Miracle-dz/UniFAR-FTUs huggingface dataset:
Clinical Decision Support for Early Recognition of Sepsis*

Sepsis is an inflammatory response triggered by infection, with a high in-hospital mortality rate. Early recognition and treatment can reverse the inflammatory response, with evidence of improved patient outcomes. One challenge clinicians face is identifying the inflammatory syndrome against the background of the patient’s infectious illness and comorbidities. An approach to this problem is implementation of computerized early warning tools for sepsis. This multicenter retrospective study sought to determine clinimetric performance of a cloud-based computerized sepsis clinical decision support system (CDS), understand the epidemiology of sepsis, and identify opportunities for quality improvement. Data encompassed 6200 adult hospitalizations from 2012 through 2013. Of 13% patients screened-in, 51% were already suspected to have an infection when the system activated. This study focused on a patient cohort screened-in before infection was suspected; median time from arrival to CDS activation was 3.5 hours, and system activation to diagnostic collect was another 8.6 hours.
Isolated corpus callosal infarction secondary to pericallosal artery disease presenting as alien hand syndrome

Two patients are described with the callosal type of alien hand syndrome. Both presented with abnormal feelings in the left upper limb and intermanual conflict without clinical evidence of callosal apraxia or frontal lobe dysfunction such as motor deficit or reflexive grasping. Imaging studies disclosed subacute infarction in the body and splenium of the corpus callosum due to pericallosal artery disease. These patients were unique in their presentation as a callosal type of alien hand syndrome secondary to ischaemic stroke.
Vancomycin Taper and Risk of Failure of Fecal Microbiota Transplantation in Patients With Recurrent Clostridium difficile Infection

We retrospectively analyzed a cohort of 109 subjects treated for recurrent Clostridium difficile infection with fecal microbiota transplantation (FMT) at a tertiary referral center between 2011 and 2014 to determine risk factors for FMT failure. In a multivariate analysis, failure to use an oral vancomycin taper preceding FMT was associated with a significant risk of FMT failure (odds ratio, 0.15; 95% confidence interval, .007-.40).
Photoionization spectroscopy of deep defects responsible for current collapse in nitride-based field effect transistors

This review is concerned with the characterization and identification of the deep centres that cause current collapse in nitride-based field effect transistors. Photoionization spectroscopy is an optical technique that has been developed to probe the characteristics of these defects. Measured spectral dependences provide information on trap depth, lattice coupling and on the location of the defects in the device structure. The spectrum of an individual trap may also be regarded as a 'fingerprint' of the defect, allowing the trap to be followed in response to the variation of external parameters. The basis for these measurements is derived through a modelling procedure that accounts quantitatively for the light-induced drain current increase in the collapsed device. Applying the model to fit the measured variation of drain current increase with light illumination provides an estimate of the concentrations and photoionization cross-sections of the deep defects. The results of photoionization studies of GaN metal–semiconductor field effect transistors and AlGaN/GaN high electron mobility transistors (HEMTs) grown by metal–organic chemical vapour deposition (MOCVD) are presented and the conclusions regarding the nature of the deep traps responsible are discussed. Finally, recent photoionization studies of current collapse induced by short-term (several hours) bias stress in AlGaN/GaN HEMTs are described and analysed for devices grown by both MOCVD and molecular beam epitaxy.
Testing autocorrelation and partial autocorrelation: Asymptotic methods versus resampling techniques

Autocorrelation and partial autocorrelation, which provide a mathematical tool to understand repeating patterns in time series data, are often used to facilitate the identification of model orders of time series models (e.g., moving average and autoregressive models). Asymptotic methods for testing autocorrelation and partial autocorrelation such as the 1/T approximation method and the Bartlett's formula method may fail in finite samples and are vulnerable to non-normality. Resampling techniques such as the moving block bootstrap and the surrogate data method are competitive alternatives. In this study, we use a Monte Carlo simulation study and a real data example to compare asymptotic methods with the aforementioned resampling techniques. For each resampling technique, we consider both the percentile method and the bias-corrected and accelerated method for interval construction. Simulation results show that the surrogate data method with percentile intervals yields better performance than the other methods. An R package pautocorr is used to carry out tests evaluated in this study.
Hepatitis B virus nucleocapsid envelopment does not occur without genomic DNA synthesis

