Miracle-dz/UniFAR-FTUs huggingface dataset:
High Human Cytomegalovirus IgG Level is Associated with Increased Incidence of Diabetic Atherosclerosis in Type 2 Diabetes Mellitus Patients

Background At present, whether human cytomegalovirus (HCMV) infection is associated with type 2 diabetes mellitus (T2DM) is debatable. The effect of active HCMV infection on glucose regulation has been poorly studied. Although HCMV infection is correlated with atherosclerosis in cardiovascular disease, the role of HCMV infection in the development of diabetic atherosclerosis in T2DM is unclear and is usually neglected by endocrinologists. The aim of this study was to assess the effects of HCMV infection on glucose regulation and the development of diabetic atherosclerosis in T2DM patients. Material/Methods A total of 222 hospitalized T2DM patients were enrolled. Nested polymerase chain reactions were used to detect HCMV DNA extracted from peripheral blood leukocytes. Quantitative real-time PCR was used to determine viral load. HCMV IgG antibody concentrations were analyzed by chemiluminescence immunoassay. Results HCMV active infection, viral load, and HCMV IgG titers were not correlated with glucose regulation. Binary logistic regression demonstrated that the highest quartile of HCMV IgG concentration (>500 U/ml) was correlated with the incidence of diabetic atherosclerosis (OR: 8.0, 95%CI: 2.3–27.2), and that titer >127U/ml of HCMV IgG is an independent predictor for the development of diabetic atherosclerosis in T2DM patients (OR: 4.6, 95%CI: 1.9–11.3) after adjustment for all potential confounding factors. Conclusions Active HCMV infection is unlikely to influence glucose regulation in T2DM. However, HCMV IgG titers are associated with the incidence of diabetic atherosclerosis, and titer >127U/ml of HCMV IgG might be an independent risk factor for the development of diabetic atherosclerosis in T2DM patients.
Candida famata (Debaryomyces hansenii) DNA sequences containing genes involved in riboflavin synthesis

Previously cloned Candida famata (Debaryomyces hansenii) strain VKM Y‐9 genomic DNA fragments containing genes RIB1 (codes for GTP cyclohydrolase II), RIB2 (encodes specific reductase), RIB5 (codes for dimethylribityllumazine synthase), RIB6 (encodes dihydroxybutanone phosphate synthase) and RIB7 (codes for riboflavin synthase) were sequenced. The derived amino acid sequences of C. famata RIB genes showed extensive homology to the corresponding sequences of riboflavin synthesis enzymes of other yeast species. The highest identity was observed to homologues of D. hansenii CBS767, as C. famata is the anamorph of this hemiascomycetous yeast. The D. hansenii CBS767 RIB3 gene encoding specific deaminase was cloned. This gene successfully complemented riboflavin auxotrophy of the rib3 mutant of flavinogenic yeast, Pichia guilliermondii. Putative iron‐responsive elements (potential sites for binding of the transcription factors Fep1p or Aft1p and Aft2p) were found in the upstream regions of some C. famata and D. hansenii RIB genes. The sequences of C. famata RIB genes have been submitted to the EMBL data library under Accession Nos AJ810169–AJ810173. Copyright © 2004 John Wiley & Sons, Ltd.
Video-Assisted Thoracoscopic Surgery for Thoracic Vertebral Biopsy

Although video-assisted thoracoscopic surgery (VATS) has been used as a diagnostic procedure for evaluating diseases of the chest cavity and pleura, its role in spinal disorders is still being defined. Within the past few years, important diagnostic and therapeutic applications pertaining to the spine have been recognized. When a computed tomography (CT)-guided needle biopsy is not diagnostic for a vertebral body and/or disk with a lesion of unknown etiology, and the only other alternative in obtaining tissue for diagnosis is via an open thoracotomy, VATS may have a useful role. We report the results and technique of VATS in six patients with various spinal disorders. We believe that the advantages of VATS compared to an open thoracotomy include decreased postoperative pain, improved pulmonary function, a shorter hospital stay, and a faster recovery time. In our series, VATS was diagnostic with a 48-hour inpatient stay in most cases. Although there is a steep learning curve, this technique performed with enhanced illumination and greater magnification has allowed optimal management of multiple diseases of the thoracic spine by the combined team of orthopaedic and thoracic surgeons.
Frequency of gastropathy and gastric varices in children with extrahepatic portal venous obstruction treated with sclerotherapy

