed a good ability to scavenge different free radicals as compared to standard molecules. Molecular docking studies on the identified phyto-compounds in bacterial, fungal, and human peroxiredoxin 5 receptors were performed to corroborate the in vitro results, which revealed good binding profiles on the examined protein targets. A standard atomistic 100 ns dynamic simulation investigation was used to further evaluate the interaction stability of the promising phytocompounds, and the results showed conformational stability in the binding cavity. The obtained results highlighted the medicinal use of D. flabellifolia as source of bioactive compounds, as antioxidant, antibacterial, and antifungal agent

Guidance to 2018 good practice: ARIA digitally-enabled, integrated, person-centred care for rhinitis and asthma

Aims: Mobile Airways Sentinel NetworK (MASK) belongs to the Fondation Partenariale MACVIA-LR of Montpellier, France and aims to provide an active and healthy life to rhinitis sufferers and to those with asthma multimorbidity across the life cycle, whatever their gender or socio-economic status, in order to reduce health and social inequities incurred by the disease and to improve the digital transformation of health and care. The ultimate goal is to change the management strategy in chronic diseases. Methods: MASK implements ICT technologies for individualized and predictive medicine to develop novel care pathways by a multi-disciplinary group centred around the patients. Stakeholders: Include patients, health care professionals (pharmacists and physicians), authorities, patient's associations, private and public sectors. Results: MASK is deployed in 23 countries and 17 languages. 26,000 users have registered. EU grants (2018): MASK is participating in EU projects (POLLAR: impact of air POLLution in Asthma and Rhinitis, EIT Health, DigitalHealthEurope, Euriphi and Vigour). Lessons learnt: (i) Adherence to treatment is the major problem of allergic disease, (ii) Self-management strategies should be considerably expanded (behavioural), (iii) Change management is essential in allergic diseases, (iv) Education strategies should be reconsidered using a patient-centred approach and (v) Lessons learnt for allergic diseases can be expanded to chronic diseases

Comparative analysis of medicinal plants used in traditional medicine in Italy and Tunisia

<p>Abstract</p> <p>Background</p> <p>Italy and Tunisia (Africa for the Romans), facing each other on the opposite sides of the Mediterranean Sea, have been historically linked since the ancient times. Over the centuries both countries were mutually dominated so the vestiges and traces of a mutual influence are still present. The aim of the present study is to conduct a comparative analysis of the medicinal species present in the respective Floras in order to explore potential analogies and differences in popular phytotherapy that have come out from those reciprocal exchanges having taken place over the centuries</p> <p>Methods</p> <p>The comparative analysis based on the respective floras of both countries takes into consideration the bulk of medicinal species mutually present in Italy and Tunisia, but it focuses on the species growing in areas which are similar in climate. The medicinal uses of these species are considered in accordance with the ethnobotanical literature.</p> <p>Results</p> <p>A list of 153 medicinal species belonging to 60 families, present in both floras and used in traditional medicine, was drawn. A considerable convergence in therapeutic uses of many species emerged from these data.</p> <p>Conclusion</p> <p>This comparative analysis strengthens the firm belief that ethno-botanical findings represent not only an important shared heritage, developed over the centuries, but also a considerable mass of data that should be exploited in order to provide new and useful knowledge.</p