Miracle-dz/UniFAR-FTUs huggingface dataset:
Regulation of Porcine Endogenous Retrovirus Release by Porcine and Human Tetherins

ABSTRACT The risk of transmission of porcine endogenous retrovirus (PERV) is one of the major safety issues in xenotransplantation. Human tetherin, recently described as an antiviral protein able to inhibit the release of enveloped viruses, and its porcine homologue were shown to inhibit PERV release from producer cells, establishing themselves as candidate molecules to suppress PERV production in porcine xenografts by animal engineering.
Microvascular blood flow dynamics associated with photodynamic therapy, pulsed dye laser irradiation and combined regimens

Previous in vitro studies demonstrated the potential utility of benzoporphyrin derivative monoacid ring A (BPD) photodynamic therapy (PDT) for vascular destruction. Moreover, the effects of PDT were enhanced when this intervention was followed immediately by pulsed dye laser (PDL) irradiation (PDT/PDL). We further evaluate vascular effects of PDT alone, PDL alone and PDT/PDL in an in vivo rodent dorsal skinfold model.
Design and optimization of large size and low overhead off-chip caches

Large off-chip L3 caches can significantly improve the performance of memory-intensive applications. However, conventional L3 SRAM caches are facing two issues as those applications require increasingly large caches. First, an SRAM cache has a limited size due to the low density and high cost of SRAM and, thus, cannot hold the working sets of many memory-intensive applications. Second, since the tag checking overhead of large caches is nontrivial, the existence of L3 caches increases the cache miss penalty and may even harm the performance of some memory-intensive applications. To address these two issues, we present a new memory hierarchy design that uses cached DRAM to construct a large size and low overhead off-chip cache. The high density DRAM portion in the cached DRAM can hold large working sets, while the small SRAM portion exploits the spatial locality appearing in L2 miss streams to reduce the access latency. The L3 tag array is placed off-chip with the data array, minimizing the area overhead on the processor for L3 cache, while a small tag cache is placed on-chip, effectively removing the off-chip tag access overhead. A prediction technique accurately predicts the hit/miss status of an access to the cached DRAM, further reducing the access latency. Conducting execution-driven simulations for a 2 GHz 4-way issue processor and with 11 memory-intensive programs from the SPEC 2000 benchmark, we show that a system with a cached DRAM of 64 MB DRAM and 128 KB on-chip SRAM cache as the off-chip cache outperforms the same system with an 8 MB SRAM L3 off-chip cache by up to 78 percent measured by the total execution time. The average speedup of the system with the cached-DRAM off-chip cache is 25 percent over the system with the L3 SRAM cache.
Explaining the US bond yield conundrum

We analyse if and to what extent fundamental macroeconomic factors, temporary influences or more structural factors have contributed to the low levels of US bond yields over the last few years. For that purpose, we start with a general model of interest rate determination. The empirical part consists of a cointegration analysis with an error-correction mechanism. We are able to establish a stable long-run relationship and find that the behaviour of bond yields, even during the last years, can be well explained by macroeconomic and structural factors. Alongside the more traditional determinants like core inflation, monetary policy and the business cycle, we also include foreign holdings of US Treasuries. The latter should capture the frequently mentioned structural effects on long-term interest rates. Finally, our bond yield equation outperforms a random walk model in different forecasting exercises.
Hyposensitization to poison ivy after working in a cashew nut shell oil processing factory

19 adults were patch tested to urushiol, the allergen in poison ivy/oak, to determine their sensitivity to this allergen after working in a cashew nut shell oil (CNSO) processing plant. The cashew nut tree and poison ivy/oak are in the same botanical family, Anacardiaceae, and they share similar chemicals which cause allergic contact dermatitis. 13 of the 19 workers had a preemployment history of poison ivy sensitivity, with 10 developing CNSO dermatitis. After working in this factory for several months, 9 of the 13 noticed a decreased sensitivity or no sensitivity to poison ivy/oak. When tested to urushiol extract, only 3 reacted positively, 2 minimally. These results imply that hyposensitization to poison ivy/oak occurred in these employees after development of hardening to cashew nut shell oil.
Cautious Inference in Collective Classification

