Miracle-dz/UniFAR-FTUs huggingface dataset:
Three-way clustering of multi-tissue multi-individual gene expression data using constrained tensor decomposition

The advent of next generation sequencing methods has led to an increasing availability of large, multi-tissue datasets which contain gene expression measurements across different tissues and individuals. In this setting, variation in expression levels arises due to contributions specific to genes, tissues, individuals, and interactions thereof. Classical clustering methods are illsuited to explore these three-way interactions, and struggle to fully extract the insights into transcriptome complexity and regulation contained in the data. Thus, to exploit the multi-mode structure of the data, new methods are required. To this end, we propose a new method, called MultiCluster, based on constrained tensor decomposition which permits the investigation of transcriptome variation across individuals and tissues simultaneously. Through simulation and application to the GTEx RNA-seq data, we show that our tensor decomposition identifies three-way clusters with higher accuracy, while being 11x faster, than the competing Bayesian method. For several age-, race-, or gender-related genes, the tensor projection approach achieves increased significance over single-tissue analysis by two orders of magnitude. Our analysis finds gene modules consistent with existing knowledge while further detecting novel candidate genes exhibiting either tissue-, individual-, or tissue-by-individual specificity. These identified genes and gene modules offer bases for future study, and the uncovered multi-way specificities provide a finer, more nuanced snapshot of transcriptome variation than previously possible.
Role of mometasone furoate nasal spray in children with adenoid hypertrophy: impact on life style changes

Adenoidectomy is considered the treatment of choice for symptomatic children. In view of surgical risks involved, younger age, adenoid as an immune organ, parents are often apprehensive and view adenoidectomy as their last option, which is also endorsed by many pediatricians and general practitioners. Co-existing medical illnesses and choice of surgical treatment is often governed by the pediatricians and apprehensive parents. Need for conservative treatment in alleviating symptoms has been tried. Topical, intranasal administered, steroid preparations have been proven effective in the literature.
The complete mitochondrial genome of the Gymnocypris selincuoensis (Cypriniformes: Cyprinidae)

Abstract The complete mitochondrial DNA sequence of Gymnocypris selincuoensis was determined and analyzed. This mitochondrial genome was 16,728bp in length and consisted of 37genes in the typical vertebrate mitochondrial gene arrangement. Phylogenetic analysis showed that G. selincuoensis is more closely related to G. namensis than to other species.
Study of Distribution of Biofilm Producing Genes in Staphylococcus aureus Isolated from Local Cheese Samples in Maragheh City

Background: Staphylococcusaureus isoneof themaincausesof foodpoisoningintheworld. Thispathogenhastheabilitytocreate bioﬁlmsthatcanleadtofoodcontamination. Thepresenceof bioﬁlmproducinggenesinthisbacteriumplaysaveryimportantrole initsvirulenceandpathogenicityandevenpreventsthepenetrationof antibioticsinpathogenicitytime. Theaimof thisstudywas to investigatethe distribution of bioﬁlm producinggenes in Staphylococcus aureus isolated fromlocal cheese samplesin Maragheh city. Methods: 20 Staphylococcus aureus isolates from local cheese samples in Maragheh city that had been identiﬁed phenotypically by biochemicaltestsforconﬁrmatorydiagnosiswereidentiﬁedbymultiplicationof species-speciﬁcthermonucleasegene( nuc )byPCR method. Speciﬁcprimersforeachgenewereusedfordetectionof bioﬁlmproducinggenes icaA , icaD , fnbA ,and clfB byPCRmethod. Results: 17 isolates (85%) were identiﬁed as Staphylococcus aureus by multiplying of thermonuclease ( nuc ) species-speciﬁc gene. The frequency of each gene separately in tested isolates was icaA (76.47%), icaD (58.82%), fnbA (64.7%), and clfB (76.47%). 5 isolates (29.41%) containedallof thetestedgenessimultaneously. Themostfrequencyof testedgenescombinationallywasassociatedwith icaA , icaD , and clfB genes (41.17%). None of the Staphylococcus aureus samples was negative regarding the presence of four tested genes. Conclusions: Molecular conﬁrmation of 85% of Staphylococcus aureus strains by PCR method represents more accuracy of this method compared to biochemical methods. High frequency of bioﬁlm producing genes in tested isolates indicates high poten-tial of this bacterium in bioﬁlm forming. The diﬀerence in the dispersion of eﬀective genes in bioﬁlm forming among diﬀerent Staphylococcus aureus strains probably originates in geographical diﬀerences and diﬀerences in ecological origin of isolated bacteria.
Easy-To-Interpret Procedure to Analyze Fire Seasonality and the Influence of Land Use in Fire Occurrence: A Case Study in Central Italy

