dyfan/halluhard-seed-questions huggingface dataset:
Neutron stars are not only of astrophysical interest, but are also of great interest to nuclear physicists, because their attributes can be used to determine the properties of the dense matter in their cores. One of the most informative approaches for determining the equation of state of this dense matter is to measure both a star's equatorial circumferential radius $R_e$ and its gravitational mass $M$. Here we report estimates of the mass and radius of the isolated 205.53 Hz millisecond pulsar PSR J0030+0451 obtained using a Bayesian inference approach to analyze its energy-dependent thermal X-ray waveform, which was observed using the Neutron Star Interior Composition Explorer (NICER). This approach is thought to be less subject to systematic errors than other approaches for estimating neutron star radii. We explored a variety of emission patterns on the stellar surface. Our best-fit model has three oval, uniform-temperature emitting spots and provides an excellent description of the pulse waveform observed using NICER. The radius and mass estimates given by this model are $R_e = 13.02^{+1.24}_{-1.06}$ km and $M = 1.44^{+0.15}_{-0.14}\ M_\odot$ (68%). The independent analysis reported in the companion paper by Riley et al. (2019) explores different emitting spot models, but finds spot shapes and locations and estimates of $R_e$ and $M$ that are consistent with those found in this work. We show that our measurements of $R_e$ and $M$ for PSR J0030$+$0451 improve the astrophysical constraints on the equation of state of cold, catalyzed matter above nuclear saturation density.

Research question: How do simultaneous measurements of a neutron star’s mass and radius constrain the equation of state of dense nuclear matter?
We attempt to define what is necessary to construct an Artificial Scientist, explore and evaluate several approaches to artificial general intelligence (AGI) which may facilitate this, conclude that a unified or hybrid approach is necessary and explore two theories that satisfy this requirement to some degree.

Research question: What core cognitive abilities and types of knowledge would an artificial system need to function autonomously as a scientist, including proposing hypotheses, designing experiments, and interpreting results?
Although cancer is known to be characterized by several unifying biological hallmarks, systems biology has had limited success in identifying molecular signatures present in in all types of cancer. The current availability of rich data sets from many different cancer types provides an opportunity for thorough computational data mining in search of such common patterns. Here we report the identification of 18 "pan-cancer" molecular signatures resulting from analysis of data sets containing values from mRNA expression, microRNA expression, DNA methylation, and protein activity, from twelve different cancer types. The membership of many of these signatures points to particular biological mechanisms related to cancer progression, suggesting that they represent important attributes of cancer in need of being elucidated for potential applications in diagnostic, prognostic and therapeutic products applicable to multiple cancer types.

Research question: What criteria and validation steps are used to determine whether a molecular signature is truly common across many cancer types and clinically useful for diagnosis or prognosis?
A joint measurement is presented of the branching fractions $B^0_s\toμ^+μ^-$ and $B^0\toμ^+μ^-$ in proton-proton collisions at the LHC by the CMS and LHCb experiments. The data samples were collected in 2011 at a centre-of-mass energy of 7 TeV, and in 2012 at 8 TeV. The combined analysis produces the first observation of the $B^0_s\toμ^+μ^-$ decay, with a statistical significance exceeding six standard deviations, and the best measurement of its branching fraction so far. Furthermore, evidence for the $B^0\toμ^+μ^-$ decay is obtained with a statistical significance of three standard deviations. The branching fraction measurements are statistically compatible with SM predictions and impose stringent constraints on several theories beyond the SM.

Research question: How do precise measurements of rare B meson decays to muon pairs constrain extensions of the Standard Model, and which classes of new-physics models are most strongly affected?
Recent attacks of various viruses with having deep and extensive impact at a global scale has warranted that microbiome be studied extensively and in a robust analytic framework. Microbiome typically refers to the collective genomes of such organisms, although it could also refer to the collection of the organisms by themselves. Here we provide an overview of statistical techniques that are useful in analysing such data.

