Miracle-dz/UniFAR-FTUs huggingface dataset:
Sequence differentiation in regions identified by a genome scan for local adaptation

Genome scans using large numbers of randomly selected markers have revealed a small proportion of loci that deviate from neutral expectations and so may mark genomic regions that contribute to local adaptation. Measurements of sequence differentiation and identification of genes in these regions is important but difficult, especially in organisms with limited genetic information available. We have followed up a genome scan in the marine gastropod, Littorina saxatilis, by searching a bacterial artificial chromosome library with differentiated and undifferentiated markers, sequencing four bacterial artificial chromosomes and then analysing sequence variation in population samples for fragments at, and close to the original marker polymorphisms. We show that sequence differentiation follows the patterns expected from the original marker frequencies, that differentiated markers identify independent and highly localized sites and that these sites fall outside coding regions. Two differentiated loci are characterized by insertions of putative transposable elements that appear to have increased in frequency recently and which might influence expression of downstream genes. These results provide strong candidate loci for the study of local adaptation in Littorina. They demonstrate an approach that can be applied to follow up genome scans in other taxa and they show that the genome scan approach can lead rapidly to candidate genes in nonmodel organisms.
Endophytic fungi: a reservoir of antibacterials

Multidrug drug resistant bacteria are becoming increasingly problematic particularly in the under developed countries of the world. The most important microorganisms that have seen a geometric rise in numbers are Methicillin resistant Staphylococcus aureus, Vancomycin resistant Enterococcus faecium, Penicillin resistant Streptococcus pneumonia and multiple drug resistant tubercule bacteria to name a just few. New drug scaffolds are essential to tackle this every increasing problem. These scaffolds can be sourced from nature itself. Endophytic fungi are an important reservoir of therapeutically active compounds. This review attempts to present some data relevant to the problem. New, very specific and effective antibiotics are needed but also at an affordable price! A Herculean task for researchers all over the world! In the Asian subcontinent indigenous therapeutics that has been practiced over the centuries such as Ayurveda have been effective as “handed down data” in family generations. May need a second, third and more “in-depth investigations? ”
Algorithms for Mining Distance-Based Outliers in Large Datasets

This paper deals with finding outliers (exceptions) in large, multidimensional datasets. The identification of outliers can lead to the discovery of truly unexpected knowledge in areas such as electronic commerce, credit card fraud, and even the analysis of performance statistics of professional athletes. Existing methods that we have seen for finding outliers in large datasets can only deal efficiently with two dimensions/attributes of a dataset. Here, we study the notion of DB- (DistanceBased) outliers. While we provide formal and empirical evidence showing the usefulness of DB-outliers, we focus on the development of algorithms for computing such outliers. First, we present two simple algorithms, both having a complexity of O(k N’), k being the dimensionality and N being the number of objects in the dataset. These algorithms readily support datasets with many more than two attributes. Second, we present an optimized cell-based algorithm that has a complexity that is linear wrt N, but exponential wrt k. Third, for datasets that are mainly disk-resident, we present another version of the cell-based algorithm that guarantees at most 3 passes over a dataset. We provide
Family, Community and Life-Cycle Earnings: Evidence from Siblings and Youth Peers

Using longitudinal data based on administrative registers for the population of Danish men we develop a model which accounts for the joint earnings dynamics of siblings and youth community peers. We are the first to decompose the sibling correlation of permanent earnings into family and community effects allowing for life-cycle dynamics; finding that family is the most important factor influencing earnings inequality over the life cycle. Community background explains a substantial share of the sibling correlation of earnings early in the working life, but its importance diminishes over time and becomes negligible after age 30.
Cam Newton and Russell Westbrook's Symbolic Resistance to Whiteness in the NFL and NBA