Background: There are limited reports of the effect of endoscopic sclerotherapy (EST) on portal hypertensive gastropathy (PHG) and gastric varices (GV) in children with extrahepatic portal venous obstruction (EHPVO). We have studied the prevalence of PHG and GV in children with EHPVO and assessed the effect of EST on them on long‐term follow‐up.
Temperament, emotions and somatic complaints in children: can approach and avoidance temperament help explain somatic complaints in children?

Previous research has demonstrated that certain temperamental traits may predispose children to experience somatic complaints in children. The current study tested the ability of an approach-avoidance model of temperament to explain somatic complaints in school-age children. It was predicted that (1) avoidance temperament would be positively associated with somatic complaints, and (2) approach temperament would be negatively associated with somatic complaints. One hundred and seventy seven children, aged 8 15 years, completed a computer task and were administered self-reports of behavioral inhibition (avoidance), behavioral activation (approach), emotions, and somatic complaints. Parents reported on their child's approach and avoidance temperament. Results indicate that avoidance temperament significantly explains variability in somatic complaints when child-reports are considered, but this relation is fully mediated by anxiety (for boys only) and negative affect (for girls only). Approach temperament showed no association with somatic complaints.
Grace: safe multithreaded programming for C/C++

The shift from single to multiple core architectures means that programmers must write concurrent, multithreaded programs in order to increase application performance. Unfortunately, multithreaded applications are susceptible to numerous errors, including deadlocks, race conditions, atomicity violations, and order violations. These errors are notoriously difficult for programmers to debug. This paper presents Grace, a software-only runtime system that eliminates concurrency errors for a class of multithreaded programs: those based on fork-join parallelism. By turning threads into processes, leveraging virtual memory protection, and imposing a sequential commit protocol, Grace provides programmers with the appearance of deterministic, sequential execution, while taking advantage of available processing cores to run code concurrently and efficiently. Experimental results demonstrate Grace's effectiveness: with modest code changes across a suite of computationally-intensive benchmarks (1-16 lines), Grace can achieve high scalability and performance while preventing concurrency errors.
Solving Set Optimization Problems by Cardinality Optimization with an Application to Argumentation

Optimization—minimization or maximization—in the lattice of subsets is a frequent operation in Artificial Intelligence tasks. Examples are subset-minimal model-based diagnosis, nonmonotonic reasoning by means of circumscription, or preferred extensions in abstract argumentation. Finding the optimum among many admissible solutions is often harder than finding admissible solutions with respect to both computational complexity and methodology. This paper addresses the former issue by means of an effective method for finding subset-optimal solutions. It is based on the relationship between cardinality-optimal and subset-optimal solutions, and the fact that many logic-based declarative programming systems provide constructs for finding cardinality-optimal solutions, for example maximum satisfiability (MaxSAT) or weak constraints in Answer Set Programming (ASP). Clearly each cardinality-optimal solution is also a subset-optimal one, and if the language also allows for the addition of particular restricting constructs (both MaxSAT and ASP do) then all subset-optimal solutions can be found by an iterative computation of cardinality-optimal solutions. As a showcase, the computation of preferred extensions of abstract argumentation frameworks using the proposed method is studied.
Badger responses to small-scale culling may compromise targeted control of bovine tuberculosis

