Miracle-dz/UniFAR-FTUs huggingface dataset:
DNA microarray technology and its applications in dermatology

Abstract: The use of DNA microarray technology in biomedical research has dramatically increased during the past years. In the present report, we provide an overview on the basic DNA microarray technology and biostatistical methods for gene expression analysis. A focus is then put on its applications in dermatological research. In recent years, a series of gene expression studies have been performed for various dermatological diseases, such as malignant melanoma, psoriasis and lupus erythematosus. These analyses have identified interesting target genes as well as putative disease susceptibility loci. However, further functional studies will be needed for a more complete understanding of the pathogenesis of these diseases. This may be performed by means of the recently developed RNA interference technology. Besides its role in large‐scale gene expression studies, DNA microarray technology has proved to be a valuable tool for genomic screens of genetic alterations, e.g. single nucleotide polymorphisms. These play a role in tumour development and progression, and also function as genetic markers for disease susceptibility. Taken together, DNA microarray technology opens enormous perspectives for dermatologists. It may help us understand the complex pathogenesis of a wide variety of dermatologic diseases and identify their genetic background.
Ramsey-like cardinals II

Abstract This paper continues the study of the Ramsey-like large cardinals introduced in [5] and [14]. Ramsey-like cardinals are defined by generalizing the characterization of Ramsey cardinals via the existence of elementary embeddings. Ultrafilters derived from such embeddings are fully iterable and so it is natural to ask about large cardinal notions asserting the existence of ultrafilters allowing only α-many iterations for some countable ordinal α. Here we study such α-iterable cardinals. We show that the α-iterable cardinals form a strict hierarchy for α ≤ ω1, that they are downward absolute to L for , and that the consistency strength of Schindler's remarkable cardinals is strictly between 1-iterable and 2-iterable cardinals. We show that the strongly Ramsey and super Ramsey cardinals from [5] are downward absolute to the core model K. Finally, we use a forcing argument from a strongly Ramsey cardinal to separate the notions of Ramsey and virtually Ramsey cardinals. These were introduced in [14] as an upper bound on the consistency strength of the Intermediate Chang's Conjecture.
Maternal Sensitivity Buffers the Association between SLC6A4 Methylation and Socio-Emotional Stress Response in 3-Month-Old Full Term, but not very Preterm Infants

Background Very preterm (VPT) infants are hospitalized in Neonatal Intensive Care Units (NICUs) and are exposed to life-saving procedures eliciting pain-related stress. Recent research documented that pain-related stress might result in birth-to-discharge increased methylation of serotonin transporter gene (SLC6A4) in VPT infants, leading to poorer stress regulation at 3 months of age in VPT infants compared to their full-term (FT) counterparts. Maternal sensitivity is thought to support infants’ stress response, but its role in moderating the effects of altered SLC6A4 methylation is unknown. Main aim To assess the role of maternal sensitivity in moderating the association between altered SLC6A4 methylation and stress response in 3-month-old VPT and FT infants. Methods 53 infants (27 VPTs, 26 FTs) and their mothers were enrolled. SLC6A4 methylation was obtained from peripheral blood samples at NICU discharge for VPT infants and from cord blood at birth for FT infants. At 3 months (age corrected for prematurity), both groups participated to the face-to-face still-face (FFSF) paradigm to measure both infants’ stress response (i.e., negative emotionality) and maternal sensitivity. Results Maternal sensitivity did not significantly differ between VPT and FT infants’ mothers. In VPT infants, higher SLC6A4 methylation at hospital discharge associates with higher negative emotionality during the FFSF. In FT infants, SLC6A4 methylation and maternal sensitivity significantly interacted to predict stress response: a positive significant association between SLC6A4 methylation and negative emotionality emerged only in FT infants of less-sensitive mothers. Discussion Although no differences emerged in caregiving behavior in the two groups of mothers, maternal sensitivity was effective in moderating the effects of SLC6A4 methylation in FT infants, but not in VPT infants at 3 months. Speculatively, the buffering effect of maternal sensitivity observed in FT infants was disrupted by the altered early mother–infant contact due to NICU stay of the VPT group. These findings indirectly support that the effects of maternal sensitivity on infants’ socio-emotional development might be time dependent, and that mother–infant interventions in the NICU need to be provided precociously within a narrow sensitive period after VPT birth.
Nanofibers - A Simple and Practical Way Forward for Air Pollution Abatement