Abstract Using critical rhetorical analysis (McKerrow, 1989) as a method of analysis and critique, and informed by critical whiteness studies (Nakayama & Krizek, 1995) and Black feminist thought (Collins, 1991), this project argues that NFL North Carolina Panthers' quarterback Cam Newton and NBA Oklahoma City Thunder's point guard Russell Westbrook rhetorically perform an alternative Black masculinity that symbolically contests whiteness's surveillance of male bodies who occupy Black positionality in the NFL and NBA via their performance of cool pose (Majors & Billson, 1992). Focusing on news and sports media coverage in the 2015–2016 season, this project also interrogates whiteness's strategies to reconstitute Newton and Westbrook's expressions of cool pose by inscribing Black masculinity with belittling and dehumanizing controlling images that favor whiteness and White masculinity. This manuscript closes with a discussion of the harmful repercussions of whiteness's strategies in pro sports as well as the possibilities that athletes like Newton and Westbrook bring forth for social justice initiatives.
Trace-Driven Analysis of ICN Caching Algorithms on Video-on-Demand Workloads

Even though a key driver for Information-Centric Networking (ICN) has been the rise in Internet video traffic, there has been surprisingly little work on analyzing the interplay between ICN and video ? which ICN caching strategies work well on video work- loads and how ICN helps improve video-centric quality of experience (QoE). In this work, we bridge this disconnect with a trace- driven study using 196M video requests from over 16M users on a country-wide topology with 80K routers. We evaluate a broad space of content replacement (e.g., LRU, LFU, FIFO) and content placement (e.g., leave a copy everywhere, probabilistic) strategies over a range of cache sizes. We highlight four key findings: (1) the best placement and re- placement strategies depend on the cache size and vary across improvement metrics; that said, LFU+probabilistic caching [37] is a close-to-optimal strategy overall; (2) video workloads show considerable caching-related benefits (e.g., -- 10% traffic reduction) only with very large cache sizes (≥ 100GB); (3) the improvement in video QoE is low (≥ 12%) if the content provider already has a substantial geographical presence; and (4) caches in the middle and the edge of the network, requests from highly populated regions and without content servers, and requests for popular content contribute most to the overall ICN-induced improvements in video QoE.
Hasty discussion, cross-cutting exposure, and tolerance: A comparative study of South Korean and American online discussants

The positive relationship between cross-cutting exposure and tolerance has long been a topic in the political communication field. By reinvestigating this issue, this study further explores whether hasty discussion moderates the relationship from a cross-cultural perspective by comparing South Korea with the United States. The authors posit that hasty discussion—a term that was coined to explain South Korean’s fast lifestyle as reflected in discussion processes—is a South Korean characteristic that can have deleterious effects on deliberative democracy. Nine hundred and sixty survey participants (480 South Koreans and 480 Americans) showed meaningful results: (1) Hasty discussion comprises two factors (ignoring discussion processes and pursuing discussion efficiency). (2) Americans are exposed to more cross-cutting opinions than South Koreans, but the positive relationship between cross-cutting exposure and tolerance is more significant in the South Korean sample. (3) In the South Korean sample, ignoring discussion processes negatively affected tolerance. (4) An interaction effect of ignoring discussion processes and cross-cutting exposure on tolerance was found among South Koreans. That is, ignoring the discussion process lowered tolerance.
Transparent and Efficient Reuse of IFDS-based Static Program Analyses for Software Product Lines

A software product line (SPL) encodes a potentially large variety of software products as variants of some common code base. Up until now, re-using traditional static analyses for SPLs was virtually intractable, as it required programmers to generate and analyze all products individually. In this work, however, we show how an important class of existing inter-procedural static analyses can be transparently lifted to SPLs. Without requiring programmers to change a single line of code, our
Efficacy of valproic acid for retinitis pigmentosa patients: a pilot study

