Miracle-dz/UniFAR-FTUs huggingface dataset:
The Ku Protein Complex Is Involved in Length Regulation of Drosophila Telomeres

Chromosome ends in Drosophila melanogaster can be elongated either by terminal attachment of the telomere-specific retrotransposons HeT-A and TART or by terminal gene conversion. Here we show that a decrease in Ku70 or Ku80 gene dosage causes a sharp increase in the frequency of HeT-A and TART attachments to a broken chromosome end and in terminal DNA elongation by gene conversion. Loss of Ku80 has more pronounced effects than loss of Ku70. However, lower Ku70 concentration reduces the stability of terminally deficient chromosomes. Our results suggest a role of the end-binding Ku complex in the accessibility and length regulation of Drosophila telomeres.
Explicit P1 Finite Element Solution of the Maxwell-Wave Equation Coupling Problem with Absorbing b. c.

In this paper, we address the approximation of the coupling problem for the wave equation and Maxwell’s equations of electromagnetism in the time domain in terms of electric field by means of a nodal linear finite element discretization in space, combined with a classical explicit finite difference scheme for time discretization. Our study applies to a particular case where the dielectric permittivity has a constant value outside a subdomain, whose closure does not intersect the boundary of the domain where the problem is defined. Inside this subdomain, Maxwell’s equations hold. Outside this subdomain, the wave equation holds, which may correspond to Maxwell’s equations with a constant permittivity under certain conditions. We consider as a model the case of first-order absorbing boundary conditions. First-order error estimates are proven in the sense of two norms involving first-order time and space derivatives under reasonable assumptions, among which lies a CFL condition for hyperbolic equations. The theoretical estimates are validated by numerical computations, which also show that the scheme is globally of the second order in the maximum norm in time and in the least-squares norm in space.
A 2.3-mW 11-cm Range Bootstrapped and Correlated-Double-Sampling Three-Dimensional Touch Sensing Circuit for Mobile Devices

This brief discusses an oscillator-based capacitive 3-D touch-sensing circuit for mobile devices. The proposed 3-D touch sensor uses correlated double sampling to achieve a high sensing resolution in the Z-direction and employs bootstrapping circuitry to reduce the mobile screen's interchannel-coupling effects. Additionally, to reduce chip area and assembly, the sensing oscillator is implemented with inverter-based active resonators instead of using either on- or off-chip inductors. The prototyped 3-D touch sensor is fabricated using 65-nm CMOS process technology and consumes an area of 2 mm2, with a 2.3-mW power consumption from a 1-V power supply. Measured together with a 3.4" HTC standard mobile screen, the sensor achieves an 11-cm Z-direction sensing range with a 1-cm resolution, demonstrating the potential implementation of 3-D finger position sensing in a mobile device.
The Genome of Deep-Sea Vent Chemolithoautotroph Thiomicrospira crunogena XCL-2

Presented here is the complete genome sequence of Thiomicrospira crunogena XCL-2, representative of ubiquitous chemolithoautotrophic sulfur-oxidizing bacteria isolated from deep-sea hydrothermal vents. This gammaproteobacterium has a single chromosome (2,427,734 base pairs), and its genome illustrates many of the adaptations that have enabled it to thrive at vents globally. It has 14 methyl-accepting chemotaxis protein genes, including four that may assist in positioning it in the redoxcline. A relative abundance of coding sequences (CDSs) encoding regulatory proteins likely control the expression of genes encoding carboxysomes, multiple dissolved inorganic nitrogen and phosphate transporters, as well as a phosphonate operon, which provide this species with a variety of options for acquiring these substrates from the environment. Thiom. crunogena XCL-2 is unusual among obligate sulfur-oxidizing bacteria in relying on the Sox system for the oxidation of reduced sulfur compounds. The genome has characteristics consistent with an obligately chemolithoautotrophic lifestyle, including few transporters predicted to have organic allocrits, and Calvin-Benson-Bassham cycle CDSs scattered throughout the genome.
Non-acoustical variable contribution to military blast noise annoyance

