Miracle-dz/UniFAR-FTUs huggingface dataset:
Practice what you preach? An exploratory multilevel study on rheumatoid arthritis guideline adherence by rheumatologists

Objectives To assess variation in and determinants of rheumatologist guideline adherence in patients with rheumatoid arthritis (RA), in daily practice. Methods In this retrospective observational study, guideline adherence in the first year of treatment was assessed for 7 predefined parameters on diagnostics, treatment and follow-up in all adult patients with RA with a first outpatient clinic visit at the study centre, from September 2009 to March 2011. Variation in guideline adherence was assessed on parameter and rheumatologist level. Determinants for guideline adherence were assessed in patients (demographic characteristics, rheumatoid factor (RF) and/or anti-cyclic citrullinated peptide antibody (aCCP) positivity, erythrocyte sedimentation rate, erosive disease, comorbidity and the number of available disease modifying anti-rheumatic drug (DMARD) treatment options) and rheumatologists (demographic and practice characteristics, guideline knowledge and agreement, outcome expectancy, cognitive bias, thinking style, numeracy and personality). Results A total of 994 visits in 137 patients with RA were reviewed. Variation in guideline adherence among parameters was present (adherence between 21% and 72%), with referral to the physician assistant as lowest scoring and referral to a specialised nurse as highest scoring parameter. Variation in guideline adherence among rheumatologists was also present (adherence between 22% and 100%). Patient sex, the number of DMARD options, presence of erosions, comorbidity, RF/aCCP positivity, type of patient and the rheumatologists' scientific education status were associated with adherence to 1 or more guideline parameters. Conclusions Guideline adherence varied considerably among the guideline parameters and rheumatologists, showing that there is room for improvement. Guideline adherence in our sample was related to several patient and rheumatologist determinants.
Physical topology design for survivable routing of logical rings in WDM-based networks

In a WDM-based network, a single physical link failure may correspond to multiple logical link failures. As a result, 2-connected logical topologies, such as rings routed on a WDM physical topology, may become disconnected after a single physical link failure. We consider the design of physical topologies that ensure logical rings can be embedded in a survivable manner. First, we develop necessary conditions on the physical topology to be able to embed all logical rings in a survivable manner. We then use these conditions to provide lower bounds on the number of physical links that an TV-node physical topology must have in order to support all logical rings for even sizes K. For example, we show that when K /spl ges/ 4 the physical topology must have at least 4N/3 links, and that when K /spl ges/ 6 the physical topology must have at least 3N/2 links, and when K /spl ges/ 8 the physical topology must have at least 1.6N links. Furthermore, we show that for K /spl ges/ N - 2 the physical topology must have at least 2N - 4 links. Finally, we design a physical topology that meets the above bound for K = N - 2. We then modify this physical topology to embed rings of size K = N - 1 and K = N.
Preparation and Liner Compression of Plasma From an Ultrahigh Speed Flow

Preparation of the target plasma represents a critical issue in liner compression techniques to achieve fusion conditions. We consider the use of an ultrahigh speed plasma flow from a special coaxial-gun arrangement known as the plasma flow switch. Experiments have demonstrated that this arrangement can provide plasma flows with speeds in excess of 2000 km/s. Stagnation of such a plasma flow results in fully stripped aluminum plasma with electron temperatures of 30 keV. Substitution of deuterium or a deuterium-tritium mixture could provide target plasma at kilovolt temperatures within an imploding liner. Such temperatures suggest that, even if substantial heat loss occurred during liner compression, fusion-level temperatures would be possible. The concatenation of events to generate the ultrahigh speed flow, to direct it into the implosion chamber, and to arrange liner dynamics for effective compression demands numerical simulation, which is based on initial analytical estimates. Both types of calculation for exploring this concept are discussed.
Classical and quantum dynamics of confined test particles in brane gravity

A model is constructed for the confinement of test particles moving on a brane. Within the classical framework of this theory, confining a test particle to the brane eliminates the effects of extra dimensions, rendering them undetectable. However, in the quantized version of the theory, the effects of the gauge fields and extrinsic curvature are pronounced and this might provide a hint for detecting them. As a consequence of confinement, the mass of the test particle is shown to be quantized. The condition of stability against small perturbations along extra dimensions is also studied and its relation to dark matter is discussed.
Ecological context of savanna chimpanzee (Pan troglodytes verus) termite fishing at Fongoli, Senegal

Chimpanzees (Pan troglodytes verus) at Fongoli, Senegal, consume termites year‐round. Understanding the ecological context behind this behavior is especially important in light of the environmental conditions at Fongoli. This mosaic savanna habitat is one of the hottest and driest sites where chimpanzees have been studied. Two genera and four species of termites were found in association with tools used by chimpanzees in a sample of 124 termite mounds that were monitored. The chimpanzees of Fongoli termite fish predominantly in woodland and forest habitat types, and, although woodland accounts for the majority of the chimpanzees' home range, forest habitat types comprise only about 4% of their range. Thus, habitat type has an influence on the Fongoli chimpanzees' termite fishing. Termite consumption to the degree seen at Fongoli may have particular significance for hominid evolution, given the expansion of Pliocene hominids into increasingly open, hot, and dry habitats. Am. J. Primatol. 70:605–612, 2008. © 2008 Wiley‐Liss, Inc.
Imaging of pancreatic transplantation using portal venous and enteric exocrine drainage.

