Miracle-dz/UniFAR-FTUs huggingface dataset:
A Unifying Hierarchy of Valuations with Complements and Substitutes

We introduce a new hierarchy over monotone set functions, that we refer to as MPH (Maximum over Positive Hypergraphs). Levels of the hierarchy correspond to the degree of complementarity in a given function. The highest level of the hierarchy, MPH-m (where m is the total number of items) captures all monotone functions. The lowest level, MPH-1, captures all monotone submodular functions, and more generally, the class of functions known as XOS. Every monotone function that has a positive hypergraph representation of rank k (in the sense defined by Abraham, Babaioff, Dughmi and Roughgarden [EC 2012]) is in MPH-k. Every monotone function that has supermodular degree k (in the sense defined by Feige and Izsak [ITCS 2013]) is in MPH-(k+1). In both cases, the converse direction does not hold, even in an approximate sense. We present additional results that demonstrate the expressiveness power of MPH-k.One can obtain good approximation ratios for some natural optimization problems, provided that functions are required to lie in low levels of the MPH hierarchy. We present two such applications. One shows that the maximum welfare problem can be approximated within a ratio of k+1 if all players hold valuation functions in MPH-k. The other is an upper bound of 2k on the price of anarchy of simultaneous first price auctions.
Distributed Compressed Sampling Architecture for Maximum Likelihood Signal Detection

Cognitive radios are a new technology introduced to resolve the spectrum scarcity problemby superimposing new services in the already allocated bands under a non-interference constraint.It has been recently demonstrated that the challenging implementation of the signal detectors canbe facilitated by using the theory of compressive sampling. In this paper, we consider a distributednetwork of secondary nodes that cooperate to detect the primary signals. Each secondary nodesamples the signal periodically at a rate much smaller than the Nyquist rate. The delays inherentto the propagation channel are used to implement a periodic non-uniform sampling detector whenthe secondary nodes combine their observations. We demonstrate that the proposed detector canefficiently detect the primary user signal, even under fading channels.
Effect of golimumab and pamidronate on clinical efficacy and MRI inflammation in axial spondyloarthritis: a 48-week open randomized trial

Objectives: To compare the effect of golimumab (GLM) and pamidronate (PAM) on clinical efficacy and magnetic resonance imaging (MRI) inflammation in axial spondyloarthritis (aSpA). Method: Patients who fulfilled the Assessment of SpondyloArthritis Society (ASAS) criteria for aSpA and had active disease [Bath Ankylosing Spondylitis Disease Activity Index (BASDAI) score ≥ 4] were randomized in a 2:1 ratio to receive either GLM (50 mg) or PAM (60 mg) 4 weekly for 48 weeks. Clinical efficacy was assessed at intervals. Inflammation of the spine and sacroiliac joints (SIJs) on MRI was graded by the Spondyloarthritis Research Consortium of Canada (SPARCC) scoring system. Results: Twenty patients were assigned to GLM and 10 to PAM (83% men; age 33.4 ± 10.9 years; disease duration 4.4 ± 3.4 years). The baseline characteristics of the two groups were similar. At week 48, the proportions of patients who achieved an ASAS20 response were not significantly different between the GLM and PAM groups (65% vs. 56%; p = 0.69). Although there were no differences in BASDAI, spinal pain, and Medical Outcomes Study 36-item Short Form Health Survey (SF-36) scores between the two groups at week 48, the Ankylosing Spondylitis Disease Activity Score (ASDAS), Bath AS Functional Index (BASFI), C-reactive protein (CRP) and erythrocyte sedimentation rate (ESR) levels were significantly lower in GLM-treated patients. The SPARCC scores of the spine and SIJs decreased significantly in GLM- but not in PAM-treated patients. The differences in SPARCC scores between the two groups at week 48 were statistically significant. The frequency of adverse events (AEs) was similar in both arms. Conclusions: In patients with aSpA, the clinical response rate and improvement in pain and quality of life (QoL) were similar between GLM and PAM groups after 48 weeks. However, significant reduction in inflammatory markers and MRI inflammation was only observed with GLM treatment.
Sex Determination and Sex Chromosome Evolution: Insights from Medaka

