Miracle-dz/UniFAR-FTUs huggingface dataset:
Lymphoma cell‐of–origin assignment by gene expression profiling is clinically meaningful across broad laboratory contexts

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Squidpops: A Simple Tool to Crowdsource a Global Map of Marine Predation Intensity

We present a simple, standardized assay, the squidpop, for measuring the relative feeding intensity of generalist predators in aquatic systems. The assay consists of a 1.3-cm diameter disk of dried squid mantle tethered to a rod, which is either inserted in the sediment in soft-bottom habitats or secured to existing structure. Each replicate squidpop is scored as present or absent after 1 and 24 hours, and the data for analysis are proportions of replicate units consumed at each time. Tests in several habitats of the temperate southeastern USA (Virginia and North Carolina) and tropical Central America (Belize) confirmed the assay’s utility for measuring variation in predation intensity among habitats, among seasons, and along environmental gradients. In Belize, predation intensity varied strongly among habitats, with reef > seagrass = mangrove > unvegetated bare sand. Quantitative visual surveys confirmed that assayed feeding intensity increased with abundance and species richness of fishes across sites, with fish abundance and richness explaining up to 45% and 70% of the variation in bait loss respectively. In the southeastern USA, predation intensity varied seasonally, being highest during summer and declining in late autumn. Deployments in marsh habitats generally revealed a decline in mean predation intensity from fully marine to tidal freshwater sites. The simplicity, economy, and standardization of the squidpop assay should facilitate engagement of scientists and citizens alike, with the goal of constructing high-resolution maps of how top-down control varies through space and time in aquatic ecosystems, and addressing a broad array of long-standing hypotheses in macro- and community ecology.
Very Low Population Structure in a Highly Mobile and Wide-Ranging Endangered Bird Species

The loss of biodiversity following fragmentation and degradation of habitat is a major issue in conservation biology. As competition for resources increases following habitat loss and fragmentation, severe population declines may occur even in common, highly mobile species; such demographic decline may cause changes within the population structure of the species. The regent honeyeater, Anthochaera phrygia, is a highly nomadic woodland bird once common in its native southeast Australia. It has experienced a sharp decline in abundance since the late 1970s, following clearing of large areas of its preferred habitat, box-ironbark woodland, within the last 200 years. A captive breeding program has been established as part of efforts to restore this species. This study used genetic data to examine the range-wide population structure of regent honeyeaters, including spatial structure, its change through time, sex differences in philopatry and mobility, and genetic differences between the captive and wild populations. There was low genetic differentiation between birds captured in different geographic areas. Despite the recent demographic decline, low spatial structure appears to have some temporal consistency. Both sexes appear to be highly mobile, and there does not seem to be significant genetic differentiation between the captive and wild populations. We conclude that management efforts for survival of this species, including habitat protection, restoration, and release of captive-bred birds into the wild, can treat the species as effectively a single genetic population.
Molecular Biomarkers of Primary and Acquired Resistance to T-Cell-Mediated Immunotherapy in Cancer: Landscape, Clinical Implications, and Future Directions.

The emergence of immunotherapy has revolutionized cancer treatment in recent years. Inhibitors of immune checkpoints, including antibodies against cytotoxic T-lymphocyte-associated protein 4, programmed cell death protein 1, and programmed death ligand 1, have demonstrated notable efficacy in certain advanced cancers. Unfortunately, many patients do not benefit from these therapies and either exhibit primary resistance to treatment or develop acquired mechanisms of resistance after initially responding to therapy. Here, we review the genomic and immune traits that may promote resistance to T-cell-mediated immunotherapy, with a focus on identifying potential biomarkers that could eventually be used in the clinical setting to guide treatment selection. We summarize the clinical evidence for these markers and discuss how current understanding of resistance mechanisms can inform future studies and aid clinical decision-making in order to derive maximum benefit from immunotherapy. IMPLICATIONS FOR PRACTICE Immunotherapy has rapidly progressed as a treatment modality for multiple cancers, but it is still unclear which patients are likely to benefit from these therapies. Studies of resistance mechanisms have only recently started to identify biomarkers that can help predict patient outcomes. This review summarizes the available clinical data in regard to immunotherapy resistance, with a focus on molecular biomarkers that may be useful in guiding clinical decision-making. It discusses possible applications of these biomarkers and highlights opportunities for further clinical discovery.
Urban Power Line Corridors as Novel Habitats for Grassland and Alien Plant Species in South-Western Finland