OBJECTIVE We describe the normal radiologic appearance of pancreatic allografts transplanted using portal venous drainage with enteric drainage of exocrine secretions. We also describe the radiologic appearance of postsurgical complications. MATERIALS AND METHODS Of 56 patients who received pancreatic transplants using the portal-enteric technique, 24 patients subsequently required radiologic examination for suspected complications involving the pancreatic allograft. Twenty-three patients underwent CT scanning; a total of 58 CT scans were obtained. Nine abdominal sonograms were obtained in five patients, and one patient underwent angiography. The radiologic appearance of each transplant and the complications were analyzed retrospectively and correlated with the clinical course. RESULTS The most common indications for CT scanning were fever, elevated levels of serum amylase, and evaluation or follow-up of fluid collections. CT showed the normal and abnormal anatomy of the allograft. Abnormal findings seen in the 58 CT scans included fat stranding (30 scans), ascites (21 scans), peripancreatic fluid or pseudocyst (13 scans), and heterogeneity of the allograft (five scans). One patient had pancreatic infarction with pneumatosis and pneumoperitoneum. The allograft was obscured by bowel gas on three sonograms. Four sonograms showed no abnormalities (one Doppler sonogram showed the arterial supply and venous drainage), and one sonogram showed a pseudocyst. In the one patient who underwent angiography, imaging showed no arterial blood flow to the transplant. CONCLUSION Pancreatic transplantation with portal venous drainage and enteric drainage of exocrine secretions and the complications of such transplantation were revealed with CT, sonography, and angiography. Knowledge of normal anatomic configuration will allow proper interpretation of normal and abnormal findings.
Cortical Factor Feedback Model for Cellular Locomotion and Cytofission

Eukaryotic cells can move spontaneously without being guided by external cues. For such spontaneous movements, a variety of different modes have been observed, including the amoeboid-like locomotion with protrusion of multiple pseudopods, the keratocyte-like locomotion with a widely spread lamellipodium, cell division with two daughter cells crawling in opposite directions, and fragmentations of a cell to multiple pieces. Mutagenesis studies have revealed that cells exhibit these modes depending on which genes are deficient, suggesting that seemingly different modes are the manifestation of a common mechanism to regulate cell motion. In this paper, we propose a hypothesis that the positive feedback mechanism working through the inhomogeneous distribution of regulatory proteins underlies this variety of cell locomotion and cytofission. In this hypothesis, a set of regulatory proteins, which we call cortical factors, suppress actin polymerization. These suppressing factors are diluted at the extending front and accumulated at the retracting rear of cell, which establishes a cellular polarity and enhances the cell motility, leading to the further accumulation of cortical factors at the rear. Stochastic simulation of cell movement shows that the positive feedback mechanism of cortical factors stabilizes or destabilizes modes of movement and determines the cell migration pattern. The model predicts that the pattern is selected by changing the rate of formation of the actin-filament network or the threshold to initiate the network formation.
Perinatal exposure of mice to TCDD decreases allergic sensitisation through inhibition of IL-4 production rather than T regulatory cell-mediated suppression.

OBJECTIVE The 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) is a widespread, man-made, persistent organic pollutant with high immunotoxic potentials. It suppresses cell-mediated and humoral immune responses through mechanisms dependent on aryl-hydrocarbon receptor expression and immunosuppressive activity of the cells. Most sensitive to TCDD are organisms during fetal and infant life, mostly due to the developmental stage of many biological systems of the host, including immune system. Recent data show that T regulatory cells that have the potential to suppress immune reactions and which develop after TCDD exposure are also responsible for protection from allergy development. Our goal was to investigate if perinatal exposure to TCDD can affect allergic sensitisation and if T reg cells participate in this phenomenon. MATERIALS AND METHODS Mice, Balb/c, were perinatally exposed to TCDD or to the carrier. Six weeks old control or exposed mice were sensitised with ovalbumin. Spleen cells of the animals were used to assess the content of T reg cells by means of flow cytometry. Levels of cytokines were assessed by ELISA technique in supernatants of the cells stimulated with anti-CD3 antibody. As a measure of sensitisation, total IgE and anti-OVA IgE were measured in serum of mice by ELISA method. To assess the function of T reg cells isolated from OVA-sensitised control or TCDD exposed animals we performed transfer studies. RESULTS Here we show that perinatal exposure to TCDD decreases allergic sensitisation and that this process is related to inhibition of IL-4 synthesis rather than suppression mediated by T regulatory cells. CONCLUSION We hypothesise that dioxin exposure can be an important environmental modulator of immunological responses that participate in allergic reactions.
Enhanced in vivo fitness of carbapenem-resistant oprD mutants of Pseudomonas aeruginosa revealed through high-throughput sequencing