INTRODUCTION: Several factors other than noise exposure can contribute to an individual’s annoyance to noise. In fact, non-acoustical variables, such as an individual’s ability to habituate to noise or their personal feeling of importance towards the noise source, can have an equal or larger impact upon noise annoyance than the noise itself (Schomer et al. 2013; Guski 1999; Stallen 1999). Most of the studies that pertain to non-acoustical variables contributing to noise annoyance have focused on airplane, road, railroad, or wind turbine noise. While the results of these studies have been similar, there have been a few differences in the relationship between non-acoustical variables and noise annoyance based on the noise type. Additionally, none of the annoyance studies focused specifically on non-acoustical variable contribution to annoyance for military blast noise.
Integrated optical devices design by genetic algorithm

In this work, we use multiple scattering in conjunction with a genetic algorithm to reliably determine the optimized photonic-crystal-based structure able to perform a specific optical task. The genetic algorithm operates on a population of candidate structures to produce new candidates with better performance in an iterative process. The potential of this approach is illustrated by designing a spot size converter that has a very low F number (F=0.47) and a conversion ratio of 11:1. Also, we have designed a coupler device that introduces the light from the optical fiber into a photonic-crystal-based waveguide with a coupling efficiency over 87% for a wavelength that can be tuned to 1.5 μm.
Randomized Trial Comparing the Effects of Ticagrelor Versus Clopidogrel on Myocardial Perfusion in Patients With Coronary Artery Disease

Background Ticagrelor is a P2Y12 receptor inhibitor used in acute coronary syndromes to reduce platelet activity and to decrease thrombus formation. Ticagrelor is associated with a reduction in mortality incremental to that observed with clopidogrel, potentially related to its non–antiplatelet effects. Evidence from animal models indicates that ticagrelor potentiates adenosine‐induced myocardial blood flow (MBF) increases. We investigated MBF at rest and during adenosine‐induced hyperemia in patients with stable coronary artery disease treated with ticagrelor versus clopidogrel. Methods and Results This randomized double‐blinded crossover study included 22 patients who received therapeutic interventions of ticagrelor 90 mg orally twice a day for 10 days and clopidogrel 75 mg orally once a day for 10 days, with a washout period of at least 10 days between the treatments. Global and regional MBF and myocardial flow reserve were measured using rubidium 82 positron emission tomography/computed tomography at baseline and during intermediate‐ and high‐dose adenosine. Global MBF was significantly greater with ticagrelor versus clopidogrel (1.28±0.55 versus 1.13±0.47 mL/min per gram, P=0.002) at intermediate‐dose adenosine and not different at baseline (0.65±0.19 versus 0.60±0.15 mL/min per gram, P=0.084) and at high‐dose adenosine (1.64±0.40 versus 1.61±0.19 mL/min per gram, P=0.53). In regions with impaired myocardial flow reserve (<2.5), MBF was greater with ticagrelor compared with clopidogrel during intermediate and high doses of adenosine (P<0.0001), whereas the differences were not significant at baseline. Conclusions Ticagrelor potentiates global and regional adenosine‐induced MBF increases in patients with stable coronary artery disease. This effect may contribute to the incremental mortality benefit compared with clopidogrel. Clinical Trial Registration URL: http://www.clinicaltrials. gov. Unique identifier: NCT01894789.
Frequency-specific adaptation and its underlying circuit model in the auditory midbrain

Receptive fields of sensory neurons are considered to be dynamic and depend on the stimulus history. In the auditory system, evidence of dynamic frequency-receptive fields has been found following stimulus-specific adaptation (SSA). However, the underlying mechanism and circuitry of SSA have not been fully elucidated. Here, we studied how frequency-receptive fields of neurons in rat inferior colliculus (IC) changed when exposed to a biased tone sequence. Pure tone with one specific frequency (adaptor) was presented markedly more often than others. The adapted tuning was compared with the original tuning measured with an unbiased sequence. We found inhomogeneous changes in frequency tuning in IC, exhibiting a center-surround pattern with respect to the neuron's best frequency. Central adaptors elicited strong suppressive and repulsive changes while flank adaptors induced facilitative and attractive changes. Moreover, we proposed a two-layer model of the underlying network, which not only reproduced the adaptive changes in the receptive fields but also predicted novelty responses to oddball sequences. These results suggest that frequency-specific adaptation in auditory midbrain can be accounted for by an adapted frequency channel and its lateral spreading of adaptation, which shed light on the organization of the underlying circuitry.
Ocean, sea‐ice, atmosphere oscillations in the Southern Ocean as simulated by the SINTEX coupled model