Nanofibers have proved to be highly efficient due to their enhanced adsorption capacity, because of high pores and very high surfacearea. Pure and Sulphur doped TiO2 nanofibers were synthesized using electrospinning method in this study to evaluate their destruction potential for H2S gas, using photocatalysis. Experiments were carried out under laboratory conditions using capillary glass tube reactor under UV light. 97% destruction was achieved using pure TiO2 nanofibers while the destruction percentage decreased when S-doped TiO2 nanofibers were replaced with the pure ones. Characterization of the nanofibers before and after running the experiments was carried out using XRD, SEM and EDX techniques. The destruction of H2S gas was measured in ppm using BioGas Analyser fitted with GPA1.8 Gas pod for H2S detection.
Effects of Cattle Feeding Regimen and Soil Management Type on the Fate of Escherichia coli O157:H7 and Salmonella enterica Serovar Typhimurium in Manure, Manure-Amended Soil, and Lettuce

ABSTRACT Survival of the green fluorescent protein-transformed human pathogens Escherichia coli O157:H7 and Salmonella enterica serovar Typhimurium was studied in a laboratory-simulated lettuce production chain. Dairy cows were fed three different roughage types: high-digestible grass silage plus maize silage (6:4), low-digestible grass silage, and straw. Each was adjusted with supplemental concentrates to high and low crude protein levels. The pathogens were added to manure, which was subsequently mixed (after 56 and 28 days for E. coli O157:H7 and Salmonella serovar Typhimurium, respectively) with two pairs of organically and conventionally managed loamy and sandy soil. After another 14 days, iceberg lettuce seedlings were planted and then checked for pathogens after 21 days of growth. Survival data were fitted to a logistic decline function (exponential for E. coli O157:H7 in soil). Roughage type significantly influenced the rate of decline of E. coli O157:H7 in manure, with the fastest decline in manure from the pure straw diet and the slowest in manure from the diet of grass silage plus maize silage. Roughage type showed no effect on the rate of decline of Salmonella serovar Typhimurium, although decline was significantly faster in the manure derived from straw than in the manure from the diet of grass silage plus maize silage. The pH and fiber content of the manure were significant explanatory factors and were positively correlated with the rate of decline. With E. coli O157:H7 there was a trend of faster decline in organic than in conventional soils. No pathogens were detected in the edible lettuce parts. The results indicate that cattle diet and soil management are important factors with respect to the survival of human pathogens in the environment.
Towards in-place geometric algorithms and data structures

For many geometric problems, there are efficient algorithms that surprisingly use very little extra space other than the given array holding the input. For many geometric query problems, there are efficient data structures that need no extra space at all other than an array holding a permutation of the input. In this paper, we obtain the first such space-economical solutions for a number of fundamental problems, including three-dimensional convex hulls, two-dimensional Delaunay triangulations, fixed-dimensional range queries, and fixed-dimensional nearest neighbor queries.
Mullerian inhibiting substance levels at the time of HCG administration in IVF cycles predict both ovarian reserve and embryo morphology.

BACKGROUND Pre-antral and early antral follicles secrete Müllerian inhibiting substance (MIS), suggesting that MIS may directly reflect ovarian reserve. Since little is known about how ovarian reserve affects oocyte quality, we attempt here to assess the predictive value of MIS on embryo morphology and IVF outcome. To do so, we measured MIS at the time of HCG administration 36 h prior to oocyte retrieval. METHODS A total of 257 patients undergoing IVF were prospectively recruited. We measured MIS levels by enzyme-linked immunosorbent assay at the time of HCG, and compared the MIS values to day 3 FSH levels in the prediction of embryo morphology and IVF outcome. RESULTS The distribution of MIS levels was skewed, with a median of 2.7 ng/ml (range 0 to 28.5 ng/ml). MIS values at the time of HCG administration inversely correlated with basal FSH levels (P = 0.002), and both correlated significantly with patient age, number of mature follicles, number of oocytes retrieved and serum estradiol levels. MIS levels correlated significantly with a greater number of 6-cell embryos and better embryo morphology score, while basal FSH levels did not correlate with these outcome variables. MIS levels > or =2.7 ng/ml portended improved oocyte quality as reflected in a higher implantation rate (P = 0.001) and a trend toward a better clinical pregnancy rate (P = 0.084). CONCLUSIONS MIS levels seem to predict not only ovarian reserve, but also embryo morphology. Measurement of MIS at the time of HCG administration may, therefore, in the future improve management of patients undergoing treatments with assisted reproductive technology.
Reactivation of Kaposi's sarcoma-associated herpesvirus infection from latency by expression of the ORF 50 transactivator, a homolog of the EBV R protein.

