Miracle-dz/UniFAR-FTUs huggingface dataset:
4Approximate realization of hidden Markov chains

In this paper we consider the approximate realization problem for finite valued hidden Markov models i.e. stochastic processes Y=f(X) where X is a finite state Markov chain and f a many-to-one function. Given the laws p/sub Y/(/spl middot/) of Y the weak realization problem consists in finding a Markov chain X and a function f such that, at least distributionally, Y/spl sim/f(X). The approximate realization problem consists in finding X and f such that Y and f (X) are close. The approximation criterion we use is the informational divergence between properly defined. nonnegative (componentwise) matrices related to the processes. To construct the realization we apply recent results on the approximate factorization of nonnegative matrices.
Does testosterone predict women’s preference for facial masculinity?

The influence of sex hormones on women’s mate preferences has been an intensively discussed topic for more than a decade. Yet the extent to which levels of sex hormones, and testosterone in particular, influence women’s mate preferences is unclear. Thus, the current study used multilevel modelling to investigate putative relationships between salivary testosterone and facial masculinity preferences in a sample of 68 women, while controlling for their age, partnership status, and sociosexuality. We found no significant associations between masculinity preferences and either individual differences or within-woman changes in testosterone. We did find however, that sociosexuality was positively correlated with masculinity preferences. Although it has previously been suggested that testosterone is related to women’s facial masculinity preference, our data do not support this proposal.
Comparative analysis of the transcriptome of the Amazonian fish species Colossoma macropomum (tambaqui) and hybrid tambacu by next generation sequencing

Background The C. macropomum is a characiform fish from the Amazon basin that has been hybridized with other pacu species to produce commercial hybrids, such as the tambacu. However, little is known of the functional genomics of the parental species or these hybrid forms. The transcriptome of C. macropomum and tambacu were sequenced using 454 Roche platform (pyrosequencing) techniques to characterize the domains of Gene Ontology (GO) and to evaluate the levels of gene expression in the two organisms. Results The 8,188,945 reads were assembled into 400,845 contigs. A total of 58,322 contigs were annotated with a predominance of biological processes for both organisms, as determined by Gene Ontology (GO). Similar numbers of metabolic pathways were identified in both the C. macropomum and the tambacu, with the metabolism category presenting the largest number of transcripts. The BUSCO analysis indicated that our assembly was more than 40% complete. We identified 21,986 genes for the two fishes. The P and Log2FC values indicated significant differences in the levels of gene expression, with a total of 600 up-regulated genes. Conclusion In spite of the lack of a reference genome, the functional annotation was successful, and confirmed a considerable difference in the specificity and levels of gene expression between the two organisms. This report provides a comprehensive baseline for the genetic management of these commercially important fishes, in particular for the identification of specific genes that may represent markers involved in the immunity, growth, and fertility of these organisms, with potential practical applications in aquaculture management.
Reliable Graphs for SLAM

Estimation-over-graphs (EoG) is a class of estimation problems that admit a natural graphical representation. Several key problems in robotics and sensor networks, including sensor network localization, synchronization over a group, and simultaneous localization and mapping (SLAM) fall into this category. We pursue two main goals in this work. First, we aim to characterize the impact of the graphical structure of SLAM and related problems on estimation reliability. We draw connections between several notions of graph connectivity and various properties of the underlying estimation problem. In particular, we establish results on the impact of the weighted number of spanning trees on the D-optimality criterion in 2D SLAM. These results enable agents to evaluate estimation reliability based only on the graphical representation of the EoG problem. We then use our findings and study the problem of designing sparse SLAM problems that lead to reliable maximum likelihood estimates through the synthesis of sparse graphs with the maximum weighted tree connectivity. Characterizing graphs with the maximum number of spanning trees is an open problem in general. To tackle this problem, we establish several new theoretical results, including the monotone log-submodularity of the weighted number of spanning trees. We exploit these structures and design a complementary greedy–convex pair of efficient approximation algorithms with provable guarantees. The proposed synthesis framework is applied to various forms of the measurement selection problem in resource-constrained SLAM. Our algorithms and theoretical findings are validated using random graphs, existing and new synthetic SLAM benchmarks, and publicly available real pose-graph SLAM datasets.
Fast diagnosis of sporotrichosis caused by Sporothrix globosa, Sporothrix schenckii, and Sporothrix brasiliensis based on multiplex real-time PCR