Significance Bovine tuberculosis (TB) killed 1,500 people annually in 1930s Britain. TB control efforts still entail slaughtering many thousands of cattle annually, costing British farmers and taxpayers millions of dollars. Transmission from wild badgers impedes control of cattle TB, but nonselective badger culls confer limited benefits because culling changes badger behavior in ways that increase disease spread. A new plan to cull only test-positive badgers, and vaccinate test-negative badgers [termed test–vaccinate/remove (TVR)], is probably more publicly acceptable, and might be more effective if culling small numbers of badgers prompts no behavioral change. Unfortunately, this study shows that small-scale culling (such as TVR) changes badgers’ behavior in ways that risk increasing TB transmission among badgers and exacerbating cattle TB incidence rather than reducing it. Where wildlife disease requires management, culling is frequently considered but not always effective. In the British Isles, control of cattle tuberculosis (TB) is hindered by infection in wild badger (Meles meles) populations. Large-scale badger culling can reduce the incidence of confirmed cattle TB, but these benefits are undermined by culling-induced changes in badger behavior (termed perturbation), which can increase transmission among badgers and from badgers to cattle. Test–vaccinate/remove (TVR) is a novel approach that entails testing individual badgers for infection, vaccinating test-negative animals, and killing test-positive animals. Imperfect capture success, diagnostic sensitivity, and vaccine effectiveness mean that TVR would be expected to leave some infected and some susceptible badgers in the population. Existing simulation models predict that TVR could reduce cattle TB if such small-scale culling causes no perturbation, but could increase cattle TB if considerable perturbation occurs. Using data from a long-term study, we show that past small-scale culling was significantly associated with four metrics of perturbation in badgers: expanded ranging, more frequent immigration, lower genetic relatedness, and elevated prevalence of Mycobacterium bovis, the causative agent of TB. Though we could not reject the hypothesis that culling up to three badgers per social group might avoid perturbation, we also could not reject the hypothesis that killing a single badger prompted detectable perturbation. When considered alongside existing model predictions, our findings suggest that implementation of TVR, scheduled for 2014, risks exacerbating the TB problem rather than controlling it. Ongoing illegal badger culling is likewise expected to increase cattle TB risks.
Docosahexaenoic Acid Is the Preferred Dietary n-3 Fatty Acid for the Development of the Brain and Retina

ABSTRACT: The metabolism of individual dietary n-3 fatty acids was studied in n-3 fatty acid-deficient newly hatched chicks. Laying hens were fed the n-6 fatty acid, ethyl linoleate, as the only source of polyunsaturated fat. Chicks were then fed the n-3-deficient hens' diet, or one of three other diets supplemented with the ethyl ester of 18:3n-3, 20:5n-3 [eicosapentaenoic acid (EPA)], or 22:6n- 3 [docosahexaenoic acid (DHA)] at 0.44% of calories. At the end of 0, 1, 2, and 3 wk, the fatty acid composition of the brain, retina, liver, and serum was determined. Dietary EPA and DHA were equally effective at raising levels of DHA in the brain and retina. Dietary 18:3 was relatively ineffective in restoring brain and retina DHA. In the n-3- deficient chicks fed EPA or DHA, levels of DHA recovered to control values in both the brain and retina by 3 wk. Very little EPA accumulated in the brain or retina of chicks fed EPA. Hepatic synthesis of DHA from EPA appeared low, suggesting that the brain and retina synthesized the DHA that accumulated rapidly in these tissues after the feeding of EPA. The δ-4-desaturase enzyme was apparently very active, then, in the brain and retina. Retroconversion of dietary 22:6 to 22:5 and 20:5 was evident in the serum, liver, and retina but not in the brain. Thus, it was possible to study the relative metabolism and especially the interconversion of n-3 fatty acids in a environment uncomplicated by existing stores of these essential fatty acids. This study would suggest that 18:3 as the sole source of n-3 fatty acids in the diets of animals, including the human infant, may not be adequate for the biochemical development of the brain and retina and that dietary DHA is the preferred fatty acid of the n-3 series.
Understanding sexual prejudice among midwestern pre-service and in-service teachers: some quantitative results