Fire frequency and fire seasonality are among the main components of the fire regime. In the Mediterranean Basin, climate directly drives fire occurrence, controlling fuel flammability and determining the fire-prone conditions, so that intense fires prevail during the dry and warm season of the year. However, humans also play a direct role in wildfire regimes, severely altering fuel features, fire policies and land-use management, as well as the timing and location of fire ignitions, to such an extent that anthropogenic activities have overcome the role of climate in shaping fire regimes. The main purpose of this work is to propose a graphical tool capable of identifying the most fire-prone portions of the territory and to explore the differences between the summer and winter fire risk; to this end, we analyzed the seasonal fire risk in the Latium region (central Italy) and its drivers in terms of land-use types, by using a fuel phenology framework. The results demonstrated that climate is not the main cause of bimodal seasonality in fire occurrence and that the existence of two annual fire seasons in Latium is strongly correlated with how humans use fire as a land management tool. The proposed approach may represent an easy-to-interpret pyrogeographical framework applicable in any environment and updatable over time, useful for identifying spatial gradients, and for recognizing fire regime temporal patterns.
On the continuity of the adjoint of evolution operators

Abstract By associating a quasi semigroup to a commutative evolution operator and using techniques from vector measures like the Gel’fand integral and the Radon- Nikodym theorem for Bochner integral, we prove the continuity on [0, +∞) of the adjoint of a certain class of evolution operators. Furthermore, we provide examples of evolution operators satisfying our conclusion. We also provide an application to optimal control theory; particularly, to an optimal control problem governed by a time-varying heat equation.
Urban scaling, geography, centrality: Relation with local government structures

We investigate socio-economic urban scaling behavior of municipalities in Denmark, the Netherlands, and in particular in Germany. Our interest is twofold. First we investigate whether, and to what extent, scaling occurs in various types of urban areas. The second important topic of research concerns the comparison of specific types of urban areas with regard to the values of the gross urban product. This is a new approach: two scaling systems are compared not only in terms of the scaling exponent, but also in terms of the differences in the gross urban product. We are specifically interested in the role of urban governance in terms of local urban government structures. Germany is our central case because it works as a natural experiment: a large number of urban areas is one-governance, but others are not. More specifically, we distinguish between cities of which the surrounding urban area belongs to the municipality of the city (kreisfreie cities), and those specific districts (Kreise) which are urban areas consisting of several municipalities. Our findings suggest that urban areas with one municipality perform better than urban areas with fragmented governance structures. We also investigate the relation between scaling of Kreise and simple measures of centrality, including the Zipf-distribution. A strong relation is found between the measured residuals of the scaling equations and the socio-economic position of cities assessed with a set of different socio-economic indicators. Given the debate on the effectiveness of municipal reform, our results may lead to challenging conclusions about the importance of one-municipality instead of multi-municipality governance in urban areas. These results are relevant for policy as they suggest that there is a benefit to unifying the governance structure of compact urban agglomerations.
Assessment of PD-L1 and p53 expression in urinary bladder carcinoma: association with different clinicopathologic characteristics

max 250 words, single paragraph): The abstract should be complete and understandable without citation, references, table, or figure. Use structured abstract: Background, Aim, Materials & Methods, Results and Conclusion. The context and the rationale of the study are presented succinctly to support the objectives. The experimental methods and main results are summarized but should not be overburdened by numerical values or probability values. The abstract ends with a short and clear conclusion.
Stress-induced secondary carotenogenesis in Coelastrella rubescens (Scenedesmaceae, Chlorophyta), a producer of value-added keto-carotenoids

Copyright © 2017 The Korean Society of Phycology 245 http://e-algae.org pISSN: 1226-2617 eISSN: 2093-0860 Stress-induced secondary carotenogenesis in Coelastrella rubescens (Scenedesmaceae, Chlorophyta), a producer of value-added keto-carotenoids Galina Minyuk, Elina Chelebieva, Irina Chubchikova, Natalia Dantsyuk, Irina Drobetskaya, Evgenii Sakhon, Konstantin Chekanov and Alexei Solovchenko* The A.O. Kovalevsky Institute of Marine Biological Research, Sevastopol 299011, Crimea Biological Faculty of Lomonosov Moscow State University, Moscow 119234, Russia National Research Nuclear University MEPhi, Centre for Humanities Research and Technology, Moscow 115409, Russia
Transdermal, but not oral mucosa exposure, causes sublethal leptospirosis in mice