This study evaluates the Antarctic Circumpolar Wave (ACW) as simulated by the SINTEX coupled model. We found evidence that sea‐ice treatment plays a crucial role on simulating the ACW. In particular, SST anomalies at interannual time scales describe a propagating ACW‐like pattern when a dynamic thermodynamic sea‐ice model is coupled with the ocean, but when sea‐ice is relaxed to climatology, anomalies occur as zonally symmetric patterns that do not propagate in longitude. Moreover, from the experiment with an active sea‐ice component we saw that ACW‐like oscillations are strongly modulated by low frequency variability. Our result adds some extra confidence to previous studies based on relatively short series of observed data.
A Machine Learning Approach to TCP Throughput Prediction

TCP throughput prediction is an important capability for networks where multiple paths exist between data senders and receivers. In this paper, we describe a new lightweight method for TCP throughput prediction. Our predictor uses Support Vector Regression (SVR); prediction is based on both prior file transfer history and measurements of simple path properties. We evaluate our predictor in a laboratory setting where ground truth can be measured with perfect accuracy. We report the performance of our predictor for oracular and practical measurements of path properties over a wide range of traffic conditions and transfer sizes. For bulk transfers in heavy traffic using oracular measurements, TCP throughput is predicted within 10% of the actual value 87% of the time, representing nearly a threefold improvement in accuracy over prior history-based methods. For practical measurements of path properties, predictions can be made within 10% of the actual value nearly 50% of the time, approximately a 60% improvement over history-based methods, and with much lower measurement traffic overhead. We implement our predictor in a tool called PathPerf, test it in the wide area, and show that PathPerf predicts TCP throughput accurately over diverse wide area paths.
Lung Cancer Associated with Neurofibromatosis Type I

Lung cancer associated with neurofibromatosis type I is considered very rare, and only a few case reports have been described in the literature. There is some evidence that a genetic linkage between neurofibromatosis and carcinogenesis in the lung may exist. We present a 42-year-old female, lifetime nonsmoker with a known history of neurofibromatosis type I, free of respiratory symptoms, who underwent a low-dose HRCT of the lungs to investigate any occult interstitial lung changes. A solitary ill-defined nodule of a ground-glass opacity was detected incidentally in the middle lobe with no associated lymphadenopathy or metastatic disease. Several thin-walled lung cysts were also seen in the lower lobes. Histological analysis of the nodule after middle lobectomy revealed well-differentiated adenocarcinoma. The patient did not receive systemic chemotherapy or radiotherapy. She was free of disease on 18-month followup.
A mechanism for the segregation of age in mammalian neural stem cells

Youthful damage limitation in stem cells Every day brings more risk of damage to stem cells, which could have consequences for the whole organism. Moore et al. observed that dividing neural stem cells in rodents establish a diffusion barrier that restricts damaged proteins to one daughter cell, leaving the other with intact molecules. But with age this diffusion barrier weakens, so that replicating stem cells of older animals are less able to exclude damaged proteins than are the stem cells of younger rodents. Science, this issue p. 1334 Neural stem cells segregate age-related damage by establishing a diffusion barrier during cell division. Throughout life, neural stem cells (NSCs) generate neurons in the mammalian brain. Using photobleaching experiments, we found that during cell division in vitro and within the developing mouse forebrain, NSCs generate a lateral diffusion barrier in the membrane of the endoplasmic reticulum, thereby promoting asymmetric segregation of cellular components. The diffusion barrier weakens with age and in response to impairment of lamin-associated nuclear envelope constituents. Weakening of the diffusion barrier disrupts asymmetric segregation of damaged proteins, a product of aging. Damaged proteins are asymmetrically inherited by the nonstem daughter cell in embryonic and young adult NSC divisions, whereas in the older adult brain, damaged proteins are more symmetrically distributed between progeny. Thus, these data identify a mechanism of how damage that accumulates with age is asymmetrically distributed during somatic stem cell division.
Difference in characteristics and outcomes between medullary breast carcinoma and invasive ductal carcinoma: a population based study from SEER 18 database