Assembly of the enveloped hepatitis B virus (HBV) is initiated by packaging of the RNA pregenome and the viral reverse transcriptase-DNA polymerase into a nucleocapsid. The pregenome is then reverse transcribed into single-stranded minus-polarity DNA, which is subsequently replicated to double-stranded DNA. All replicative intermediates are observable in capsids within infected liver, but only relatively mature nucleocapsids containing partially double stranded DNA are found in secreted virions. This observation suggests that maturation of the genome within the capsid is required for envelopment and secretion. We show that the differential distribution of replicative intermediates between intracellular nucleocapsids and secreted virions is also observable in human hepatoma cells transfected with wild-type HBV genomes. However, nucleocapsids were not enveloped or secreted when they were produced by an HBV genome carrying a missense mutation in the DNA polymerase that eliminates all DNA synthesis. An HBV missense mutant defective in the RNase H activity of the polymerase which allowed minus-strand DNA synthesis but not formation of double-stranded DNA was able to form virion-like particles. These experiments demonstrate that immature nucleocapsids containing pregenomic RNA are incompetent for envelopment and that minus-strand DNA synthesis in the interior lumen of the capsid is coupled to the appearance of a signal on the exterior of the nucleocapsid that is essential for its envelopment.
Postnatal carbon monoxide exposure: immediate and lasting effects in the rat.

Groups of newborn rats inhaled 500 ppm CO for 32 days, after which they continued development in ambient air. The ratio of heart weight to body weight increased sharply after birth, peaked at 14 days of age, and then fell progressively but remained above that of normal rats at 68 and 107 days of age. At 14 days of age, the weight of the left ventricle plus interventricular septum (LV + S) exceeded the controls by 80%, whereas the weight of the right ventricle (RV) was 100% greater. RV weight remained significantly greater than that of the controls at 68, 107, and 217 days of age. The ratio of RV weight to LV + S weight remained higher than that of the controls both during and after CO exposure. Myocardial deoxyribonucleic acid (DNA) concentration (microgram/mg dry wt) declined more rapidly in the CO-exposed groups during the first 2 wk. DNA content (microgram/LV + S + RV) was not significantly different. There were no differences in DNA concentration or content after CO exposure. Hydroxyproline, used as an index of collagen content, was unaffected by postnatal cardiomegaly. Hydroxyproline concentration was depressed only during the first 3 wk. Cardiac cytochrome c concentration was depressed and lactate dehydrogenase M subunit composition elevated only during CO exposure. Neither lactate dehydrogenase specific activity nor myoglobin concentration was altered during or after CO treatment. Neither the DNA nor hydroxyproline data provide an explanation for "persistent cardiomegaly. "
Differential privacy for recommendation model based on web browsing behaviors of mobile users

Recommendation algorithm has received extensive attention in recent years. It is very difficult to directly apply traditional recommendation algorithm to offer personalized recommendation based on mobile users' browsing behaviors and ensure security of mobile users' data. In this paper, through analysis of mobile users' browsing behaviors, we obtained the reason why traditional recommendation based on browsing behaviors of mobile users lead poor performance. Based on the conclusion, we proposed a recommendation model, denoted as DPRMBDMU, which can effective offer personalized recommendation based on browsing behaviors of mobile users and, meanwhile, protect the security of mobile users' data. Finally, we proved DPRMBDMU satisfies differential privacy in theory. And we run experiments on the dataset from real world workload to evaluate efficiency of DPRMBDMU. The experiment result verifies that the efficiency of DPRMBDMU is better than the traditional recommendation algorithm based on browsing behaviors of mobile users.
Dihydroxypentamethoxyflavone Down-Regulates Constitutive and Inducible Signal Transducers and Activators of Transcription-3 through the Induction of Tyrosine Phosphatase SHP-1