Collective classification can significantly improve accuracy by exploiting relationships among instances. Although several collective inference procedures have been reported, they have not been thoroughly evaluated for their commonalities and differences. We introduce novel generalizations of three existing algorithms that allow such algorithmic and empirical comparisons. Our generalizations permit us to examine how cautiously or aggressively each algorithm exploits intermediate relational data, which can be noisy. We conjecture that cautious approaches that identify and preferentially exploit the more reliable intermediate data should outperform aggressive approaches. We explain why caution is useful and introduce three parameters to control the degree of caution. An empirical evaluation of collective classification algorithms, using two base classifiers on three data sets, supports our conjecture.
Matrix-M™ Adjuvant Induces Local Recruitment, Activation and Maturation of Central Immune Cells in Absence of Antigen

Saponin-based adjuvants are widely used to enhance humoral and cellular immune responses towards vaccine antigens, although it is not yet completely known how they mediate their stimulatory effects. The aim of this study was to elucidate the mechanism of action of adjuvant Matrix-M™ without antigen and Alum was used as reference adjuvant. Adjuvant Matrix-M™ is comprised of 40 nm nanoparticles composed of Quillaja saponins, cholesterol and phospholipid. BALB/c mice were subcutaneously injected once with, 3, 12 or 30 µg of Matrix-M™, resulting in recruitment of leukocytes to draining lymph nodes (dLNs) and spleen 48 h post treatment. Flow cytometry analysis identified CD11b+ Gr-1high granulocytes as the cell population increasing most in dLNs and spleen. Additionally, dendritic cells, F4/80int cells, T-, B- and NK-cells were recruited to dLNs and in spleen the number of F4/80int cells, and to some extent, B cells and dendritic cells, increased. Elevated levels of early activation marker CD69 were detected on T-, B- and NK-cells, CD11b+ Gr-1high cells, F4/80int cells and dendritic cells in dLNs. In spleen CD69 was mainly up-regulated on NK cells. B cells and dendritic cells in dLNs and spleen showed an increased expression of the co-stimulatory molecule CD86 and dendritic cells in dLNs expressed elevated levels of MHC class II. The high-dose (30 µg) of Matrix-M™ induced detectable serum levels of IL-6 and MIP-1β 4 h post administration, most likely representing spillover of locally produced cytokines. A lesser increase of IL-6 in serum after administration of 12 µg Matrix-M™ was also observed. In conclusion, early immunostimulatory properties were demonstrated by Matrix-M™ alone, as therapeutic doses resulted in a local transient immune response with recruitment and activation of central immune cells to dLNs. These effects may play a role in enhancing uptake and presentation of vaccine antigens to elicit a competent immune response.
Steroid receptor-mediated cytotoxicity of an antiestrogen and an antiprogestin in breast cancer cells.

The antiproliferative and cytotoxic effects of 4-hydroxytamoxifen, an antiestrogen with a high affinity for the estrogen receptor, and of 17 beta-hydroxy-11 beta-(4-methylaminophenyl)-17-(1-propynyl)estra-4,9-dien-3- one-6-7 (RU486), an antiprogestin with a high affinity for the progestin receptor, have been studied on human breast cancer cell lines in culture. The number of dead cells was evaluated by several techniques (trypan blue stain exclusion, DNA cleavage, lactic dehydrogenase activity, morphological changes, and cloning efficiency in soft agar) and found to be increased both by the antiestrogen and the antiprogestin at concentrations correlating with the affinities for their respective receptors. This cytotoxic effect was prevented by the occupation of the respective receptors with estrogen and progestin and was not found in the estrogen receptor- and progestin receptor-negative MDA MB 231 and BT20 cell lines. The contrast between the ultrastructural modifications of chromatin and the integrity of mitochondria suggested that the antihormone-induced cell death was by apoptosis. We conclude that in addition to the receptor-mediated cytostatic activity and the nonspecific cytotoxic activity, antiestrogens trigger a third type of effect that we designate as "receptor-mediated cytotoxic. " Similar conclusions can be drawn for the antiprogestin RU486, indicating moreover that the antihormone and antiproliferative activities of this drug are clearly dissociated. The mechanism of these receptor-mediated cytotoxic activities of antiestrogen and antiprogesterone is not known but does not seem to be explained entirely by the antihormone activity of these drugs.
Phytochemical Analysis and Antimalarial Activity Aqueous Extract of Lecaniodiscus cupanioides Root