Purpose The purpose of this study was to examine the efficacy and safety of valproic acid (VPA) use in patients with retinitis pigmentosa (RP). Patients and methods This was a prospective, interventional, noncomparative case study. In total, 29 eyes from 29 patients with RP whose best-corrected visual acuities (BCVAs) in logarithm of the minimum angle of resolution (logMAR) ranged from 1.0 to 0.16 with visual fields (VFs) of ≤10° (measured using Goldmann perimeter with I4) were recruited. The patients received oral supplementation with 400 mg of VPA daily for 6 months and were followed for an additional 6 months. BCVAs, VFs (measured with the Humphrey field analyzer central 10-2 program), and subjective questionnaires were examined before, during, and after the cessation of VPA supplementation. Results The changes in BCVA and VF showed statistically significant differences during the internal use of VPA, compared with after cessation (P=0.001). With VPA intake, BCVA in logMAR significantly improved from baseline to 6 months (P=0.006). The mean deviation value of the VF significantly improved from baseline to 1 month (P=0.001), 3 months (P=0.004), and 6 months (P=0.004). These efficacies, however, were reversed to the baseline levels after the cessation of VPA intake. There were no significant relations between the mean blood VPA concentrations of each patient and the changes in BCVA and VF. During the internal use of VPA, 15 of 29 patients answered “easier to see”, whereas blurred vision was registered in 21 of 29 patients on cessation. No systemic drug-related adverse events were observed. Conclusion While in use, oral intake of VPA indicated a short-term benefit to patients with RP. It is necessary to examine the effect of a longer VPA supplementation in a controlled study design.
Multiantigen Print Immunoassay for Comparison of Diagnostic Antigens for Taenia solium Cysticercosis and Taeniasis

ABSTRACT One of the best-characterized tests for the diagnosis of neurocysticercosis is the enzyme-linked immunoelectrotransfer blot assay, developed at the CDC, which uses lentil lectin-purified glycoproteins (LLGPs) extracted from Taenia solium cysticerci. The purification of the LLGP antigens has been difficult to standardize, and the polyacrylamide gel system used for the immunoblot assay is not easily transferable to other laboratories. In this study, we developed a multiantigen printing immunoassay (MAPIA) to compare the performance of multiple recombinant Taenia solium proteins with the potential for the detection of cysticercosis and taeniasis. We prepared MAPIA strips using six cysticercosis and two taeniasis diagnostic proteins and compared the performance of the proteins with sera collected from defined cysticercosis and taeniasis cases. Of the six cysticercosis antigens, rT24H performed well in detecting cases with two or more viable cysts in the brain (sensitivity and specificity, 97% and 99.4%, respectively); the use of a combination of cysticercosis antigens did not improve the sensitivity of the test and decreased the specificity. None of the antigens could differentiate the different clinical presentations of cysticercosis. Both of the taeniasis antigens (rES33 and rES38) had the same sensitivity of 99.4% and specificities of 93.9% and 94.5%, respectively. Some cross-reactivity against rES33 and rES38 was found, especially with sera from cases infected with Schistosoma mansoni. We conclude that MAPIA is a simple and effective tool that may be used to compare antibody responses to different cysticercosis and taeniasis antigens and, in this case, may be useful for the rapid detection of T. solium cases.
High-intensity training versus traditional exercise interventions for promoting health.

PURPOSE The purpose of this study was to determine the effectiveness of brief intense interval training as exercise intervention for promoting health and to evaluate potential benefits about common interventions, that is, prolonged exercise and strength training. METHODS Thirty-six untrained men were divided into groups that completed 12 wk of intense interval running (INT; total training time 40 min wk(-1)), prolonged running (approximately 150 min wk(-1)), and strength training (approximately 150 min wk(-1)) or continued their habitual lifestyle without participation in physical training. RESULTS The improvement in cardiorespiratory fitness was superior in the INT (14% +/- 2% increase in V˙O2max) compared with the other two exercise interventions (7% +/- 2% and 3% +/- 2% increases). The blood glucose concentration 2 h after oral ingestion of 75 g of glucose was lowered to a similar extent after training in the INT (from 6.1 +/- 0.6 to 5.1 +/- 0.4 mM, P < 0.05) and the prolonged running group (from 5.6 +/- 1.5 to 4.9 +/- 1.1 mM, P < 0.05). In contrast, INT was less efficient than prolonged running for lowering the subjects' resting HR, fat percentage, and reducing the ratio between total and HDL plasma cholesterol. Furthermore, total bone mass and lean body mass remained unchanged in the INT group, whereas both these parameters were increased by the strength-training intervention. CONCLUSIONS INT for 12 wk is an effective training stimulus for improvement of cardiorespiratory fitness and glucose tolerance, but in relation to the treatment of hyperlipidemia and obesity, it is less effective than prolonged training. Furthermore and in contrast to strength training, 12 wk of INT had no impact on muscle mass or indices of skeletal health.
Stability and Stabilization of Delayed T--S Fuzzy Systems: A Delay Partitioning Approach