Significance It is thought antibiotic resistance carries a fitness cost and reduces microbial virulence. Using high-throughput sequencing analysis of a transposon insertion bank in Pseudomonas aeruginosa, we found enhanced fitness for in vivo mucosal colonization and systemic spread of strains with transposon insertions in the oprD gene. This conferred resistance to carbapenem antibiotics as well as enhanced resistance to killing at acidic pH and by normal human serum along with increased cytotoxicity against murine macrophages. RNA-sequencing analysis revealed that oprD deficiency led to transcriptional changes in numerous genes that may contribute to the enhanced in vivo fitness observed. Thus, if carbapenem resistance develops during antibiotic therapy of P. aeruginosa infections, it may lead to enhanced fitness and virulence in infected hosts. An important question regarding the biologic implications of antibiotic-resistant microbes is how resistance impacts the organism’s overall fitness and virulence. Currently it is generally thought that antibiotic resistance carries a fitness cost and reduces virulence. For the human pathogen Pseudomonas aeruginosa, treatment with carbapenem antibiotics is a mainstay of therapy that can lead to the emergence of resistance, often through the loss of the carbapenem entry channel OprD. Transposon insertion-site sequencing was used to analyze the fitness of 300,000 mutants of P. aeruginosa strain PA14 in a mouse model for gut colonization and systemic dissemination after induction of neutropenia. Transposon insertions in the oprD gene led not only to carbapenem resistance but also to a dramatic increase in mucosal colonization and dissemination to the spleen. These findings were confirmed in vivo with different oprD mutants of PA14 as well as with related pairs of carbapenem-susceptible and -resistant clinical isolates. Compared with OprD+ strains, those lacking OprD were more resistant to killing by acidic pH or normal human serum and had increased cytotoxicity against murine macrophages. RNA-sequencing analysis revealed that an oprD mutant showed dramatic changes in the transcription of genes that may contribute to the various phenotypic changes observed. The association between carbapenem resistance and enhanced survival of P. aeruginosa in infected murine hosts suggests that either drug resistance or host colonization can cause the emergence of more pathogenic, drug-resistant P. aeruginosa clones in a single genetic event.
Fire Regime and Vegetation Response in the Okavango Delta, Botswana

The scope of the study was to analyse the fire history and the effects of fire on vegetation for the floodplains of the southern Okavango Delta in Botswana. The fire history of the study area was reconstructed by using a series of 98 satellite images from 1989 until 2003 and habitat types based on the flood frequency were separated. Annual extent of fires, main fire season, maximum fire frequency and mean fire frequency related to flood frequency were calculated. The temporal occurrence of fire could be associated to rainfall and flood-events and the interaction of the spatial distribution of fire on different habitat types was discussed. Vegetation response to fire was studied by analysing the relation of vegetation structure and species composition to fire frequency and time-since-fire, as well as by comparing burned and unburned sites. Woody species were shown to be generally negatively affected by frequent fires. Reduced cover values after periods with high fire frequency were also observed for single wetland species. Post-fire succession was shown to be not only driven by the life-history of the occurring species, but also by competition and niche differentiation.
Pregnancy rates for embryos transferred from early postpartum beef cows into recipients with normal estrous cycles.

Survival rate of embryos from first ovulations of postpartum cows with SHORT (6.9 +/- 0.3 days; n = 35) or NORMAL (17.1 +/- 0.3 days; n = 42) luteal phases and quality of the embryos on Day 6 were compared. At 19 to 23 days postpartum, cows were allotted to receive a norgestomet implant for 9 days (normal luteal phase) or to serve as untreated controls (short luteal phase). Calves were weaned 7 days after initiation of treatment to induce behavioral estrus in cows for mating. In 25 cows, growth of the ovulatory follicle was monitored by ultrasonography. On Day 6 after estrus, embryos were recovered nonsurgically, and live embryos were transferred into recipient cows exhibiting normal estrous cycles. The medium used to flush the embryos from the uterus of each donor cow was assayed for prostaglandin F2 alpha (PGF2 alpha). Days from calf removal to estrus and size of ovulatory follicles at ovulation (4.1 +/- 0.3 days and 16.7 +/- 0.7 mm, respectively) did not differ between NORMAL and SHORT cows. Interval from detection of the ovulatory follicle to ovulation was longer in NORMAL (10 +/- 0.7 days) than in SHORT cows (8 +/- 0.6 days; p < 0.05). Rates of recovery of an embryo or ovum (64%), rates of fertilization (65%), and quality or stage of development of Day 6 embryos did not differ between SHORT and NORMAL cows. Overall pregnancy rate from recovered oocytes was 13% for SHORT and 32% for NORMAL cows (p = 0.06); survival of fertilized oocytes was 23% for SHORT and 47% for NORMAL cows (p = 0.08). (ABSTRACT TRUNCATED AT 250 WORDS)
Perfusion-sensitive MR imaging of gliomas: comparison between gradient-echo and spin-echo echo-planar imaging techniques.