Root aqueous extract of Lecaniodiscus cupanioides was evaluated for antimalarial activity and analyzed for its phytochemical constituents. Twenty-four (24) albino mice were infected by intraperitoneal injection of standard inoculum of chloroquine sensitive Plasmodium berghei (NK 65). The animals were randomly divided into 6 groups of 3 mice each. Group 1 served as the control while groups II–IV were orally administered 50, 150, and 250 mg/kg body weights of extract. Groups 5 and 6 received 1.75 and 5 mg/kg of artesunate and chloroquine, respectively. The results of the phytochemical analysis showed the presence of alkaloids (2.37%), saponin (0.336), tannin (0.012 per cent), phenol (0.008 per cent), and anthraquinone (0.002 per cent). There was 100 per cent parasite inhibition in the chloroquine group and 70 per cent in the 50 mg/kg body weight on day 12, respectively. The mean survival time (MST), for the control group was 14 days, artesunate 16 days, and chloroquine 30 days, while the groups that received 50 and 250 mg/kg body weight recorded similar MST of 17 days and the 150 mg/kg body weight group recorded 19 days. The results obtained indicated that the aqueous extract of Lecaniodiscus cupanioides may provide an alternative antimalarial.
An Adaptive Multifeature Sparsity-Based Model for Semiautomatic Road Extraction From High-Resolution Satellite Images in Urban Areas

Despite its ability to handle occlusions and noise, sparse tracking may be inadequate to describe complex noise corruption, for instance, in urban road tracking, where road surfaces are often significantly disrupted by the existence of occlusions and noise in high-resolution (HR) satellite imagery. To address this issue, this letter presents a semiautomatic approach for road extraction from HR satellite images. Firstly, a multifeature sparse model is introduced to represent the road target appearance. Next, a novel sparse constraint regularized mean-shift algorithm is used to support the road tracking. Furthermore, multiple features are combined by weighting their contributions using a novel reliability measure derived to distinguish target from background. The experiments confirm that the proposed method performs better than the current state-of-the-art methods for the extraction of roads from HR imagery, in terms of reliability, robustness, and accuracy.
Cloning and Characterization of Novel Testis-Specific Diacylglycerol Kinase η Splice Variants 3 and 4

Diacylglycerol kinase (DGK) phosphorylates DG to generate phosphatidic acid. Recently, we found that a new alternative splicing product of the DGKη gene, DGKη3, which lacks exon 26 encoding 31 amino acid residues, was expressed only in the secondary spermatocytes and round spermatids of the testis. In this study, we cloned the full length DGKη3 gene and confirmed the endogenous expression of its protein product. During the cloning procedure, we found a new testis-specific alternative splicing product of the DGKη gene, DGKη4, which lacks half of the catalytic domain. We examined the DGK activity and subcellular localization of DGKη3 and η4. DGKη3 had almost the same activity as DGKη1, whereas the activity of DGKη4 was not detectable. In resting NEC8 cells (human testicular germ cell tumor cell line), DGKη1, η3 and η4 were broadly distributed in the cytoplasm. When osmotically shocked, DGKη1 and η4 were distributed in punctate vesicles in the cytoplasm. In contrast, DGKη3 was partly translocated to the plasma membrane and co-localized with the actin cytoskeleton. These results suggest that DGKη3 and η4 have properties different from those of DGKη1 and that they play roles in the testis in a different manner.
Wear of metals: A consequence of stable/unstable material response

Abstract Wear of metals in dry sliding is dictated by the material response to traction. This is demonstrated by considering the wear of aluminium and titanium alloys. In a regime of stable homogeneous deformation the material approaching the surface from the bulk passes through microprocessing zones of flow, fracture, comminution and compaction to generate a protective tribofilm that retains the interaction in the mild wear regime. If the response leads to microstructural instabilities such as adiabatic shear bands, the near-surface zone consists of stacks of 500nm layers situated parallel to the sliding direction. Microcracks are generated below the surface to propagate normally away from the surface though microvoids situated in the layers, until it reaches a depth of 10-20 μm. A rectangular laminate debris consisting of a 20-40 layer stack is produced. The wear in this mode is severe.
A Review of Corneal Biomechanics after LASIK and SMILE and the Current Methods of Corneal Biomechanical Analysis