Regularly managed electric power line corridors may provide habitats for both early-successional grassland plant species and disturbance-dependent alien plant species. These habitats are especially important in urban areas, where they can help conserve native grassland species and communities in urban greenspace. However, they can also provide further footholds for potentially invasive alien species that already characterize urban areas. In order to implement power line corridors into urban conservation, it is important to understand which environmental conditions in the corridors favor grassland species and which alien species. Likewise it is important to know whether similar environmental factors in the corridors control the species composition of the two groups. We conducted a vegetation study in a 43 kilometer long urban power line corridor network in south-western Finland, and used generalized linear models and distance-based redundancy analysis to determine which environmental factors best predict the occurrence and composition of grassland and alien plant species in the corridors. The results imply that old corridors on dry soils and steep slopes characterized by a history as open areas and pastures are especially suitable for grassland species. Corridors suitable for alien species, in turn, are characterized by productive soils and abundant light and are surrounded by a dense urban fabric. Factors controlling species composition in the two groups are somewhat correlated, with the most important factors including light abundance, soil moisture, soil calcium concentration and soil productivity. The results have implications for grassland conservation and invasive alien species control in urban areas.
Free Market of Crowdsourcing: Incentive Mechanism Design for Mobile Sensing

Off-the-shelf smartphones have boosted large scale participatory sensing applications as they are equipped with various functional sensors, possess powerful computation and communication capabilities, and proliferate at a breathtaking pace. Yet the low participation level of smartphone users due to various resource consumptions, such as time and power, remains a hurdle that prevents the enjoyment brought by sensing applications. Recently, some researchers have done pioneer works in motivating users to contribute their resources by designing incentive mechanisms, which are able to provide certain rewards for participation. However, none of these works considered smartphone users' nature of opportunistically occurring in the area of interest. Specifically, for a general smartphone sensing application, the platform would distribute tasks to each user on her arrival and has to make an immediate decision according to the user's reply. To accommodate this general setting, we design three online incentive mechanisms, named TBA, TOIM and TOIMAD, based on online reverse auction. TBA is designed to pursue platform utility maximization, while TOIM and TOIM-AD achieve the crucial property of truthfulness. All mechanisms possess the desired properties of computational efficiency, individual rationality, and profitability. Besides, they are highly competitive compared to the optimal offline solution. The extensive simulation results reveal the impact of the key parameters and show good approximation to the state-of-the-art offline mechanism.
Growth Simulation and Discrimination of Botrytis cinerea, Rhizopus stolonifer and Colletotrichum acutatum Using Hyperspectral Reflectance Imaging

This research aimed to develop a rapid and nondestructive method to model the growth and discrimination of spoilage fungi, like Botrytis cinerea, Rhizopus stolonifer and Colletotrichum acutatum, based on hyperspectral imaging system (HIS). A hyperspectral imaging system was used to measure the spectral response of fungi inoculated on potato dextrose agar plates and stored at 28°C and 85% RH. The fungi were analyzed every 12 h over two days during growth, and optimal simulation models were built based on HIS parameters. The results showed that the coefficients of determination (R2) of simulation models for testing datasets were 0.7223 to 0.9914, and the sum square error (SSE) and root mean square error (RMSE) were in a range of 2.03–53.40×10−4 and 0.011–0.756, respectively. The correlation coefficients between the HIS parameters and colony forming units of fungi were high from 0.887 to 0.957. In addition, fungi species was discriminated by partial least squares discrimination analysis (PLSDA), with the classification accuracy of 97.5% for the test dataset at 36 h. The application of this method in real food has been addressed through the analysis of Botrytis cinerea, Rhizopus stolonifer and Colletotrichum acutatum inoculated in peaches, demonstrating that the HIS technique was effective for simulation of fungal infection in real food. This paper supplied a new technique and useful information for further study into modeling the growth of fungi and detecting fruit spoilage caused by fungi based on HIS.
Working Memory, Reasoning, and Task Switching Training: Transfer Effects, Limitations, and Great Expectations?