Among fish that exhibit a variety of sex-determining systems, medaka (Oryzias latipes) has been used as an ideal model to study sex determination and differentiation. Medaka sex differentiation starts with germ cell migration and proliferation during development, and the earliest sexual difference can be seen in germ cell number at stage 38 (1 day before hatching). Differentiation continues in young larvae. Medaka has an XX-XY genetic system, and the male sex-determining gene dmrt1bY (dmy) has been identified. Along with a sister species O. curvinotus, these species are the only 2 fish species whose sex-determining gene has been identified so far. The medaka sex chromosome is of recent origin, and the Y chromosome was formed through generation of the Y-specific region by duplication and insertion of an autosomal region into the proto-Y chromosome. Thus, the dmrt1bY gene is a duplicate of the autosomal dmrt1a gene. This event is estimated to have occurred about 10 million years ago. Sex-determining systems of other Oryzias species are under investigation, and a variety of sex-determining systems seem to exist. These findings may provide new insights into the sex-determining system of medaka.
Evidence for evolutionary change associated with the recent range expansion of the British butterfly, Aricia agestis, in response to climate change

Poleward range expansions are widespread responses to recent climate change and are crucial for the future persistence of many species. However, evolutionary change in traits such as colonization history and habitat preference may also be necessary to track environmental change across a fragmented landscape. Understanding the likelihood and speed of such adaptive change is important in determining the rate of species extinction with ongoing climate change. We conducted an amplified fragment length polymorphism (AFLP)‐based genome scan across the recently expanded UK range of the Brown Argus butterfly, Aricia agestis, and used outlier‐based (DFDIST and BayeScan) and association‐based (Isolation‐By‐Adaptation) statistical approaches to identify signatures of evolutionary change associated with range expansion and habitat use. We present evidence for (i) limited effects of range expansion on population genetic structure and (ii) strong signatures of selection at approximately 5% AFLP loci associated with both the poleward range expansion of A. agestis and differences in habitat use across long‐established and recently colonized sites. Patterns of allele frequency variation at these candidate loci suggest that adaptation to new habitats at the range margin has involved selection on genetic variation in habitat use found across the long‐established part of the range. Our results suggest that evolutionary change is likely to affect species’ responses to climate change and that genetic variation in ecological traits across species’ distributions should be maximized to facilitate range shifts across a fragmented landscape, particularly in species that show strong associations with particular habitats.
On periodic behavior of malware: experiments, opportunities and challenges

We notice, in our experiments with three malware samples of Darkcomet, Andromeda, and Zeus, that all three of them generate highly periodic network traffic. In addition, while there are a few works on intrusion detection which are based on this periodic behavior of malware, the prevalence of this behavior among the malware families in the wild is unknown. In this paper, we conduct an extensive experimental study to investigate the networking behavior of 31 different malware families, which belong to two large classes of malware families commonly found in the wild: Remote Administration Tools and Botnet Trojans. We would like to address the question that how likely a malware captured in the wild would generate periodic traffic. The study finds out that 30 out of 31 (96.77%) experimented malware families are found to leave periodic traces in network traffic when they communicate with command and control servers.
Hierarchical density-based clustering of uncertain data

The hierarchical density-based clustering algorithm OPTICS has proven to help the user to get an overview over large data sets. When using OPTICS for analyzing uncertain data which naturally occur in many emerging application areas, e.g. location based services, or sensor databases, the similarity between uncertain objects has to be expressed by one numerical distance value. Based on such single-valued distance functions OPTICS, like other standard data mining algorithms, can work without any changes. In this paper, we propose to express the similarity between two fuzzy objects by distance probability functions which assign a probability value to each possible distance value. Contrary to the traditional approach, we do not extract aggregated values from the fuzzy distance functions but enhance OPTICS so that it can exploit the full information provided by these functions. The resulting algorithm FOPTICS helps the user to get an overview over a large set of fuzzy objects.
Perceived impact of terrorism and the role of the media: representations by Italian citizens differing in political orientation and need for closure