Corneal refractive surgeries for the correction of myopia, hyperopia, astigmatism and hyperopia are quick and effective procedures, and have been growing in popularity over the last two decades. However, post-surgery corneal ectasia remains one of the most feared surgical complications. This is where the biomechanical integrity of the cornea begins to fail, with progressive thinning of the stroma, steepening of the cornea, irregular astigmatism, and decreased distance visual acuity. Laser-assisted in-situ keratomileusis (LASIK) is currently the most common refractive surgery procedure. It uses a femtosecond laser or a microkeratome to cut a thin flap on the surface of the cornea. Corneal tissue is then photoablated to correct the refractive error and the flap is then replaced at the end of the procedure. Newer techniques such as small incision lenticule extraction (SMILE) make use of a small incision only, without flap creation, and a lenticule is extracted to correct the refractive error. The avoidance of flap creation should theoretically maintain the integrity of the anterior corneal region and lower the risk of corneal ectasia, but there have been few clinical studies to date that compare the corneal biomechanical outcomes of different procedures. In this review, we highlight the biomechanical differences in outcomes between LASIK and SMILE, as well as explain some of the in vivo and in vitro techniques to investigate corneal biomechanical parameters.
Expression of p16INK4A but not hypoxia markers or poly adenosine diphosphate‐ribose polymerase is associated with improved survival in patients with pancreatic adenocarcinoma

Pancreatic cancer is associated with mutations in the tumor suppressor gene cyclin‐dependent kinase inhibitor 2A (p16INK4A), a regulator of the cell cycle and apoptosis. This study investigates whether immunohistochemical expression of p16INK4A as well as hypoxia markers and poly adenosine diphosphate‐ribose polymerase (PARP) correlates with survival in patients with resected pancreatic adenocarcinoma.
Effects of acid exposure on the conformation, stability, and aggregation of monoclonal antibodies

Exposure of antibodies to low pH is often unavoidable for purification and viral clearance. The conformation and stability of two humanized monoclonal antibodies (hIgG4‐A and ‐B) directed against different antigens and a mouse monoclonal antibody (mIgG1) in 0.1M citrate at acidic pH were studied using circular dichroism (CD), differential scanning calorimetry (DSC), and sedimentation velocity. Near‐ and far‐UV CD spectra showed that exposure of these antibodies to pH 2.7–3.9 induced only limited conformational changes, although the changes were greater at the lower pH. However, the acid conformation is far from unfolded or so‐called molten globule structure. Incubation of hIgG4‐A at pH 2.7 and 3.5 at 4°C over the course of 24 h caused little change in the near‐UV CD spectra, indicating that the acid conformation is stable. Sedimentation velocity showed that the hIgG4‐A is largely monomeric at pH 2.7 and 3.5 as well as at pH 6.0. No time‐dependent changes in sedimentation profile occurred upon incubation at these low pHs, consistent with the conformational stability observed by CD. The sedimentation coefficient of the monomer at pH 2.7 or 3.5 again suggested that no gross conformational changes occur at these pHs. DSC analysis of the antibodies showed thermal unfolding at pH 2.7–3.9 as well as at pH 6.0, but with decreased melting temperatures at the lower pH. These results are consistent with the view that the antibodies undergo limited conformational change, and that incubation at 4°C at low pH results in no time‐dependent conformational changes. Titration of hIgG4‐A from pH 3.5 to 6.0 resulted in recovery of native monomeric proteins whose CD and DSC profiles resembled those of the original sample. However, titration from pH 2.7 resulted in lower recovery of monomeric antibody, indicating that the greater conformational changes observed at this pH cannot be fully reversed to the native structure by a simple pH titration. Proteins 2007. © 2006 Wiley‐Liss, Inc.
Targeting Iron Acquisition Blocks Infection with the Fungal Pathogens Aspergillus fumigatus and Fusarium oxysporum