This paper proposes a new approach, namely, the delay partitioning approach, to solving the problems of stability analysis and stabilization for continuous time-delay Takagi-Sugeno fuzzy systems. Based on the idea of delay fractioning, a new method is proposed for the delay-dependent stability analysis of fuzzy time-delay systems. Due to the instrumental idea of delay partitioning, the proposed stability condition is much less conservative than most of the existing results. The conservatism reduction becomes more obvious with the partitioning getting thinner. Based on this, the problem of stabilization via the so-called parallel distributed compensation scheme is also solved. Both the stability and stabilization results are further extended to time-delay fuzzy systems with time-varying parameter uncertainties. All the results are formulated in the form of linear matrix inequalities (LMIs), which can be readily solved via standard numerical software. The advantage of the results proposed in this paper lies in their reduced conservatism, as shown via detailed illustrative examples. The idea of delay partitioning is well demonstrated to be efficient for conservatism reduction and could be extended to solving other problems related to fuzzy delay systems.
Ion production rate in a boreal forest based on ion, particle and radiation measurements

In this study the ion production rates in a bo- real forest were studied based on two different methods: 1) cluster ion and particle concentration measurements, 2) external radiation and radon concentration measurements. Both methods produced reasonable estimates for ion pro- duction rates. The average ion production rate calculated from aerosol particle size distribution and air ion mobil- ity distribution measurements was 2.6 ion pairs cm 3 s 1 , and based on external radiation and radon measurements, 4.5 ion pairs cm 3 s 1 . The first method based on ion and particle measurements gave lower values for the ion produc- tion rates especially during the day. A possible reason for this is that particle measurements started only from 3 nm, so the sink of small ions during the nucleation events was un- derestimated. It may also be possible that the hygroscopic growth factors of aerosol particles were underestimated. An- other reason for the discrepancy is the nucleation mechanism itself. If the ions are somehow present in the nucleation pro- cess, there could have been an additional ion sink during the nucleation days.
Intrinsic Bubbles: The Case of Stock Prices: Comment

Some recent empirical evidence suggests that stock prices are not properly modelled as the present discounted value of expected dividends and that empirical models incorporating nonlinear bubble components better fit the data. In this paper we show that the nonlinearity in the relationship between prices and dividends may arise from how managers choose dividend payout. In particular, we propose a model of managed dividends which can explain observed long-term trends in stock prices. This model of managed dividends is shown to be observationally equivalent to the popular intrinsic bubbles model.
Pore Mutations of the Escherichia coli MscS Channel Affect Desensitization but Not Ionic Preference