Terrorism has been increasingly viewed as a complex phenomenon imbued with political objectives and media interests. From this perspective, it is crucial to understand how terrorism is socially represented and the role the media plays in creating and molding its image. Using four scales, this study explores the following issues as they relate to normal populations who have no link to terrorism: (1) Terrorist Definitions; (2) Attitudes, Beliefs and Experiences of Terrorism; (3) Immediate Impact of Terrorism; and (4) perceived positive or negative role of the media. Moreover, the study analyzes the role of political orientation and the need for cognitive closure (NFC) in shaping one's representations of terrorism. The sample consists of 409 Italian respondents. Four analyses of main components were conducted. Subsequently, a second-order factor analysis of all four scales generated a three-factor solution that accounts for 51% of the variance. Finally, a correlational analysis of political orientation, NFC, and representations of terrorists and terrorism was performed. Results suggest that more conservative participants, who exhibited a higher NFC, view terrorists as psychologically deviant and criminal. By contrast, left-wing participants, with a lower NFC, view terrorism as a complex phenomenon linked to politics of fear and discrimination. These participants view the media as having a negative role relating to the perpetuation of terrorism.
Characters of the leaf and stem morpho-anatomy of Alternanthera brasiliana ( L . ) O . Kuntze , Amaranthaceae

Alternanthera brasiliana (L.) O. Kuntze, Amaranthaceae is a Brazilian perennial herb employed as analgesic and antiinflammatory in the traditional medicine. This work has analysed the morpho-anatomy of the leaf and stem, in order to supply knowledge to the medicinal plant identification. The botanical material was fixed, freehand sectioned and stained according to usual microtechniques. The leaves are simple, entire, decussate, oval-lanceolate and purple, presenting uniseriate epidermis, pluricellular non-glandular trichomes coated by papillose cuticle, anomocytic and diacytic stomata on both surfaces; the mesophyll is dorsiventral, with collateral vascular bundles and druses. The stem, in secondary growth, has the dermal system similar to the leaf; the angular collenchyma alternates with the chlorenchyma; it occurs druses and a cambial variant, consisting of concentrical arcs of extra-cambia outside the first cambium and aligned vascular bundles in the pith. *Correspondence:
The Physical and Psychological Measurement of Gambling Environments

This research examined the influence of the physical design of gambling venues on emotion. Two competing casino designs were identified. According to Kranes's playground model, casinos should include environmental elements designed to induce pleasure, legibility, and restoration. In contrast, Friedman proposed a set of design principles focusing on the machines as the dominant feature of the décor. Three exemplars of each design were identified. Measures of emotional reactions to the casinos were collected from 22 people who had gambled in all six casinos. Kranes-type casinos yielded significantly higher ratings than did Friedman-type casinos on pleasure and restoration (relief from environmental stress). Future research should focus on design variations that can be built into a Friedman-type setting to enhance restoration.
Bacterial 'cosmopolitanism' and importance of local environmental factors for community composition in remote high-altitude lakes.

In October 2004, plankton samples were collected from six permanent lakes located between 4960 and 5440 m a.s. l. in the Mount Everest region (Nepal) to assess how spatial and local environmental factors affect natural bacterial community composition. Fingerprinting analysis of the bacterial 16S rRNA gene fragment was done by denaturing gradient gel electrophoresis (DGGE). The number of DGGE bands (range: 12-23) was not correlated with lake area or remoteness, but there was a strong negative correlation with the ratio of catchment to lake area (r = -0.826, P < 0.05), suggesting that hydraulic retention time affects the establishment of the bacterial community in these seepage lakes.Most dominant sequences belonged to Betaproteobacteria except in two lakes where members of Bacteroidetes made the largest relative contribution. Up to 81% of the phylotypes had high similarity (>98 to 100%) in partial 16S rRNA gene sequence to those reported from other alpine lakes and glaciers around the world, suggesting the presence of 'cosmopolitan' bacteria.An analysis based on dissimilarity matrices and the Mantel test revealed the existence of dissimilarities in bacterial community composition related to geographical distance over a small spatial scale (<6 km), but determined by local environmental constraints.Our results suggest that several bacterial phylotypes are ubiquitous in the freshwater aquatic realm, but taxon sorting by local environmental constraints is important.
Structure of a herpesvirus nuclear egress complex subunit reveals an interaction groove that is essential for viral replication