Research question: What are the main statistical challenges unique to analyzing microbiome sequencing data, and what best-practice approaches are recommended to address them?
Background Precise prediction of cancer types is vital for cancer diagnosis and therapy. Important cancer marker genes can be inferred through predictive model. Several studies have attempted to build machine learning models for this task however none has taken into consideration the effects of tissue of origin that can potentially bias the identification of cancer markers. Results In this paper, we introduced several Convolutional Neural Network (CNN) models that take unstructured gene expression inputs to classify tumor and non-tumor samples into their designated cancer types or as normal. Based on different designs of gene embeddings and convolution schemes, we implemented three CNN models: 1D-CNN, 2D-Vanilla-CNN, and 2D-Hybrid-CNN. The models were trained and tested on combined 10,340 samples of 33 cancer types and 731 matched normal tissues of The Cancer Genome Atlas (TCGA). Our models achieved excellent prediction accuracies (93.9-95.0%) among 34 classes (33 cancers and normal). Furthermore, we interpreted one of the models, known as 1D-CNN model, with a guided saliency technique and identified a total of 2,090 cancer markers (108 per class). The concordance of differential expression of these markers between the cancer type they represent and others is confirmed. In breast cancer, for instance, our model identified well-known markers, such as GATA3 and ESR1. Finally, we extended the 1D-CNN model for prediction of breast cancer subtypes and achieved an average accuracy of 88.42% among 5 subtypes. The codes can be found at https://github.com/chenlabgccri/CancerTypePrediction.

Research question: How can machine learning models trained on gene expression data account for tissue-of-origin effects to avoid confounding when identifying cancer-specific biomarkers?
The multipartite non-Hermitian Su-Schrieffer-Heeger model is explored as a prototypical example of one-dimensional systems with several sublattice sites for unveiling intriguing insulating and metallic phases with no Hermitian counterparts. These phases are characterized by composite cyclic loops of multiple complex-energy bands encircling single or multiple exceptional points (EPs) on the parametric space of real and imaginary energy. We show the topology of these composite loops is similar to well-known topological objects like Möbius strips and Penrose triangles, and can be quantified by a nonadiabatic cyclic geometric phase which includes contributions only from the participating bands. We analytically derive a complete phase diagram with the phase boundaries of the model. We further examine the connection between the encircling of multiple EPs by complex-energy bands on parametric space and associated topology.

Research question: How can encircling multiple exceptional points and the resulting nonadiabatic cyclic geometric phases be detected experimentally in one-dimensional non-Hermitian systems?
A joint measurement is presented of the branching fractions $B^0_s\toμ^+μ^-$ and $B^0\toμ^+μ^-$ in proton-proton collisions at the LHC by the CMS and LHCb experiments. The data samples were collected in 2011 at a centre-of-mass energy of 7 TeV, and in 2012 at 8 TeV. The combined analysis produces the first observation of the $B^0_s\toμ^+μ^-$ decay, with a statistical significance exceeding six standard deviations, and the best measurement of its branching fraction so far. Furthermore, evidence for the $B^0\toμ^+μ^-$ decay is obtained with a statistical significance of three standard deviations. The branching fraction measurements are statistically compatible with SM predictions and impose stringent constraints on several theories beyond the SM.

Research question: How do precise measurements of the branching fractions for rare decays of neutral B mesons into muon pairs help constrain or rule out theories beyond the Standard Model?
Random Neural Networks (RNNs) are a class of Neural Networks (NNs) that can also be seen as a specific type of queuing network. They have been successfully used in several domains during the last 25 years, as queuing networks to analyze the performance of resource sharing in many engineering areas, as learning tools and in combinatorial optimization, where they are seen as neural systems, and also as models of neurological aspects of living beings. In this article we focus on their learning capabilities, and more specifically, we present a practical guide for using the RNN to solve supervised learning problems. We give a general description of these models using almost indistinctly the terminology of Queuing Theory and the neural one. We present the standard learning procedures used by RNNs, adapted from similar well-established improvements in the standard NN field. We describe in particular a set of learning algorithms covering techniques based on the use of first order and, then, of second order derivatives. We also discuss some issues related to these objects and present new perspectives about their use in supervised learning problems. The tutorial describes their most relevant applications, and also provides a large bibliography.

Research question: How do Random Neural Networks differ from conventional neural network models in their architecture and training dynamics, and in what kinds of supervised learning problems are they most advantageous to use?
We consider calculation of capital requirements when the underlying economic scenarios are determined by simulatable risk factors. In the respective nested simulation framework, the goal is to estimate portfolio tail risk, quantified via VaR or TVaR of a given collection of future economic scenarios representing factor levels at the risk horizon. Traditionally, evaluating portfolio losses of an outer scenario is done by computing a conditional expectation via inner-level Monte Carlo and is computationally expensive. We introduce several inter-related machine learning techniques to speed up this computation, in particular by properly accounting for the simulation noise. Our main workhorse is an advanced Gaussian Process (GP) regression approach which uses nonparametric spatial modeling to efficiently learn the relationship between the stochastic factors defining scenarios and corresponding portfolio value. Leveraging this emulator, we develop sequential algorithms that adaptively allocate inner simulation budgets to target the quantile region. The GP framework also yields better uncertainty quantification for the resulting VaR/TVaR estimators that reduces bias and variance compared to existing methods. We illustrate the proposed strategies with two case-studies in two and six dimensions.