Filamentous fungi are an important cause of pulmonary and systemic morbidity and mortality, and also cause corneal blindness and visual impairment worldwide. Utilizing in vitro neutrophil killing assays and a model of fungal infection of the cornea, we demonstrated that Dectin-1 dependent IL-6 production regulates expression of iron chelators, heme and siderophore binding proteins and hepcidin in infected mice. In addition, we show that human neutrophils synthesize lipocalin-1, which sequesters fungal siderophores, and that topical lipocalin-1 or lactoferrin restricts fungal growth in vivo. Conversely, we show that exogenous iron or the xenosiderophore deferroxamine enhances fungal growth in infected mice. By examining mutant Aspergillus and Fusarium strains, we found that fungal transcriptional responses to low iron levels and extracellular siderophores are essential for fungal growth during infection. Further, we showed that targeting fungal iron acquisition or siderophore biosynthesis by topical application of iron chelators or statins reduces fungal growth in the cornea by 60% and that dual therapy with the iron chelator deferiprone and statins further restricts fungal growth by 75%. Together, these studies identify specific host iron-chelating and fungal iron-acquisition mediators that regulate fungal growth, and demonstrate that therapeutic inhibition of fungal iron acquisition can be utilized to treat topical fungal infections.
Simple 2-D Direction-of-Arrival Estimation Using an ESPAR Antenna

In this letter, it has been shown how an electronically steerable parasitic array radiator (ESPAR) antenna can be used for 2-D direction-of-arrival (DoA) estimation employing received signal strength (RSS) values only. The proposed approach relies on changes in RSS values recorded at the antenna output port observed for different vertical and horizontal directions, while antenna's main beam sweeps 360° area around the ESPAR antenna. Based on the observed diversity in RSS values, obtained for different ESPAR antenna radiation patterns and different directions of a signal impinging the antenna, a simple 2-D DoA estimator has been proposed. Measurements using the fabricated ESPAR antenna indicate that, by relying solely on RSS values and the proposed algorithm, it is possible to perform 2-D DoA estimation with the acceptable accuracy in realistic and inexpensive systems, where the phase of impinging signals cannot easily be measured.
Overexpression of Large‐Conductance Calcium‐Activated Potassium Channels in Human Glioblastoma Stem‐Like Cells and Their Role in Cell Migration

Glioblastomas (GBMs) are brain tumors characterized by diffuse invasion of cancer cells into the healthy brain parenchyma, and establishment of secondary foci. GBM cells abundantly express large‐conductance, calcium‐activated potassium (BK) channels that are thought to promote cell invasion. Recent evidence suggests that the GBM high invasive potential mainly originates from a pool of stem‐like cells, but the expression and function of BK channels in this cell subpopulation have not been studied. We investigated the expression of BK channels in GBM stem‐like cells using electrophysiological and immunochemical techniques, and assessed their involvement in the migratory process of this important cell subpopulation. In U87‐MG cells, BK channel expression and function were markedly upregulated by growth conditions that enriched the culture in GBM stem‐like cells (U87‐NS). Cytofluorimetric analysis further confirmed the appearance of a cell subpopulation that co‐expressed high levels of BK channels and CD133, as well as other stem cell markers. A similar association was also found in cells derived from freshly resected GBM biopsies. Finally, transwell migration tests showed that U87‐NS cells migration was much more sensitive to BK channel block than U87‐MG cells. Our data show that BK channels are highly expressed in GBM stem‐like cells, and participate to their high migratory activity. J. Cell. Physiol. 232: 2478–2488, 2017. © 2016 Wiley Periodicals, Inc.
Is Skin Coloration Measured by Reflectance Spectroscopy Related to Intake of Nutrient-Dense Foods? A Cross-Sectional Evaluation in Australian Young Adults

The current study examines associations between the dietary intakes of nutrient-dense foods, measured using brief indices and skin coloration, measured using reflectance spectroscopy in young adults. This is a cross-sectional analysis of 148 young Australian males and females (55% female) aged 18 to 25 years. Dietary intake was assessed using a validated food frequency questionnaire, with responses used to calculate two dietary indices: (i) the Australian Recommended Food Score (ARFS); and (ii) the Fruit And Vegetable VAriety Score (FAVVA). Skin yellowness was measured at three body locations using reflectance spectroscopy. Associations were assessed using Spearman’s correlation coefficients, regression analysis, and agreement using weighted kappa (Kw). Significant, moderate correlations were found between skin yellowness and diet index scores for the ARFS (ρ = 0.30, p < 0.001) and FAVVA score (ρ = 0.39, p < 0.001). These remained significant after adjustment for confounders (total fat intake, sex, skin lightness) and for agreement based on categorical rankings. Results suggest that measurement of skin coloration by reflectance spectroscopy can be used as an indicator of overall dietary quality and variety in young adults. Further exploration in diverse populations is required.