Significance Human cytomegalovirus (HCMV) is an important human pathogen. Current anti-HCMV therapies suffer from toxicities, drug resistance, and/or pharmacokinetic limitations. A possible antiviral drug target is a two-subunit complex that orchestrates nuclear egress, an essential, unusual mechanism by which nucleocapsids move from the nucleus to the cytoplasm during viral replication. We solved the structure of the conserved core of one subunit of the complex, mapped the primary interaction interface with the other subunit, and tested the importance of specific residues for subunit interactions and viral replication. The combined biophysical and biological analyses presented here develop molecular understanding of nuclear egress and identify a groove that includes a large cavity on the subunit as an attractive target for yet to be identified inhibitors. Herpesviruses require a nuclear egress complex (NEC) for efficient transit of nucleocapsids from the nucleus to the cytoplasm. The NEC orchestrates multiple steps during herpesvirus nuclear egress, including disruption of nuclear lamina and particle budding through the inner nuclear membrane. In the important human pathogen human cytomegalovirus (HCMV), this complex consists of nuclear membrane protein UL50, and nucleoplasmic protein UL53, which is recruited to the nuclear membrane through its interaction with UL50. Here, we present an NMR-determined solution-state structure of the murine CMV homolog of UL50 (M50; residues 1–168) with a strikingly intricate protein fold that is matched by no other known protein folds in its entirety. Using NMR methods, we mapped the interaction of M50 with a highly conserved UL53-derived peptide, corresponding to a segment that is required for heterodimerization. The UL53 peptide binding site mapped onto an M50 surface groove, which harbors a large cavity. Point mutations of UL50 residues corresponding to surface residues in the characterized M50 heterodimerization interface substantially decreased UL50–UL53 binding in vitro, eliminated UL50–UL53 colocalization, prevented disruption of nuclear lamina, and halted productive virus replication in HCMV-infected cells. Our results provide detailed structural information on a key protein–protein interaction involved in nuclear egress and suggest that NEC subunit interactions can be an attractive drug target.
Positron emission tomography imaging of cardiomyocyte apoptosis with a novel molecule probe [18F]FP-DPAZn2

Cardiomyocyte apoptosis plays a causal role in the development and progression of heart failure. Currently, there is no effective imaging agent that can be used to detect cardiomyocyte apoptosis in vivo. To target phosphatidylserine (PS) on the surface of the dying cell, we synthesized a novel 18F-labeled Zn2+-dipicolylamine (DPA) analog, [18F]FP-DPAZn2, and evaluated it for noninvasive imaging of cardiomyocyte apoptosis. In vitro, the fluorescence imaging of dansyl-DPAZn2 was suitable for detecting cardiomyocyte apoptosis, which was confirmed by confocal immunofluorescence imaging, terminal dUTP nick-end labeling (TUNEL) assay, and western blot assay. The in vivo biodistribution showed that the uptake ratios of [18F]FP-DPAZn2 in the heart were 4.41±0.29% ID/g at 5 min, 2.40 ± 0.43% ID/g at 30 min, 1.63 ± 0.26% ID/g at 60 min, and 1.43% ± 0.07 ID/g at 120 min post-injection. In vivo, the [18F]FP-DPAZn2 PET images showed more cardiac accumulation of radioactivity 60 min post-injection in acute myocardial infarction (AMI) rats than in normal rats, which was consistent with the findings of a histological analysis of the rat cardiac tissues in vitro. [18F]FP-DPAZn2 PET imaging has the capability for myocardial apoptosis detection, but the method will require improved myocardial uptake for the noninvasive evaluation of cardiomyocyte apoptosis in clinical settings.
Worst-Case Complexity Bounds on Algorithms for Computing the Canonical Structure of Finite Abelian Groups and the Hermite and Smith Normal Forms of an Integer Matrix