The accurate diagnosis of sporotrichosis and identification at the species level are critical for public health and appropriate patient management. Compared with morphological identification methods, molecular diagnostic tests are rapid and have high sensitivity and standardized operating processes. Therefore, we designed a novel multiplex real-time polymerase chain reaction (PCR) method based on the calmodulin (CAL) gene for the identification of clinically relevant Sporothrix species: S. globosa, S. schenckii s. str. , and S. brasiliensis. We evaluated the assay with clinical and spiked samples and assessed its diagnostic performance by comparing the results to those of culture and species-specific PCR. Thirty-three DNA templates were used to detect assay specificity, and three plasmids were constructed to create a standard curve and determine the limits of detection (LODs). For nucleic acid detection, the sensitivity and specificity reached 100%. The LODs were 10 copies, 10 copies and 100 copies for S. globosa, S. schenckii s. str and S. brasiliensis, respectively. For the clinical samples, the positive detection rates by culture, species-specific PCR and the multiplex real-time PCR assay were 87.9% (29/33), 39.4% (13/33), and 93.9% (31/33), respectively. For the spiked samples, the positive detection rates were both 100% for S. schenckii s. str and S. brasiliensis. Based on the above results, compared with culture and other molecular diagnosis methods, the novel multiplex real-time PCR assay is effective, fast, accurate, and highly sensitive. It has a lower reaction cost and lower sample volume requirements, can detect co-infections, and allows for standardized operation and easier interpretation of results. In the future, this assay could be developed into a commercial kit for the diagnosis and identification of S. globosa, S. schenckii s. str, and S. brasiliensis.
An Empirical Evaluation of Knowledge Transfer Mechanisms for it Projects

This paper presents empirical research aimed at identifying the impacts of knowledge transfer mechanisms on information technology (IT) projects: Serial, near, far, strategic and expert knowledge transfer mechanisms are evaluated. The various dimensions of IT project success include project performance, project outcome, system implementation, benefits for the client organization, and benefits for the stakeholders. A survey was conducted in Norway to collect data on knowledge transfer mechanisms and project success; research results indicate that IT project success is significantly related to serial, strategic and expert knowledge transfer mechanisms.
Promising Approaches for Engaging Youth and Young Adults Living with HIV in HIV Primary Care Using Social Media and Mobile Technology Interventions: Protocol for the SPNS Social Media Initiative

Background In the United States, disparities in the rates of HIV care among youth and young adults result from the intersections of factors that include stigma, substance use, homelessness or marginal housing, institutional neglect, and mental health issues. Novel interventions are needed that are geared to youth and young adults. Objective In this paper, we aim to describe the interventions used by participating sites for Using Social Media initiative, the process for classifying the intervention components, and the methods for conducting a comprehensive evaluation of the interventions. Methods In 2015, the Health Resources and Services Administration (HRSA) HIV/AIDS Bureau, Special Projects of National Significance (SPNS) funded the Evaluation and Technical Assistance Center (ETAC) at the University of California, Los Angeles and 10 demonstration projects at sites across the United States that incorporated innovative approaches using a variety of social media and mobile technology strategies designed specifically for youth and young adults living with HIV. The ETAC developed a typology, or a classification system, that systematically summarizes the principal components of the interventions into broader groups and developed a multisite, mixed-methods approach to evaluate them based on the Department of Health and Human Services HIV health outcomes along the HIV care continuum. The mixed-methods approach is key to remove potential biases in assessing the effectiveness of demonstration projects. Results This SPNS project was funded in September 2015, and enrollment was completed on May 31, 2018. A total of 984 participants have been enrolled in the multisite evaluation. Data collection will continue until August 2019. However, data analysis is currently underway, and the first results are expected to be submitted for publication in 2019. Conclusions This HRSA-funded initiative seeks to increase engagement in HIV medical care, improve health outcomes for people living with HIV, and reduce HIV-related health disparities and health inequities that affect HIV-positive youth and young adults. International Registered Report Identifier (IRRID) DERR1-10.2196/10681
Clinical features of paediatric acute-onset neuropsychiatric syndrome: findings from a case– control study