Kaposi's sarcoma (KS)-associated herpesvirus (KSHV), or human herpesvirus 8, is a lymphotropic virus strongly linked to several AIDS-related neoplasms. The primary reservoir of infection consists of latently infected B lymphocytes and possibly other mononuclear cells. Viral reactivation from latency and spread from this lymphoid reservoir is presumably required for development of nonlymphoid tumors like KS. Here we show that deregulated expression of a single viral gene, ORF 50, which encodes a transactivator able to selectively upregulate delayed-early viral genes, suffices to disrupt latency and induce the lytic gene cascade in latently infected B cells. The identification of this gene opens the way to studies of the physiologic mechanisms controlling reactvation of KSHV from latency.
Measurement of falling film thickness around a horizontal tube using laser-induced fluorescence technique

An optical method for the non-intrusive measurement of falling film thickness on the perimeter of the horizontal tube is described. This non-intrusive measurement method is based on the visualization of the falling film flowing around the horizontal tube and uses the laser induced fluorescence and image processing techniques. The falling film thickness around a Turbo-CII horizontal tube and a plain horizontal tube was measured when water flushed the tube vertically with a stable velocity. The results for the Turbo-CII tube are compared with those for the plain tube, and show that the film thickness around the Turbo-CII tube varies with the same trend as that around the plain tube, and the minimal values of the film thickness tend to locate at different angular position of 95? -120? under different conditions. The film thickness around the enhanced tube changes within a smaller range with time than that around the plain tube. The corresponding effects on flow uniformity have also been discussed.
BGP routing stability of popular destinations

The Border Gateway Protocol (BGP) plays a crucial role in the delivery of traffic in the Internet. Fluctuations in BGP routes cause degradation in user performance, increased processing load on routers, and changes in the distribution of traffic load over the network. Although earlier studies have raised concern that BGP routes change quite often, previous work has not considered whether these routing fluctuations affect a significant portion of the traffic. This paper shows that the small number of popular destinations responsible for the bulk of Internet traffic have remarkably stable BGP routes. The vast majority of BGP instability stems from a small number of unpopular destinations. We draw these conclusions from a joint analysis of BGP update messages and flow-level traffic measurements from AT&T's IP backbone. In addition, we analyze the routing stability of destination prefixes corresponding to the NetRating's list of popular Web sites using the update messages collected by the RouteViews and RIPE-NCC servers. Our results suggest that operators can engineer their networks under the assumption that the BGP advertisements associated with most of the traffic are reasonably stable.
Automated geometric calibration and reconstruction in circular cone-beam tomography

We have developed a method of automatic geometric calibration and reconstruction for cone-beam tomography with circular orbits. The reconstruction uses the Feldkamp algorithm with small modifications to accommodate geometric system imperfections. Complete analytic calibration is performed to directly estimate the 9 geometric parameters for each scanner position, without iterative schemes or non-linear optimization techniques. All angular positions are calibrated independently using a common reference frame in the filed-of-view, defined by the calibration phantom. Our simulation studies used a 256 × 256 sq-mm detector with 512 × 512 pixels, an orbit radius of 300 mm and detector orbit radius of 150 mm. The calibration object consisted of six balls all of radius 3 mm and varying densities. All 180 projections were processed automatically, and from the estimated parameters, the best circular orbit was fit to obtain suitable reconstruction parameters. The calibration parameters consistently estimated the cone-vertex position to within 0.5 mm or better. The detector positions were found to within 1 mm and the detector normal vectors were obtained to about 0.1 degrees. The in-plane rotation of the detector was found to within 0.03 degrees. Reconstructions using the automated calibration approach produced errors far smaller than the usual circular cone-beam artefacts.
Epitheliocystis Distribution and Characterization in Brown Trout (Salmo trutta) from the Headwaters of Two Major European Rivers, the Rhine and Rhone

We present a first description of the distribution and characterization of epitheliocystis infections in brown trout (Salmo trutta) from the upper catchments of two major European rivers, the Rhine and the Rhone. Overall, epitheliocystis was widely distributed, with 70% of the Rhine and 67% of the Rhone sites harboring epitheliocystis positive brown trout. The epitheliocystis agents Candidatus Piscichlamydia salmonis and Candidatus Clavichlamydia salmonicola could be identified in both catchments, although their relative proportions differed from site to site. Additionally, in two rivers in the Rhine catchment, a new species of Candidatus Similichlamydia was identified. Based on the histology, infection intensity, and severity of pathological changes were significantly more pronounced in mixed chlamydial infections, whereas single infections showed only low numbers of cysts and mild pathology. Infections could be found over a wide range of temperatures, which showed no correlation to infection prevalence or intensity.
Neuroprotection is unlikely to be effective in humans using current trial designs.