Medullary breast carcinoma (MBC) is a unique histological subtype of breast cancer. Our study was designed to identify difference in characteristics and outcomes between MBC and invasive ductal carcinoma (IDC), and further confirm the prognostic factors of MBC. Utilizing Surveillance, Epidemiology, and End Results (SEER), we identified 84,764 eligible patients, including 309 MBC and 84,455 IDC. Compared with the IDC group, the MBC group was associated with younger age at diagnosis, higher grade, more advanced stage, larger tumor size, and higher proportion of triple-negative breast cancer (TNBC). Kaplan-Meier analysis and univariate Cox proportional hazard regression model showed that patients with IDC had significantly better breast cancer-specific survival (BCSS) compared to MBC, but they had similar overall survival (OS). However, MBC histology was no longer a surrogate for worse BCSS or OS after 1:1 matching by age, American Joint Committee on Cancer (AJCC) stage, grade and breast subtype. In addition, it was exposed that not married status, high grade, large tumor size, positive nodal status, the subtype of TNBC and no receipt of radiation therapy were significantly associated with poor BCSS and OS. In conclusion, MBC demonstrated more aggressive behavior but similar outcomes compared to IDC, which may be determined by prognostic factors such as breast subtype. These results not only confer deeper insight into MBC but contribute to individualized and tailored therapy, and thereby may improve clinical management and outcomes.
Arachidonic Acid Availability and Prostacyclin Production by Cultured Human Endothelial Cells

When human umbilical vein endothelial cultures were grown in the presence of supplemental arachidonic acid, the cell phospholipids became enriched with arachidonic acid. Prostacyclin (PGI2) accumulated in the medium during supplementation with arachidonic acid. The capacity of these enriched cultures to produce PGI2 when subsequently incubated with either arachidonic acid or thrombin was reduced by as much as 90%, but release of arachidonic acid from the cell lipids in response to thrombin stimulation was not inhibited. Refractory cultures completely recovered the capacity to form PGI2 within 18 hours after removal of the medium containing supplemental arachidonic acid. However, recovery was prevented by cycloheximide. When enrichment with arachidonic acid was done in the presence of ibuprofen, a reversible cyclooxygenase inhibitor, PGI2 did not accumulate in the medium during supplementation, and the subsequent capacity of the cultures to produce PGI2 in response to thrombin increased by 70% to 240%. By contrast, the capacity of these supplemented cultures to convert added arachidonic acid to PGI2 did not increase. Therefore, the enhancement in thrombin-stimulated PGI2 production when the cultures are supplemented with arachidonic acid probably is due to the larger amount of arachidonic acid available in the intracellular lipid substrate pools, rather than to an activation of the PGI2 synthetic pathway. These findings suggest that changes in the arachidonic acid content of the endothelial cell lipids may modulate the capacity of the endothelium to produce PGI2 in response to stimulation.
Culturally adapted mental health intervention: A meta-analytic review.

There is a pressing need to enhance the availability and quality of mental health services provided to persons from historically disadvantaged racial and ethnic groups. Many previous authors have advocated that traditional mental health treatments be modified to better match clients' cultural contexts. Numerous studies evaluating culturally adapted interventions have appeared, and the present study used meta-analytic methodology to summarize these data. Across 76 studies the resulting random effects weighted average effect size was d = . 45, indicating a moderately strong benefit of culturally adapted interventions. Interventions targeted to a specific cultural group were four times more effective than interventions provided to groups consisting of clients from a variety of cultural backgrounds. Interventions conducted in clients' native language (if other than English) were twice as effective as interventions conducted in English. Recommendations are provided for improving the study of outcomes associated with mental health interventions adapted to the cultural context of the client. (PsycINFO Database Record (c) 2010 APA, all rights reserved).
Is There Any “Free” Choice?