Background Paediatric acute-onset neuropsychiatric syndrome (PANS), an umbrella term that includes PANDAS (paediatric autoimmune neuropsychiatric disorders associated with streptococcal infections) is suggested to be a psychiatric disorder of autoimmune aetiology. PANS is characterised by an acute onset of obsessive–compulsive disorder or restricted eating with multiple comorbid symptoms. The specificity of the PANS criteria is not fully understood. Aims To describe a cohort of patients with PANS and to determine if PANS features relating to symptoms, onset and course are more common in PANS than in other psychiatric conditions. Method A case–control study comparing patients with interview-confirmed PANS with patients with suspected PANS and patients with a psychiatric condition but with no suspicion of PANS. Validated and non-validated measures of symptoms, onset and episodic course were used. Results Illness in patients with interview-confirmed PANS featured an episodic course and multiple symptoms present at onset compared with the psychiatric controls. However, individuals with interview-confirmed PANS did not present a specific symptom profile. Conclusions PANS may be a distinct clinical entity featuring an acute onset, an episodic course and multiple symptoms at onset. Declaration of interest None.
Exploring nationally and regionally defined models for large area population mapping

Interactions between humans, diseases, and the environment take place across a range of temporal and spatial scales, making accurate, contemporary data on human population distributions critical for a variety of disciplines. Methods for disaggregating census data to finer-scale, gridded population density estimates continue to be refined as computational power increases and more detailed census, input, and validation datasets become available. However, the availability of spatially detailed census data still varies widely by country. In this study, we develop quantitative guidelines for choosing regionally-parameterized census count disaggregation models over country-specific models. We examine underlying methodological considerations for improving gridded population datasets for countries with coarser scale census data by investigating regional versus country-specific models used to estimate density surfaces for redistributing census counts. Consideration is given to the spatial resolution of input census data using examples from East Africa and Southeast Asia. Results suggest that for many countries more accurate population maps can be produced by using regionally-parameterized models where more spatially refined data exists than that which is available for the focal country. This study highlights the advancement of statistical toolsets and considerations for underlying data used in generating widely used gridded population data.
MYH9 Promotes Growth and Metastasis via Activation of MAPK/AKT Signaling in Colorectal Cancer

The contractile protein MYH9 (non-muscle myosin IIA) is an actin-binding protein that plays a fundamental role in cell adhesion, migration, and division. However, its distinct role in colorectal cancer (CRC) still remains unidentified. In this study, we detected significant MYH9 overexpression in CRC samples compared with paired normal tissues using western blotting and tissue microarray immunohistochemistry (IHC). Moreover, analysis of patient clinical information demonstrated that MYH9 overexpression was strongly correlated with lymph node metastasis and poor overall survival. Endogenous overexpression of MYH9 enhanced the ability of cell proliferation and migration in vitro, and accelerated CRC growth in mouse models. Silencing of MYH9 revealed repressive effects on CRC cells in vitro and in vivo. Furthermore, primary biomechanics that involved MAPK/AKT signaling mediated epithelial-mesenchymal transition (EMT) was uncovered underlying MYH9 dependent cell behaviors. Collectively, our data showed that MYH9 significantly promoted tumorigenesis by regulating MAPK/AKT signaling, and was remarkably correlated with poor prognosis in CRC. MYH9 may thus be a novel biomarker and drug target in the diagnosis and treatment of CRC.
Data democracy – increased supply of geospatial information and expanded participatory processes in the production of data

The global landscape in the supply, co-creation and use of geospatial data is changing very rapidly with new satellites, sensors and mobile devices reconfiguring the traditional lines of demand and supply and the number of actors involved. In this paper we chart some of these technology-led developments and then focus on the opportunities they have created for the increased participation of the public in generating and contributing information for a wide range of uses, scientific and non. Not all this information is open or geospatial, but sufficiently large portions of it are to make it one of the most significant phenomena of the last decade. In fact, we argue that while satellite and sensors have exponentially increased the volumes of geospatial information available, the participation of the public is transformative because it expands the range of participants and stakeholders in society using and producing geospatial information, with opportunities for more direct participation in science, politics and social action.
MagniFinger: Fingertip probe microscope with direct micro movements

By adulthood, our fingers have developed a high level of dexterity: sensory and motor skills that developers have only just started to make use of in modern interfaces. Previous research has unveiled the possibilities of enhancing touch modalities by introducing visual feedback of the magnified touch image. Yet, most of the microscopes on the market require a complicated procedure to operate and this makes it difficult to move the felt/observed area. To address this, we introduce MagniFinger, a new finger-based microscope that allows users to magnify the contacting surface on their fingertips using two means of control: sliding and tilting. The tilting-based control enables a more precise movement under micro-environments. According to the results of our experiments, it shortens the time of reaching targets compared to the simple sliding-based control.
Enhanced expression of NADPH oxidase Nox4 in human gliomas and its roles in cell proliferation and survival