Because constitutive activation of signal transducers and activators of transcription-3 (STAT3) has been linked with cellular transformation, survival, proliferation, chemoresistance, and angiogenesis of various tumor cells, agents that can suppress STAT3 activation have potential as cancer therapeutics. In the present report, we identified a flavone from the leaves of a Thai plant, Gardenia obtusifolia, 5,3′-dihydroxy-3,6,7,8,4′-pentamethoxyflavone (PMF), that has the ability to inhibit STAT3 activation. PMF inhibited both constitutive and interleukin-6-inducible STAT3 activation in multiple myeloma (MM) cells, as indicated by suppression of STAT3 phosphorylation, nuclear translocation, DNA binding, and STAT3-regulated gene expression. The inhibition of STAT3 by PMF was reversible. We found that the activation of various kinases including Janus-like kinase (JAK)-1, JAK-2, c-Src, extracellular signal-regulated kinases 1 and 2, AKT, and epidermal growth factor receptor, implicated in STAT3 activation, were inhibited by the flavone. It is noteworthy that pervanadate suppressed the ability of PMF to inhibit the phosphorylation of STAT3, suggesting that protein tyrosine phosphatase was involved. PMF induced the expression of SHP-1 and was linked to the dephosphorylation of STAT3, because its deletion by small interfering RNA abolished the PMF-induced constitutive and inducible STAT3 inhibition. STAT3 inhibition led to the suppression of proteins involved in proliferation (cyclin D1 and c-myc), survival (survivin, Mcl-1, Bcl-xL, Bcl-2, and cIAP-2), and angiogenesis (vascular endothelial growth factor). Finally, PMF inhibited proliferation and induced apoptosis of MM cells. PMF also significantly potentiated the apoptotic effects of Velcade and thalidomide in MM cells. Overall, these results suggest that PMF is a novel blocker of STAT3 activation and thus may have potential in suppression of tumor cell proliferation and reversal of chemoresistance in MM cells.
Signal Transduction Pathways Regulated by Mitogen-activated/Extracellular Response Kinase Kinase Kinase Induce Cell Death (*)

Mitogen-activated/extracellular response kinase kinase (MEK) kinase (MEKK) is a serine-threonine kinase that regulates sequential protein phosphorylation pathways, leading to the activation of mitogen-activated protein kinases (MAPK), including members of the Jun kinase (JNK)/stress-activated protein kinase (SAPK) family. In Swiss 3T3 and REF52 fibroblasts, activated MEKK induces cell death involving cytoplasmic shrinkage, nuclear condensation, and DNA fragmentation characteristic of apoptosis. Expression of activated MEKK enhanced the apoptotic response to ultraviolet irradiation, indicating that MEKK-regulated pathways sensitize cells to apoptotic stimuli. Inducible expression of activated MEKK stimulated the transactivation of c-Myc and Elk-1. Activated Raf, the serine-threonine protein kinase that activates the ERK members of the MAPK family, stimulated Elk-1 transactivation but not c-Myc; expression of activated Raf does not induce any of the cellular changes associated with MEKK-mediated cell death. Thus, MEKK selectively regulates signal transduction pathways that contribute to the apoptotic response.
A phenomenological particle‐based platelet model for simulating filopodia formation during early activation