Mechanosensitive channels rescue bacterial cells from a fate of lysis when they transfer from a high- to low-osmolarity environment. Of three Escherichia coli mechanosensitive proteins studied to date, only MscS-Ec demonstrates a small anionic preference and a desensitized, nonconducting state under sustained pressure. Little is known about the mechanisms generating these distinctive properties. Eliminating the sole positive charge in the MscS-Ec pore region (Arg88) did not alter anionic preference. Adding positive charges at either end of the pore did not augment anionic preference, and placing negative charges within the pore did not diminish it. Thus, pore charges do not control this characteristic. However, from this analysis we identified mutations in the hinge region of the MscS-Ec pore helix (at Gly113) that profoundly affected ability of the channel to desensitize. Substitution with nonpolar (Ala, Pro) or polar (Asp, Arg, Ser) residues inhibited transition to the desensitized state. Interestingly, Gly113 replaced with Met did not impede desensitization. Thus, although Gly is not specifically required at position 113, MscS desensitization is strongly influenced by the residue situated here. Mutations at residues further into the pore also regulated desensitization. Transition to this unique mechanosensitive channel state is discussed in terms of existing data.
Rigorous Asymptotics For The Elecric Field In TM Mode At Mid-Frequency In A Bidimensional Medium With Thin Layer

Consider an ambient medium and a heterogeneous entity composed of a bidimensional material surrounded by a thin membrane. The electromagnetic constants of these materials are different. By analogy with biological cells, we call this entity a cell. We study the asymptotic behavior of the electric field in the transverse magnetic (TM) mode, when the thickness of the membrane tends to zero. The membrane is of thickness of hf(s) , with s a curvilinear coordinate. We provide a rigorous derivation of the first two terms of the asymptotic expansion for h tending to zero. In the membrane, these terms are given explicitly in local coordinates in terms of the boundary data and of the function f , while outside the membrane they are the solutions of a scalar Helmholtz equation with appropriate boundary and transmissions conditions given explicitly in terms of the boundary data and of the above function f . We prove that the remainder terms are of order O(h 3/2 ) . In addition, if the complex dielectric permittivity in the membrane, denoted by z m , tends to zero faster than h , we give the difference between the exact solution and the above asymptotic with z m =0 ; it is of order O(h 3/2 +|z m |) .
Topological complexity of motion planning and Massey products

We employ Massey products to find sharper lower bounds for the Schwarz genus of a fibration than those previously known. In particular we give examples of non-formal spaces $X$ for which the topological complexity $\TC(X)$ (defined to be the genus of the free path fibration on $X$) is greater than the zero-divisors cup-length plus one.
Impact of GOLD groups of chronic pulmonary obstructive disease on surgical complications

Purpose Chronic obstructive pulmonary disease (COPD) is associated with increased postoperative complications. Recently, the Global Initiative for Chronic Obstructive Lung Disease (GOLD) classified COPD patients into four groups based on spirometry results and the severity of symptoms. The objective of this study was to evaluate the impact of GOLD groups on postoperative complications. Patients and methods We reviewed the medical records of COPD patients who underwent preoperative spirometry between April and August 2013 at a tertiary hospital in Korea. We divided the patients into GOLD groups according to the results of spirometry and self-administered questionnaires that assessed the symptom severity and exacerbation history. GOLD groups, demographic characteristics, and operative conditions were analyzed. Results Among a total of 405 COPD patients, 70 (17.3%) patients experienced various postoperative complications, including infection, wound, or pulmonary complications. Thoracic surgery, upper abdominal surgery, general anesthesia, large estimated blood loss during surgery, and longer anesthesia time were significant risk factors for postoperative complications. Patients in high-risk group (GOLD groups C or D) had an increased risk of postoperative complications compared to those in low-risk group (GOLD groups A or B). Conclusion COPD patients in GOLD groups representing a high exacerbation risk have an increased risk of postoperative complications compared to those with low risk.
Introducing Science to the Psychology of the Soul

Humans live out their lives knowing that their own death is inevitable; that their most cherished beliefs and values, and even their own identities, are uncertain; that they face a bewildering array of choices; and that their private subjective experiences can never be shared with another human being. This knowledge creates five major existential concerns: death, isolation, identity, freedom, and meaning. The role of these concerns in human affairs has traditionally been the purview of philosophy. However, recent methodological and conceptual advances have led to the emergence of an experimental existential psychology directed toward empirically investigating the roles that these concerns play in psychological functioning. This new domain of psychological science has revealed the pervasive influence of deep existential concerns on diverse aspects of human thought and behavior.