The goal of this study was to determine the timing of Leptospira dissemination after infection using natural physiologic routes and its correlation with signs and symptoms of leptospirosis. Groups of C3H-HeJ mice were sub-lethally infected through exposure of a dermis wound and the oral mucosa to L. interrogans serovar Copenhageni, and compared to mice infected via standard laboratory practice of intraperitoneal inoculation. We found that transdermal infection leads to delayed bacterial dissemination in blood and urine when compared to intraperitoneal infection using the same infectious dose, and that the overlapping presence of L. interrogans in both fluids was twice as long as the standard intraperitoneal infection. Furthermore, dissemination of L. interrogans and disease did not occur in mice infected with the same dose of L. interrogans via the oral mucosa. Over the course of these studies we also observed that the timing of exit of Leptospira from blood and establishment of colonization of the kidney in the second week of infection correlated well with weight loss, but not with hypothermia. Thus, a non-invasive sign of leptospirosis such as weigh loss can be used to monitor bacterial dissemination and disease stage in mice. Our findings underline the importance of precise determination of windows of pathogen dissemination in biological fluids and how the route of infection affects the progression of disease. These studies could help focus the development of better treatment strategies and new technologies for diagnostic use.
A User‐Friendly Workbook to Facilitate Rapid and Accurate Rare Earth Element Analyses by ICP‐MS for Multispiked Samples

The rare earth elements (REEs) are widely used as geochemical tracers in the earth, planetary, and ocean sciences. Inductively coupled plasma‐mass spectrometry (ICP‐MS) has become the method of choice to analyze REE concentrations because it can rapidly measure the entire REE spectrum at the same time. This Technical Report presents a user‐friendly “REE Calculation Workbook” in Microsoft Excel to be used for calculating REE abundances in samples equilibrated with a multielement REE spike. This Workbook can be conveniently used to calculate REE concentrations in natural samples for spiked and unspiked elements measured by ICP‐MS. For the spiked elements, their concentrations are calculated using isotope dilution equations. Using these spiked elements as references, concentrations of the four mono‐isotopic REE elements, and other REE elements that are treated as mono‐isotopic elements (in our case, La and Lu), can be calculated. The REE Workbook can be easily set up for use with different REE spikes. Evaluation of our analytical quality using a quadrupole ICP‐MS on 10‐ml‐sized seawater samples shows that our analyses are comparable to high‐precision thermal ionization mass spectrometry (TIMS) studies, with much less time spent processing and analyzing, and with the added advantages of determining mono‐isotopic elements. An important result is the clear demonstration of enrichments in Gd and Er compared to neighboring elements in seawater samples. In addition, we compare and evaluate commonly used reference standards BCR‐1, Post‐Archean Australian Shale (PAAS), and North American Shale Composite (NASC).
Driving COBRAs: the power of social media marketing

PurposeThis study aims to examine the impact of social media marketing (SMM) efforts, including entertainment, customisation, interaction and trendiness via WeChat, on consumers' online brand-related activities (COBRAs) and their related outcomes, including on-going search behaviour and repurchase intention.Design/methodology/approachThe theoretical framework is tested for luxury cosmetics brands. Data were collected in China from 433 WeChat users utilising a self-administered online survey. Data analysis uses partial least squares–structural equation modelling.FindingsEntertainment and interaction drive consumers' consuming, contributing and creating behaviours, whilst trendiness drives creating behaviour only. Inconsistent with previous research findings, customisation has a non-significant impact on consumers' consuming, contributing and creating behaviours. Consuming and creating behaviours assist in driving on-going search behaviour and repurchase intention. Contributing behaviours assist in driving on-going search behaviour only.Research limitations/implicationsCross-sectional in nature, this research adds to the marketing literature by explaining how to use SMM to drive COBRAs for luxury cosmetics in China using WeChat. To enhance the generalisability of the findings, future research might consider a longitudinal design, including comparisons between countries with diverse cultures as well as other industries and product types.Practical implicationsCOBRAs may be heightened by using entertaining and trendy content. Incorporating interactive content on social media platforms encourages consumers to consume, contribute and create content on social media brand communities, further driving their on-going search behaviour and repurchase intention.Originality/valueExamination of SMM's role in the marketing literature largely overlooks the impact of SMM elements on COBRAs. This study contributes to the SMM research by empirically testing a theoretical model, confirming that specific SMM elements – including entertainment and interaction – are key factors in driving consumers' consuming, contributing and creating behaviour on social media brand communities, influencing consumers' on-going search behaviour and repurchase intention.
Role of pipelle versus dilatation and curettage in tissue diagnosis abnormal uterine bleeding