BACKGROUND AND PURPOSE The different sensitivities to vessel size of gradient-echo echo-planar imaging (GE-EPI) and spin-echo EPI (SE-EPI) might indicate the relative cerebral blood volumes (rCBVs) of different tumor sizes. The techniques of GE-EPI and SE-EPI were compared for detecting low- versus high-grade gliomas. METHODS Six patients with low-grade gliomas and 19 patients with high-grade gliomas underwent two perfusion-sensitive MR procedures, one produced by a GE- and the other by an SE-EPI technique. Maximum rCBV ratios normalized with rCBV of contralateral white matter were calculated for evaluation. P <. 05 was considered statistically significant. RESULTS Maximum rCBV ratios of high-grade gliomas obtained with the GE-EPI technique (mean, 5.0 +/- 2.9) were significantly higher than those obtained with the SE-EPI technique (mean, 2.9 +/- 2.3) (P =.02). Maximum rCBV ratios of low-grade gliomas obtained with the GE-EPI technique (mean, 1.2 +/- 0.7) were almost equal to those obtained with the SE-EPI technique (mean, 1.2 +/- 0.6), and there was no significant difference (P =.66). The difference in the maximum rCBV ratios between the low- and high-grade gliomas reached significance when obtained with the GE-EPI technique (P =.01). CONCLUSION The GE-EPI technique seems more useful for detecting low- versus high-grade gliomas than the SE-EPI technique.
The Use of Spatial Cognitive Abilities in Geographical Information Systems: The Map Overlay Operation

Spatial cognitive abilities play an important role in the use of GIS, although they have yet to be examined in a controlled experimental setting. This study aimed to develop an experimental design which measures spatial cognitive abilities in the use of GIS, specifically the map overlay operation. Subjects (n = 134) received three map overlay tests in which they were given two of the following: input map layers, logical operator(s), or output map layer(s). Subjects were required to select the correct logical operator for Test 1, to select the correct output map layer for Test 2, and to select the correct input map layers for Test 3. Each test contained a total of 16 questions, based on a 4 (‘and’, ‘or’, ‘xor’, ‘not’ operators) × 2 (one or two polygons per map layer) × 2 (three or five polygon edges) factorial design. Results indicated a significant main effect of logical operators and number of polygons on performance; however, there was no effect of the number of polygon edges on performance. Significant two‐way interactions revealed an effect of the number of polygon edges and the number of polygons using various logical operators on performance. In addition, performance was not significantly different between males and females or between GIS users and non‐users. Overall, results show that map overlays in which a visual correspondence can be made between the same polygons in the input and output map layers are cognitively less demanding than map overlays in which the shape of the polygons have been radically transformed between the input and output map layers. This study helps further develop our understanding of the spatial cognitive abilities which are required in the use of GIS, and whether certain sub‐populations differ in these cognitive abilities. These results may contribute to more effective and efficient GIS teaching and interface design by taking into account individual spatial cognitive abilities.
Domain organization of the Escherichia coli RNA polymerase sigma 70 subunit.

We used limited trypsin digestion to determine the domain organization of the Escherichia coli RNA polymerase sigma 70 subunit. Trypsin-resistant fragments containing sigma 70 conserved region 2 (sigma 70(2)), and carboxy-terminal fragments containing conserved regions 3 and 4 (sigma 70(3-4)) were identified by a combination of amino acid sequencing and mass spectrometry. The domains were studied for partial biochemical functions of sigma 70.sigma 70(2) bound core RNA polymerase competitively with intact sigma 70. In contrast to sigma 70(2) alone, the RNA polymerase holoenzyme formed with sigma 70(2) specifically bound a single-stranded DNA oligomer with a sequence corresponding to the non-template strand of the -10 promoter element (the Pribnow box). Sigma 70(2) also forms crystals that are suitable for X-ray analysis. Sigma 70(3-4) bound the T4 AsiA protein with high affinity. The epitope for T4 AsiA on sigma 70 was further localized to within sigma 70[551-608], comprising sigma conserved region 4.2.