An $O(s^5 M(s^2 ))$ algorithm for computing the canonical structure of a finite Abelian group represented by an integer matrix of size s (this is the Smith normal form of the matrix) is presented. Moreover, an $O(s^3 M(s^2 ))$ algorithm for computing the Hermite normal form of an integer matrix of size s is given.The upper bounds derived on the computational complexity of the algorithms above improve the upper bounds given by Kannan and Bachem in [SIAM J. Comput. , 8 (1979), pp. 499–507] and Chou and Collins in [SIAM J. Comput. , 11 (1982), pp. 687–708].
The use of varenicline to treat nicotine dependence among patients with cancer

Continuing to smoke after a cancer diagnosis can adversely influence the prognosis for patients with cancer. However, remarkably few studies have carefully examined the use of first‐line FDA‐approved medications for nicotine dependence in patients with cancer. This study evaluated the feasibility, safety, and effect on cessation of varenicline for smoking cessation in patients with cancer.
Concomitant Duplications of Opioid Peptide and Receptor Genes before the Origin of Jawed Vertebrates

BACKGROUND The opioid system is involved in reward and pain mechanisms and consists in mammals of four receptors and several peptides. The peptides are derived from four prepropeptide genes, PENK, PDYN, PNOC and POMC, encoding enkephalins, dynorphins, orphanin/nociceptin and beta-endorphin, respectively. Previously we have described how two rounds of genome doubling (2R) before the origin of jawed vertebrates formed the receptor family. METHODOLOGY/PRINCIPAL FINDINGS Opioid peptide gene family members were investigated using a combination of sequence-based phylogeny and chromosomal locations of the peptide genes in various vertebrates. Several adjacent gene families were investigated similarly. The results show that the ancestral peptide gene gave rise to two additional copies in the genome doublings. The fourth member was generated by a local gene duplication, as the genes encoding POMC and PNOC are located on the same chromosome in the chicken genome and all three teleost genomes that we have studied. A translocation has disrupted this synteny in mammals. The PDYN gene seems to have been lost in chicken, but not in zebra finch. Duplicates of some peptide genes have arisen in the teleost fishes. Within the prepropeptide precursors, peptides have been lost or gained in different lineages. CONCLUSIONS/SIGNIFICANCE The ancestral peptide and receptor genes were located on the same chromosome and were thus duplicated concomitantly. However, subsequently genetic linkage has been lost. In conclusion, the system of opioid peptides and receptors was largely formed by the genome doublings that took place early in vertebrate evolution.
Functional Evaluation of Proteins in Watery and Gel Saliva of Aphids

Gel and watery saliva are regarded as key players in aphid–pIant interactions. The salivary composition seems to be influenced by the variable environment encountered by the stylet tip. Milieu sensing has been postulated to provide information needed for proper stylet navigation and for the required switches between gel and watery saliva secretion during stylet progress. Both the chemical and physical factors involved in sensing of the stylet’s environment are discussed. To investigate the salivary proteome, proteins were collected from dissected gland extracts or artificial diets in a range of studies. We discuss the advantages and disadvantages of either collection method. Several proteins were identified by functional assays or by use of proteomic tools, while most of their functions still remain unknown. These studies disclosed the presence of at least two proteins carrying numerous sulfhydryl groups that may act as the structural backbone of the salivary sheath. Furthermore, cell-wall degrading proteins such a pectinases, pectin methylesterases, polygalacturonases, and cellulases as well as diverse Ca2+-binding proteins (e.g., regucalcin, ARMET proteins) were detected. Suppression of the plant defense may be a common goal of salivary proteins. Salivary proteases are likely involved in the breakdown of sieve-element proteins to invalidate plant defense or to increase the availability of organic N compounds. Salivary polyphenoloxidases, peroxidases and oxidoreductases were suggested to detoxify, e.g., plant phenols. During the last years, an increasing number of salivary proteins have been categorized under the term ‘effector’. Effectors may act in the suppression (C002 or MIF cytokine) or the induction (e.g., Mp10 or Mp 42) of plant defense, respectively. A remarkable component of watery saliva seems the protein GroEL that originates from Buchnera aphidicola, the obligate symbiont of aphids and probably reflects an excretory product that induces plant defense responses. Furthermore, chitin fragments in the saliva may trigger defense reactions (e.g., callose deposition). The functions of identified proteins and protein classes are discussed with regard to physical and chemical characteristics of apoplasmic and symplasmic plant compartments.