Sexual orientation is only one facet of diversity (Banks et al., 2005), but teacher preparation may not adequately address sexual prejudice (Lamb, 2013). Sexual prejudice arises when heterosexuality is assumed to be the default for all students. School environments reinforce heteronormativity (Dean, 2010; Foucault, 1990; Himmelstein & Bruckner, 2011) such that when hate speech or physical violence occur against the nonhetersexual or the transgender student, teachers may not be prepared to respond appropriately. Prejudice toward gender or sexually variant students may not be adequately addressed in teacher preparation to challenge the reproduction of heteronormativity in school environments. A mixed method approach was followed to address the beliefs and attitudes of pre-service (undergraduate) and in-service (graduate) teachers toward sexual minorities through an online survey and face-to-face interviews. Group means of the PREJUDICE scale for each independent variable were analyzed for statistical significance. The total variance of the PREJUDICE scale was accounted for by personal characteristics only (political, 38%; religious, 9%; non-heterosexual friends, 18%; and family members, 5%; participant sexual orientation, 8%; and finishing the survey, 6%). Neither demographic nor educational characteristics accounted for statistically significant differences in group means of the PREJUDICE scale. Collegelevel coursework completed in multicultural education did not significantly account for any of the total variance in PREJUDICE scores. Significantly lower levels of sexual prejudice were associated with having non-heterosexual friends and family members or being non-heterosexual, and there were no significant effects from educational interventions. However, one-on-one interviews provided stories of direct experience with sexual minority youth in K-12 classrooms. A majority of qualitative participants had questioned their conservative backgrounds and the familial/societal messages they had received regarding gender and sexual variance. Their questioning was strengthened by having non-heterosexual friends and family members. In addition, several participants had worked directly with sexual minority youth in their own school buildings and classrooms. Had this study been limited to a survey, the lived experiences of these pre-service and inservice teachers would have been lost. Having friends and family members who are nonheterosexual transcended their socialization and facilitated their development as social justice allies. UNDERSTANDING SEXUAL PREJUDICE AMONG MIDWESTERN PRE-SERVICE AND IN-SERVICE TEACHERS
Roles of visual working memory, global perception and eye -movement in visual complex problem solving

In this dissertation, I explore roles of visual working memory, global perception and eye-movement in complex visual problem solving. Four experiments were conducted and two models were built and tested. Experiment one and model one showed that global information plays an important role and there is an interaction between external representation and internal VWM on global information representation. Experiment two and model two showed that this interaction is achieved by encoding global information with eye-movements throughout the duration of solving a problem. A very regular eye-movement pattern is observed in experiment two. Experiment three further tested the hypothesis that this eye-movement pattern is a result of the individual's VWM limitation by measuring the correlation between individual differences in the quantitative features of the eye-movement pattern and VWM size. The second model assumes that global and local information share a unified VWM capacity limitation. In the fourth experiment, I tested this hypothesis along with several alternative hypotheses. Results of the fourth experiment support the unified capacity hypothesis best and thus make a complete story for the interaction between VWM, global information processing and eye-movements in complex visual problem solving. Even with such a limited amount of VWM capacity, human visual cognition is able to solve complex visual problems by keeping a balanced amount of global and local information in VWM. This balance is achieved by eye-movements that encode both types of information into a unified VWM. Thus, although VWM has such a limited capacity, through frequent eye-movements, visual cognition is able to encode complex visual information in a temporal manner. At each instance, the amount of information encoded is limited by the capacity limitation of VWM but the global information encoded can further guide eye-movements to acquire information that is needed to make the next decision.
DNA Methylation Influences Chlorogenic Acid Biosynthesis in Lonicera japonica by Mediating LjbZIP8 to Regulate Phenylalanine Ammonia-Lyase 2 Expression

The content of active compounds differ in buds and flowers of Lonicera japonica (FLJ) and L. japonica var. chinensis (rFLJ). Chlorogenic acid (CGAs) were major active compounds of L. japonica and regarded as measurements for quality evaluation. However, little is known concerning the formation of active compounds at the molecular level. We quantified the major CGAs in FLJ and rFLJ, and found the concentrations of CGAs were higher in the buds of rFLJ than those of FLJ. Further analysis of CpG methylation of CGAs biosynthesis genes showed differences between FLJ and rFLJ in the 5′-UTR of phenylalanine ammonia-lyase 2 (PAL2). We identified 11 LjbZIP proteins and 24 rLjbZIP proteins with conserved basic leucine zipper domains, subcellular localization, and electrophoretic mobility shift assay showed that the transcription factor LjbZIP8 is a nuclear-localized protein that specifically binds to the G-box element of the LjPAL2 5′-UTR. Additionally, a transactivation assay and LjbZIP8 overexpression in transgenic tobacco indicated that LjbZIP8 could function as a repressor of transcription. Finally, treatment with 5-azacytidine decreased the transcription level of LjPAL2 and CGAs content in FLJ leaves. These results raise the possibility that DNA methylation might influence the recruitment of LjbZIP8, regulating PAL2 expression level and CGAs content in L. japonica.
Chemical and carbon isotopic composition of dissolved organic carbon in a regional confined methanogenic aquifer