Although some studies have shown that cognitive training can produce improvements to untrained cognitive domains (far transfer), many others fail to show these effects, especially when it comes to improving fluid intelligence. The current study was designed to overcome several limitations of previous training studies by incorporating training expectancy assessments, an active control group, and “Mind Frontiers,” a video game-based mobile program comprised of six adaptive, cognitively demanding training tasks that have been found to lead to increased scores in fluid intelligence (Gf) tests. We hypothesize that such integrated training may lead to broad improvements in cognitive abilities by targeting aspects of working memory, executive function, reasoning, and problem solving. Ninety participants completed 20 hour-and-a-half long training sessions over four to five weeks, 45 of whom played Mind Frontiers and 45 of whom completed visual search and change detection tasks (active control). After training, the Mind Frontiers group improved in working memory n-back tests, a composite measure of perceptual speed, and a composite measure of reaction time in reasoning tests. No training-related improvements were found in reasoning accuracy or other working memory tests, nor in composite measures of episodic memory, selective attention, divided attention, and multi-tasking. Perceived self-improvement in the tested abilities did not differ between groups. A general expectancy difference in problem-solving was observed between groups, but this perceived benefit did not correlate with training-related improvement. In summary, although these findings provide modest evidence regarding the efficacy of an integrated cognitive training program, more research is needed to determine the utility of Mind Frontiers as a cognitive training tool.
Interactions between Canopy Structure and Herbaceous Biomass along Environmental Gradients in Moist Forest and Dry Miombo Woodland of Tanzania

We have limited understanding of how tropical canopy foliage varies along environmental gradients, and how this may in turn affect forest processes and functions. Here, we analyse the relationships between canopy leaf area index (LAI) and above ground herbaceous biomass (AGBH) along environmental gradients in a moist forest and miombo woodland in Tanzania. We recorded canopy structure and herbaceous biomass in 100 permanent vegetation plots (20 m × 40 m), stratified by elevation. We quantified tree species richness, evenness, Shannon diversity and predominant height as measures of structural variability, and disturbance (tree stumps), soil nutrients and elevation as indicators of environmental variability. Moist forest and miombo woodland differed substantially with respect to nearly all variables tested. Both structural and environmental variables were found to affect LAI and AGBH, the latter being additionally dependent on LAI in moist forest but not in miombo, where other factors are limiting. Combining structural and environmental predictors yielded the most powerful models. In moist forest, they explained 76% and 25% of deviance in LAI and AGBH, respectively. In miombo woodland, they explained 82% and 45% of deviance in LAI and AGBH. In moist forest, LAI increased non-linearly with predominant height and linearly with tree richness, and decreased with soil nitrogen except under high disturbance. Miombo woodland LAI increased linearly with stem density, soil phosphorous and nitrogen, and decreased linearly with tree species evenness. AGBH in moist forest decreased with LAI at lower elevations whilst increasing slightly at higher elevations. AGBH in miombo woodland increased linearly with soil nitrogen and soil pH. Overall, moist forest plots had denser canopies and lower AGBH compared with miombo plots. Further field studies are encouraged, to disentangle the direct influence of LAI on AGBH from complex interrelationships between stand structure, environmental gradients and disturbance in African forests and woodlands.
When does relational information influence evaluative conditioning?

Building on the intriguing findings of Peters and Gawronski (2011, Experiment 3), we examined the conditions under which relational information (i.e., information about how two stimuli are related) moderates evaluative conditioning (EC; i.e., the effect of stimulus pairing on liking). In Experiment 1, participants saw stimulus pairs that consisted of a novel nonword (conditioned stimulus; CS) and a known positive or negative word (unconditioned stimulus; US). Before or after the pairings, participants were told that the nonword had the opposite meaning to the word with which it was paired. Subsequent measures of the implicit evaluation of the nonwords revealed that nonwords paired with positive words were liked less than nonwords paired with negative words, but only when the relational information was presented before the CS–US pairings. In a second experiment, participants were first informed that the CS and US of each pair were related in one way (e.g., that they have the same meaning). Afterwards, this information was either confirmed (e.g., that they indeed have the same meaning) or reversed (e.g., that they actually have an opposite meaning). Whereas the first relational information had more impact on implicit evaluations than on explicit evaluations, the reverse was true for the second relational information. Moreover, informing participants that CS and US were equivalent produced the same effects as pairing CS and US without providing explicit relational information, thus suggesting that the mere co-occurrence of CS and US is treated as a cue for equivalence of CS and US. Implications for mental process models of EC are discussed.
Straight but Not Narrow; Within-Gender Variation in the Gender-Specificity of Women’s Sexual Response