Background: Menstrual irregularities and abnormal heavy menstruation account for up to 26-35% of women attending Gynecological outpatient Department. Abnormal Uterine Bleeding (AUB), it is more common at extremes of age endometrial hyperplasia occurs in 5-10% of patients with post-menopausal bleeding out of which atypical hyperplasia has 26-32 % risk of having malignancy in future. Therefore, endometrial sampling for histopathology is important in the assessment of abnormal uterine bleeding is mandatory. Our study was conductive to know the effectiveness of pipelle type devices, versus Dilatation and curettage in obtaining quality endometrial tissue for histopathological examination.Methods: The study was undertaken in Department of obstetrics and gynaecology along with department of Pathology at Rajarshi Chhatrapati Shahu Maharaj, government medical college, Kolhapur after getting approval from the Hospital Committee on Clinical Research and Ethical Committee of the institution, during the period from October 2016 to March 2017 (six months). Total number of subjects included in study is Hundred after taking into consideration of inclusion and exclusion criteria.Results: The ease of doing procedure was much easier as compared to D&C and the Tissue sample obtained for histopathological examination were as par D&C. It was concluded that histopathology report was available in 92 of the 100 pipelle samples and 93 of 100 D&C samples. It was also, observed that increased endometrial thickness was not always associated with adequate tissue diagnosis.Conclusions: Pipelle is simple, affordable, patient friendly can be easily performed with minimal training, which can be performed in Outpatient Gynaecological Department. The diagnostic value and positive predictive value of Pipelle is at par with conventional D&C. So, pipelle can be recommended for all perimenopausal patients with AUB to rule out various, premalignant and malignant conditions of the endometrium.
Comparison between MIPO and the deltopectoral approach with allogenous fibular bone graft in proximal humeral fractures

Background The purpose of this study was to investigate the clinical differences between open reduction and plate fixation via a deltopectoral approach with allogenous fibular bone graft and a minimally invasive plate osteosynthesis (MIPO), in Neer's classification two-, three- part proximal humeral fractures. Methods In this retrospective study, 77 patients with two-, three-part proximal humeral fractures were treated at two different institutions. Clinical and radiological evaluations were performed in 39 patients, who underwent MIPO at one institution (group A), and 38 patients, who underwent a deltopectoral approach with allo-fibular bone graft (group B) at another institution. The results between the groups were compared. Results The MIPO technique was significantly less time consuming and caused less bleeding than the deltopectoral approach with allo-fibular bone graft (P<0.05). The duration of the fracture union was significantly reduced in group A (14.5±3.4; range, 10–22 weeks) compared to group B (16.4±4.3; range, 12–28) weeks (P<0.05). There were no statistically significant differences between the two groups when evaluating the visual analog scale and Constant scores between the two groups, 1 year postoperatively. In radiological evaluation, there was no difference in radiological outcomes between the two groups. There were no statistically significant differences in malunion between the two groups. Conclusions The MIPO technique and deltopectoral approach with allo-fibular bone graft for two-, three-part proximal humeral fractures, show similar clinical and radiological results. However, allogenous fibular grafts require longer surgery, cause more bleeding, and result in longer fracture healing time than MIPO technique.
A Cascade Ensemble Learning Model for Parkinson’s Disease Diagnosis Using Handwritten Sensor Signals

Computer-aided diagnosis of Parkinson’s disease (PD) has gained lots of attention recently, which is mainly performed with machine learning methods using PD patients’ clinical manifestations, such as freezing gait, distorted writing, and abnormal speech. This paper presents a new methodology to differentiate PD patients from healthy controls (HC) based on two datasets regarding handwritten sensor signals. And a novel cascade ensemble learning method which is composed of two random forest (RF) classifiers and two extremely random trees (ExtraTrees) classifiers in each layer is proposed. Augmented features are generated by the four classifiers in a layer, which will be concatenated with the initial input data and fed to the next cascade layer. Finally, the classification result will be obtained from the final layer. To improve the classification performance, we employed principal component analysis (PCA) technique to reduce the dimensionality of sampled signals before they are fed to the ensemble model. Experimental results show that the proposed framework achieved reasonable classification performances with 81.17% accuracy for PD diagnosis.
The Spotted Wing Drosophila, Drosophila suzukii (Diptera: Drosophilidae): A New Pest of Concern for Black Cherry, Prunus serotina, on the High Allegheny Plateau in Pennsylvania

ABSTRACT: Drosophila suzukii (Matsumura) is an invasive insect pest native to Southeastern Asia that is now reported to have established populations in North America. We used traps baited with red wine vinegar to detect and monitor D. suzukii in four black cherry (Prunus serotina Ehrh.) and maple (Acer spp.) stands in the Allegheny National Forest in northwestern Pennsylvania. Stands ranged in age from 70 to 110 years old, with average basal area from 40 to 45 m2/ha. All stands are characterized as the intermediate Allegheny hardwood forest type with black cherry being the dominant species making up > 70% of the total stand basal area at each site (Eyre, 1980). Traps were placed in the crowns of mature black cherry from May to October 2012. In total, 11,000 D. suzukii were collected. The appearance of D. suzukii on the High Allegheny Plateau in northwestern Pennsylvania could have negative implications for fruit production, dispersal, and seed viability of black cherry and other forest species. With D. suzukii's predilection toward Prunus spp. and its unusual method of oviposition, this could be a contributing factor that impacts black cherry regeneration on the Plateau.