What we need to carry out in the laboratory and at the bedside are experiments. If our experiments have been positive in the laboratory but negative at the bedside, it is logical to me that at the bedside we need to better emulate the conditions under which the laboratory experiment turns out positive; in other words, we need to do the “rat experiment” in man. Those clinical studies that have adhered to this dictum1–3 have been the only positive clinical trials to date. Figure 1 depicts the general design of the rat transient middle cerebral artery occlusion model that is most often used to test neuroprotective drugs. It also depicts the general design of the sort of clinical trial that I postulate must be done to get positive results in stroke patients. There are 4 main areas where clinical trials have departed most from this model. In rats, we take pains to produce lesions of standardized severity in order to better detect a treatment effect; we start by giving the drug soon after the onset of stroke and then determine how much this time to treatment (TTT) can be lengthened; we use models of temporary rather than permanent arterial occlusion; and we increase doses of drug until we see a therapeutic effect. Figure 1. Proposed algorithm for studying neuroprotective drugs in laboratory animals and human stroke patients. These factors must all be addressed in the design of future clinical trials, and they are listed in Figure 2 along with …
Learning and retention of movement sequences in Parkinson's disease

The purpose of this study was to examine motor learning and retention given extensive practice in two fundamentally different movement sequences. One sequence was a memory‐driven task (performing a series of whole body positions from memory) and the other a context‐driven task (buttoning). Practice took place over 3 weeks, with performance measured weekly; retention was measured weekly for 3 weeks after practice. There were 7 people with Parkinson's disease (PD) and 7 age‐matched neurologically healthy people who participated in this study. Both groups improved performance on both tasks with practice, with the majority of the change for the PD group occurring between 1 and 2 weeks of practice. Although those with PD did not necessarily perform as well as age‐matched controls, they learned both sequences in a manner similar to age‐matched controls, and exhibited retention across the 3‐week retention interval. If people with PD are given sufficient practice they can learn and retain both memory‐based and context‐driven movement sequences as well as age‐matched controls. The results provide support for maintaining physical activity and for intervention through movement therapy. © 2006 Movement Disorder Society
Constitutive Modelling of Creep in a Long Fiber Random Glass Mat Thermoplastic Composite

Random Glass Mat Thermoplastic (GMT) composites are increasingly being used by the automotive industry for manufacturing semi-structural components. The polypropylene based materials are characterized by superior strength, impact resistance and toughness. Since polymers and their composites are inherently viscoelastic, i.e. their mechanical properties are dependent on time and temperature. They creep under constant mechanical loading and the creep rate is accelerated at elevated temperatures. In typical automotive operating conditions, the temperature of the polymer composite part can reach as high as 80°C. Currently, the only known report in the open literature on the creep response of commercially available GMT materials offers data for up to 24 MPa at room temperature. In order to design and use these materials confidently, it is necessary to quantify the creep behaviour of GMT for the range of stresses and temperatures expected in service. The primary objective of this proposed research is to characterize and model the creep behaviour of the GMT composites under thermo-mechanical loads. In addition, tensile testing has been performed to study the variability in mechanical properties. The thermophysical properties of the polypropylene matrix including crystallinity level, transitions and the variation of the stiffness with temperature have also been determined. In this work, the creep of a long fibre GMT composite has been investigated for a relatively wide range of stresses from 5 to 80 MPa and temperatures from 25 to 90°C. The higher limit for stress is approximately 90% of the nominal tensile strength of the material. A Design of Experiments (ANOVA) statistical method was applied to determine the effects of stress and temperature in the random mat material which is known for wild experimental scatter. Two sets of creep tests were conducted. First, preliminary short-term creep tests consisting of 30 minutes creep followed by recovery were carried out over a wide range of stresses and temperatures. These tests were carried out to determine the linear viscoelastic region of the material. From these tests, the material was found to be linear viscoelastic up-to 20 MPa at room temperature and considerable non-linearities were
The role of synovitis in osteoarthritis

Osteoarthritis (OA) is the most common form of arthritis worldwide yet there is still a lack of effective treatments for this condition. Increasingly, attention has turned to the role of the synovium in OA as it is now recognized, in part from the use of modern imaging techniques, that synovitis is both common and associated with pain. This offers a target for treatment, for both symptom and potential structure modification. In this review we discuss the evidence for histological and imaging-detected synovitis and the current role of antisynovial therapies in OA.
Strategic voting and the logic of knowledge

We propose a general framework for strategic voting when a voter may lack knowledge about other votes or about other voters' knowledge about her own vote. In this setting we define notions of manipulation and equilibrium. We also model action changing knowledge about votes, such as a voter revealing its preference or as a central authority performing a voting poll. Some forms of manipulation are preserved under such updates and others not. Another form of knowledge dynamics is the effect of a voter declaring its vote. We envisage Stackelberg games for uncertain profiles. The purpose of this investigation is to provide the epistemic background for the analysis and design of voting rules that incorporate uncertainty.