We developed a phenomenological three‐dimensional platelet model to characterize the filopodia formation observed during early stage platelet activation. Departing from continuum mechanics based approaches, this coarse‐grained molecular dynamics (CGMD) particle‐based model can deform to emulate the complex shape change and filopodia formation that platelets undergo during activation. The platelet peripheral zone is modeled with a two‐layer homogeneous elastic structure represented by spring‐connected particles. The structural zone is represented by a cytoskeletal assembly comprising of a filamentous core and filament bundles supporting the platelet's discoid shape, also modeled by spring‐connected particles. The interior organelle zone is modeled by homogeneous cytoplasm particles that facilitate the platelet deformation. Nonbonded interactions among the discrete particles of the membrane, the cytoskeletal assembly, and the cytoplasm are described using the Lennard–Jones potential with empirical constants. By exploring the parameter space of this CGMD model, we have successfully simulated the dynamics of varied filopodia formations. Comparative analyses of length and thickness of filopodia show that our numerical simulations are in agreement with experimental measurements of flow‐induced activated platelets. Copyright © 2015 John Wiley & Sons, Ltd.
THE INFLUENCE OF ACTUATION MODELING ON THE ASSESSED JOINT REACTIONS IN BIOMECHANICAL SYSTEMS

Abstract Introduction. Human body biomechanical models are actuated either by net torques at the joints or individual muscle forces whose action around the joints results, by principle, in the net torques. In the model-based inverse dynamics simulation of human movements the assessed joint reactions depend substantially on the choice of the actuation model, which is discussed in the paper. Material and methods. Using the two actuation models, variant biomechanical models of the lower limb, decomposed from the whole human body, were developed. They were then used for the inverse dynamics simulation of a recorded one-leg jump on the force platform to assess time variations of controls (either net torques or muscle forces) and joint reactions. Results. The assessed joint reactions obtained using the model actuated by net torques are substantially different from those obtained by means of the model actuated by muscle forces. Conclusion. The joint reactions computed using the model actuated by net torques do not involve contribution of the tensile muscle forces to the internal loads, and they are therefore underestimated. Determination of joint reactions should thus be based on musculoskeletal models actuated by the muscle forces.
Pantograph-catenary interaction model comparison

The interaction between pantograph and catenary is the present problematic of current collection in electrical railways. Current collection enhancement is a key requirement for train speed-up in railway industry. Several models have been proposed in this sense to investigate the dynamic response of pantograph-overhead contact line. This paper presents a review of different pantograph and catenary models. More attention is paid to catenary models in order to evaluate its implementation on a real-time system. The accuracy is compared based on European Standard EN50318–2000 and the computation time between all realized models is also discussed.
Four-gene expression model predictive of lymph node metastases in oral squamous cell carcinoma

Abstract Background. Previous knowledge of cervical lymph node compromise may be crucial to choose the best treatment strategy in oral squamous cell carcinoma (OSCC). Here we propose a set four genes, whose mRNA expression in the primary tumor predicts nodal status in OSCC, excluding tongue. Material and methods. We identified differentially expressed genes in OSCC with and without compromised lymph nodes using Differential Display RT-PCR. Known genes were chosen to be validated by means of Northern blotting or real time RT-PCR (qRT-PCR). Thereafter we constructed a Nodal Index (NI) using discriminant analysis in a learning set of 35 patients, which was further validated in a second independent group of 20 patients. Results. Of the 63 differentially expressed known genes identified comparing three lymph node positive (pN +) and three negative (pN0) primary tumors, 23 were analyzed by Northern analysis or RT-PCR in 49 primary tumors. Six genes confirmed as differentially expressed were used to construct a NI, as the best set predictive of lymph nodal status, with the final result including four genes. The NI was able to correctly classify 32 of 35 patients comprising the learning group (88.6%; p = 0.009). Casein kinase 1alpha1 and scavenger receptor class B, member 2 were found to be up regulated in pN + group in contrast to small proline-rich protein 2B and Ras-GTPase activating protein SH3 domain-binding protein 2 which were upregulated in the pN0 group. We validated further our NI in an independent set of 20 primary tumors, 11 of them pN0 and nine pN + with an accuracy of 80.0% (p = 0.012). Conclusions. The NI was an independent predictor of compromised lymph nodes, taking into the consideration tumor size and histological grade. The genes identified here that integrate our “Nodal Index” model are predictive of lymph node metastasis in OSCC.
Regulation of egg production, worm burden, worm length and worm fecundity by host responses in sheep infected with Ostertagia circumcincta