Gender differences in the specificity of sexual response have been a primary focus in sexual psychophysiology research, however, within-gender variability suggests sexual orientation moderates category-specific responding among women; only heterosexual women show gender-nonspecific genital responses to sexual stimuli depicting men and women. But heterosexually-identified or “straight” women are heterogeneous in their sexual attractions and include women who are exclusively androphilic (sexually attracted to men) and women who are predominantly androphilic with concurrent gynephilia (sexually attracted to women). It is therefore unclear if gender-nonspecific responding is found in both exclusively and predominantly androphilic women. The current studies investigated within-gender variability in the gender-specificity of women’s sexual response. Two samples of women reporting concurrent andro/gynephilia viewed (Study 1, n = 29) or listened (Study 2, n = 30) to erotic stimuli varying by gender of sexual partner depicted while their genital and subjective sexual responses were assessed. Data were combined with larger datasets of predominantly gyne- and androphilic women (total N = 78 for both studies). In both studies, women reporting any degree of gynephilia, including those who self-identified as heterosexual, showed significantly greater genital response to female stimuli, similar to predominantly gynephilic women; gender-nonspecific genital response was observed for exclusively androphilic women only. Subjective sexual arousal patterns were more variable with respect to sexual attractions, likely reflecting stimulus intensity effects. Heterosexually-identified women are therefore not a homogenous group with respect to sexual responses to gender cues. Implications for within-gender variation in women’s sexual orientation and sexual responses are discussed.
Generating whole body motions for a biped humanoid robot from captured human dances

The goal of this study is a system for a robot to imitate human dances. This paper describes the process to generate whole body motions which can be performed by an actual biped humanoid robot. Human dance motions are acquired through a motion capturing system. We then extract symbolic representation which is made up of primitive motions: essential postures in arm motions and step primitives in leg motions. A joint angle sequence of the robot is generated according to these primitive motions. Then joint angles are modified to satisfy mechanical constraints of the robot. For balance control, the waist trajectory is moved to acquire dynamics consistency based on desired ZMP. The generated motion is tested on OpenHRP dynamics simulator. In our test, the Japanese folk dance, 'Jongara-bushi', was successfully performed by HRP-1S.
Dynamic programming‐based pico base station sleep mode control in heterogeneous networks

In this paper, a sleeping mode control for low power wireless node, that is, pico base station (PBS) in heterogeneous networks, is proposed to save energy cost with adaptation to the time‐varying traffic load. By formulating the sleep mode control problem into the framework of a standard 0/1 knapsack problem, then a dynamic programming scheme for solving the sleeping on/off mode for PBS in heterogeneous networks was investigated. The complexity of the proposed scheme is only in linear order instead of exponential complexity with conventional scheme. Furthermore, the proposed algorithm is verified in dynamic traffic environment, which consists of two kinds of hot‐spot area covered by PBSs. The simulation results show that the proposed scheme can effectively save the system energy consumption during the period of low traffic load. Copyright © 2015 John Wiley & Sons, Ltd.
Quantum interference channels

The discrete memoryless interference channel is modelled as a conditional probability distribution with two outputs depending on two inputs and has widespread applications in practical communication scenarios. In this paper, we introduce and study the quantum interference channel, a generalization of a two-input, two-output memoryless channel to the setting of quantum Shannon theory. We discuss three different coding strategies and obtain corresponding achievable rate regions for quantum interference channels. We calculate the capacity regions in the special cases of “very strong” and “strong” interference. The achievability proof in the case of “strong” interference exploits a novel quantum simultaneous decoder for two-sender quantum multiple access channels. We formulate a conjecture regarding the existence of a quantum simultaneous decoder in the three-sender case and use it to state the rates achievable by a quantum Han-Kobayashi strategy.