This study demonstrates the advantage of a combined use of chemical and isotopic tools to understand the dissolved organic carbon (DOC) cycle in a regional confined methanogenic aquifer. DOC concentration and carbon isotopic data demonstrate that the soil zone is a primary carbon source of groundwater DOC in areas close to recharge zones. An in-situ DOC source linked to organic rich sediments present in the aquifer matrix is controlling the DOC pool in the central part of the groundwater flow system. DOC fractions, 13C-NMR on fulvic acids and 14C data on DOC and CH4 support the hypothesis that the in-situ DOC source is a terrestrial organic matter and discard the Ordovician bedrock as a source of DOC.
Seasonal variation in the frequency of Helicobacter pylori infection: a possible cause of the seasonal occurrence of peptic ulcer disease.

OBJECTIVES The seasonal variation of duodenal ulcer disease and its complications have been repeatedly demonstrated in Israel by several independent studies. The aim of this study was to determine possible seasonal variations in the occurrence of H. pylori infection among dyspeptic patients in Israel. METHODS All 14C-urea breath tests performed in dyspeptic patients at the gastroenterology department in the Tel Aviv Medical Center from January 1991 to December 1992 were reviewed. The monthly variation in the proportion of patients with H. pylori infection was determined, and compared with that of an unrelated 14C-cholyl-glycine breath test. RESULTS Altogether, 702 patients were examined, and 371 (52.8%) of them were found to be infected with H. pylori. During summer months (July-September), a significant decrease in the percentage of patients infected with H. pylori was found, compared with winter months (December-January, 42.3% vs. 60.9%, p < 0.007). No seasonal variation was found in the results of 14C-cholyl-glycine test. The fluctuations in H. pylori infection were highly correlated with the seasonal occurrence of peptic ulcer disease in Israel. CONCLUSIONS The frequency of H. pylori infection in dyspeptic patients in Israel is significantly increased during the winter months and decreased in the summer. This seasonal variation is identical to that found in duodenal ulcer disease. Thus, the seasonal variation of peptic ulcer disease could be explained by H. pylori infection, as seen in other communicable infectious diseases.
Metaphor Interpretation Using Paraphrases Extracted from the Web

Interpreting metaphor is a hard but important problem in natural language processing that has numerous applications. One way to address this task is by finding a paraphrase that can replace the metaphorically used word in a given context. This approach has been previously implemented only within supervised frameworks, relying on manually constructed lexical resources, such as WordNet. In contrast, we present a fully unsupervised metaphor interpretation method that extracts literal paraphrases for metaphorical expressions from the Web. It achieves a precision of , which is high for an unsupervised paraphrasing approach. Moreover, the method significantly outperforms both the baseline and the selectional preference-based method of Shutova employed in an unsupervised setting.
FluTE, a Publicly Available Stochastic Influenza Epidemic Simulation Model

Mathematical and computer models of epidemics have contributed to our understanding of the spread of infectious disease and the measures needed to contain or mitigate them. To help prepare for future influenza seasonal epidemics or pandemics, we developed a new stochastic model of the spread of influenza across a large population. Individuals in this model have realistic social contact networks, and transmission and infections are based on the current state of knowledge of the natural history of influenza. The model has been calibrated so that outcomes are consistent with the 1957/1958 Asian A(H2N2) and 2009 pandemic A(H1N1) influenza viruses. We present examples of how this model can be used to study the dynamics of influenza epidemics in the United States and simulate how to mitigate or delay them using pharmaceutical interventions and social distancing measures. Computer simulation models play an essential role in informing public policy and evaluating pandemic preparedness plans. We have made the source code of this model publicly available to encourage its use and further development.