Reactive oxygen species (ROS) have been attracting attention as mediators of various cell‐signaling pathways. Nox‐family NADPH oxidases have proven to be a major source of ROS production in various cell types and have crucial roles in various physiological and pathological processes. In this study, we show that Nox4, a member of Nox family, is prominently expressed in various neuroepithelial tumors by reverse transcription‐polymerase chain reaction (RT‐PCR) and immunohistochemical studies. We quantified Nox4 mRNA expression by real‐time PCR in tumor specimens from 58 patients with astrocytomas and found that the expression levels of Nox4 mRNA in glioblastomas (WHO grade IV) were significantly higher than those in other astrocytomas (WHO grade II and III). In addition, we show that specific knockdown of Nox4 expression by RNA interference results in cell‐growth inhibition and enhances induction of apoptosis by chemotherapeutic agents, such as cisplatin, in cultured glioma cell lines. Based on these observations, enhanced expression of Nox4 appears to be involved in cell proliferation and survival in glioma cells. © 2008 Wiley‐Liss, Inc.
Circulating fibroblast growth factor 23 levels and incident dementia: The Framingham heart study

Background Fibroblast growth factor 23 is an emerging vascular biomarker, recently associated with cerebral small vessel disease and poor cognition in patients on dialysis. It also interacts with klotho, an anti-aging and cognition enhancing protein. Objective To determine if circulating Fibroblast growth factor 23 (FGF23) is associated with new-onset cognitive outcomes in a community-based cohort of cognitively healthy adults with long-term follow-up. Methods We measured serum FGF23 levels in 1537 [53% women, mean age 68.7 (SD 5.7)] dementia-free Framingham Offspring participants at their 7th quadrennial examination (1998–2001), and followed these participants for the development of clinical all-cause dementia and Alzheimer’s disease (AD). Secondary outcomes included MRI-based structural brain measures, and neurocognitive test performance at exam 7. Results During a median (Q1, Q3) 12-year (7.0, 13.3) follow up, 122 (7.9%) participants developed dementia, of whom 91 (5.9%) had AD. Proportional-hazards regression analysis, adjusted for age, sex, education, systolic blood pressure, antihypertensive medication, prevalent cardiovascular disease, diabetes mellitus, smoking status and apoE ε4 carrier status, revealed that higher serum FGF23 levels were associated with an increased risk of incident dementia and AD (Hazard ratio [HR] per 1 standard deviation increment in inverse transformed FGF23 level 1.25, 95% CI 1.02–1.53, and 1.32, 95% CI 1.04–1.69, respectively). There was no significant interaction according to presence/absence of significant renal impairment (eGFR <30 versus ≥30ml/min) and risk of dementia (based on 1537; p = 0.97). Conclusions Higher circulating FGF23 is associated with an increased risk of dementia, suggesting that FGF23-related biological pathways may play a role in the development of dementia.
Microevolution of the pathogenic yeasts Candida albicans and Candida glabrata during antifungal therapy and host infection

Infections by the pathogenic yeasts Candida albicans and Candida glabrata are among the most common fungal diseases. The success of these species as human pathogens is contingent on their ability to resist antifungal therapy and thrive within the human host. C. glabrata is especially resilient to azole antifungal treatment, while C. albicans is best known for its wide array of virulence features. The core mechanisms that underlie antifungal resistance and virulence in these pathogens has been continuously addressed, but the investigation on how such mechanisms evolve according to each environment is scarcer. This review aims to explore current knowledge on micro-evolution experiments to several treatment and host-associated conditions in C. albicans and C. glabrata. The analysis of adaptation strategies that evolve over time will allow to better understand the mechanisms by which Candida species are able to achieve stable phenotypes in real-life scenarios, which are the ones that should constitute the most interesting drug targets.
The comparative genomics and complex population history of Papio baboons

We analyzed genome sequences from 6 baboon species and found evidence of ancient and recent hybridization among divergent species. Recent studies suggest that closely related species can accumulate substantial genetic and phenotypic differences despite ongoing gene flow, thus challenging traditional ideas regarding the genetics of speciation. Baboons (genus Papio) are Old World monkeys consisting of six readily distinguishable species. Baboon species hybridize in the wild, and prior data imply a complex history of differentiation and introgression. We produced a reference genome assembly for the olive baboon (Papio anubis) and whole-genome sequence data for all six extant species. We document multiple episodes of admixture and introgression during the radiation of Papio baboons, thus demonstrating their value as a model of complex evolutionary divergence, hybridization, and reticulation. These results help inform our understanding of similar cases, including modern humans, Neanderthals, Denisovans, and other ancient hominins.