Four experiments provided support for the hypothesis that upon making a choice, individuals justify their choice in order to eliminate doubts about culturally sanctioned aspects of the self, namely, competence and efficacy in North America and positive appraisal by other people in Japan. Japanese participants justified their choice (by increasing liking for chosen items and decreasing liking for rejected items) in the standard free-choice dissonance paradigm only when self-relevant others were primed, either by questionnaires (Studies 1–3) or by incidental exposure to schematic faces (Study 4). In the absence of these social cues, Japanese participants showed no dissonance effect. In contrast, European Americans justified their choices regardless of the social-cue manipulations. Implications for cognitive dissonance theory are discussed.
A Lack of Contact of Sperm with Accessory Sex Gland Secretions Deregulates DNA Methylation and Imprinted Gene Expression in Rodent Embryos

Increased oxidative DNA damage is observed in sperm devoid of contact with accessory sex gland (ASG) secretion. After fertilization, these sperm may produce abnormal embryos. In this study, we investigated the possibility that the pattern of DNA methylation and imprinted gene expression in these embryos may be perturbed. Epididymal sperm, uterine sperm, and embryonic day 13 (E13) embryos were collected from hamster and mouse. The extent of global DNA methylation was determined with an antibody against methylcytosine using an embryo DNA dot. The sperm and embryo Gtl2 promoter and H19 differential methylated region (DMR) were subject to bisulfite sequencing. Expression of their reciprocally activated genes Dlk1 and Igf2 was quantified by real-time PCR. Genome-wide DNA hypo-methylation in both hamster and mouse embryos sired by males without ASG was observed. The imprinting pattern of fetal mouse Gtl2 promoter and fetal hamster H19 DMR were also disrupted while the expression of Dlk1 and Igf2 was dysregulated in the hamster embryo. This study suggests that a lack of contact of sperm with the ASG secretion disrupts genome-wide DNA methylation and also affects the DNA methylation pattern of imprinted genes in embryos.
Efficient Algorithms for Discovering Association Rules

Association rules are statements of the form "for 90 % of the rows of the relation, if the row has value 1 in the columns in set W, then it has 1 also in column B". Agrawal, Imielinski, and Swami introduced the problem of mining association rules from large collections of data, and gave a method based on successive passes over the database. We give an improved algorithm for the problem. The method is based on careful combinatorial analysis of the information obtained in previous passes; this makes it possible to eliminate unnecessary candidate rules. Experiments on a university course enrollment database indicate that the method outperforms the previous one by a factor of 5. We also show that sampling is in general a very efficient way of finding such rules.
Antifibrotic effects of crocetin in scleroderma fibroblasts and in bleomycin-induced sclerotic mice

OBJECTIVE: To investigate the antifibrotic effects of crocetin in scleroderma fibroblasts and in sclerotic mice. METHODS: Skin fibroblasts that were isolated from three systemic scleroderma (SSc) patients and three healthy subjects were treated with crocetin (0.1, 1 or 10 μM). Cell proliferation was measured with an MTT assay. Alpha-smooth muscle actin was detected via an immunohistochemical method. Alpha 1 (I) procollagen (COL1A1), alpha 1 (III) procollagen (COL3A1), matrix metalloproteinase (MMP)-1 and tissue inhibitor of matrix metalloproteinase (TIMP)-1 mRNA levels were measured using real-time PCR. SSc mice were established by the subcutaneous injection of bleomycin. Crocetin (50 mg/kg/d) was injected intraperitoneally for 14 days. Dermal thickness and lung fibrosis were assessed with Masson's trichrome staining. Plasma ET-1 was detected with an enzyme-linked immunosorbent assay (ELISA). Skin and lung ET-1 and COL1A1 mRNA levels were measured via real-time PCR. RESULTS: Crocetin inhibited the proliferation of SSc and normal fibroblasts, an effect that increased with crocetin concentration and incubation time. Crocetin decreased the expression of α-SMA and the levels of mRNA for COL1A1, COL3A1 and matrix metalloproteinase-1, while crocetin increased TIMP-1 mRNA levels in both SSc and normal fibroblasts. Skin and lung fibrosis was induced, and the levels of ET-1 in the plasma, skin and lungs were elevated in bleomycin-injected mice. Crocetin alleviated the thickening of the dermis and lung fibrosis; decreased COL1A1 mRNA levels in the skin and lung; and simultaneously decreased ET-1 concentrations in the plasma and ET-1 mRNA levels in the skin and lungs of the bleomycin-induced sclerotic mice, especially during the early phase (weeks 1-3). CONCLUSION: Crocetin inhibits cell proliferation, differentiation and collagen production in SSc fibroblasts. Crocetin alleviates skin and lung fibrosis in a bleomycin-induced SSc mouse model, in part due to a reduction in ET-1.