Following infection with Ostertagia circumcincta there was considerable variation in worm burdens, worm size and number of inhibited larvae even among sheep matched for age, sex, breed, farm of origin and history of parasite exposure. There was also substantial variation among sheep in the concentration of mast cells, globule leucocytes, eosinophils, IgA‐positive plasma cells and parasite‐specific IgA in the abomasal mucosa. With the exception of faecal egg counts over time, the parasitological and immunological traits were all continually distributed among animals and sheep did not fall into discrete high and low‐responder categories. The responses were correlated. Sheep with more mast cells also had more globule leucocytes, more eosinophils, more IgA plasma cells and greater amounts of parasite‐specific IgA in the abomasal mucosa. Female worm length was strongly and positively correlated with the number of eggs in utero. Faecal egg counts were associated with variation in worm number and with variation in the number of eggs in utero. The worm burden was negatively correlated with the number of globule leucocytes in the abomasal mucosa, suggesting that worm numbers are regulated by immediate hypersensitivity reactions. Decreased female worm length was associated with an increased local IgA response to fourth stage larvae. The number of inhibited larvae was positively associated with the size of the local IgA response and positively associated with the size of the worm burden. The results suggest that variation among mature sheep in faecal egg counts is due, at least in part, to variation in local IgA responses which regulate worm fecundity and to variation in local immediate hypersensitivity reactions which regulate worm burdens.
Acute pharyngitis: etiology and diagnosis.

Acute pharyngitis may be caused by a wide variety of microbial agents (Table 1). The relative importance of each of these agents varies greatly depending on a number of epidemiologic factors, including age of the patient, season of the year, and geographic locale. Viruses Most cases of acute pharyngitis are viral in etiology and involve the pharynx as well as other portions of the respiratory tract as manifestations of the common cold, influenza, or croup. Examples include the rhinoviruses, coronaviruses, influenza A and B, and the parainfluenza viruses. Certain viral infections causing sore throat may exhibit clinical manifestations that are rather distinctive. Examples include enteroviruses (herpangina due to Coxsackie A), Epstein-Barr virus (infectious mononucleosis), cytomegalovirus (cytomegalovirus mononucleosis), adenovirus (pharyngoconjunctival fever, acute respiratory disease of military recruits), and herpes simplex virus (pharyngitis, gingivitis, and stomatitis). In many instances, however, the illnesses caused by these agents may overlap so broadly with that of streptococcal pharyngitis as to be clinically indistinguishable. Thus, Epstein-Barr virus, adenovirus, and herpes virus may all cause fever, exudative pharyngitis, and cervical adenitis. Several studies have documented the role of primary herpesvirus type 1 infection as a cause of acute pharyngitis in college students.1-4 Herpesvirus type 2 can occasionally cause a similar illness as a consequence of oral-genital sexual contact.5 Although herpesvirus infections may involve the anterior oral cavity (vesicular or ulcerative gingivostomatitis) as well as the posterior pharynx, they do not routinely do so. Only about one-fourth of students with culturally and serologically proven primary herpes simplex type 1 pharyngitis studied by Glezen et al,2 for example, had gingivostomatitis.
Pathogenesis and therapy of cutaneous lymphomas – Progress or impasse?

Abstract: The cutaneous environment hosts a number of hematopoietic neoplasms that are dominated by primary cutaneous (PC) T‐cell lymphomas. Recent progress in molecular biology and immunology has provided tools to investigate the pathogenesis and the biology of these neoplasms. This review highlights newest findings concerning the immune biology of CD4+CD56+ hematodermic neoplasms, and PC T‐cell and B‐cell lymphomas, speculating how these can be translated into more sophisticated, biology‐based treatment approaches in the near future.