Research question: How well do Gaussian Process (GP) emulators scale to high-dimensional risk-factor spaces when approximating portfolio value functions, and what practical strategies can be used to mitigate the curse of dimensionality in this setting?
A joint measurement is presented of the branching fractions $B^0_s\toμ^+μ^-$ and $B^0\toμ^+μ^-$ in proton-proton collisions at the LHC by the CMS and LHCb experiments. The data samples were collected in 2011 at a centre-of-mass energy of 7 TeV, and in 2012 at 8 TeV. The combined analysis produces the first observation of the $B^0_s\toμ^+μ^-$ decay, with a statistical significance exceeding six standard deviations, and the best measurement of its branching fraction so far. Furthermore, evidence for the $B^0\toμ^+μ^-$ decay is obtained with a statistical significance of three standard deviations. The branching fraction measurements are statistically compatible with SM predictions and impose stringent constraints on several theories beyond the SM.

Research question: How do precise measurements of the branching fractions for rare B meson decays into muon pairs constrain potential extensions of the Standard Model, and what types of new-physics scenarios are most affected by these measurements?
This work proposes a new and flexible unreliable failure detector whose output is related to the trust level of a set of processes. By expressing the relevance of each process of the set by an impact factor value, our approach allows the tuning of the detector output, making possible a softer or stricter monitoring. The idea behind our proposal is that, according to an acceptable margin of failures and the impact factor assigned to processes, in some scenarios, the failure of some low impact processes may not change the user confidence in the set of processes, while the crash of a high impact factor process may seriously affect it. We outline the application scenarios and the proposed unreliable failure detector, giving a detailed account of the concept on which it is based.

Research question: How can assigning different impact or importance values to processes be used to improve failure detection and system resilience compared to traditional binary (suspected/not suspected) failure detectors?
A joint measurement is presented of the branching fractions $B^0_s\toμ^+μ^-$ and $B^0\toμ^+μ^-$ in proton-proton collisions at the LHC by the CMS and LHCb experiments. The data samples were collected in 2011 at a centre-of-mass energy of 7 TeV, and in 2012 at 8 TeV. The combined analysis produces the first observation of the $B^0_s\toμ^+μ^-$ decay, with a statistical significance exceeding six standard deviations, and the best measurement of its branching fraction so far. Furthermore, evidence for the $B^0\toμ^+μ^-$ decay is obtained with a statistical significance of three standard deviations. The branching fraction measurements are statistically compatible with SM predictions and impose stringent constraints on several theories beyond the SM.

Research question: How do precise measurements of rare decays such as B_s^0 → μ^+μ^- constrain theories beyond the Standard Model, and which classes of new-physics models are most strongly affected by these measurements?
The availability of software which can produce convincing yet synthetic media poses both threats and benefits to tertiary education globally. While other forms of synthetic media exist, this study focuses on deepfakes, which are advanced Generative AI (GenAI) fakes of real people. This conceptual paper assesses the current literature on deepfakes across multiple disciplines by conducting an initial scoping review of 182 peer-reviewed publications.
  The review reveals three major trends: detection methods, malicious applications, and potential benefits, although no specific studies on deepfakes in the tertiary educational context were found. Following a discussion of these trends, this study applies the findings to postulate the major risks and potential mitigation strategies of deepfake technologies in higher education, as well as potential beneficial uses to aid the teaching and learning of both deepfakes and synthetic media. This culminates in the proposal of a research agenda to build a comprehensive, cross-cultural approach to investigate deepfakes in higher education.

Research question: What practical steps can universities take to both mitigate the risks of deepfakes and responsibly harness their potential benefits for teaching and learning?
The 2023-2032 Planetary Science and Astrobiology Decadal Survey Origins, Worlds, and Life recommended that "NASA develop scientific exploration strategies, as it has for Mars, in areas of broad scientific importance, e.g., Venus... that have an increasing number of U.S. missions and international collaboration opportunities" (OWL, p.22-10). In NASA's initial responses to that Decadal Survey, the agency asserted that "...specific scientific exploration strategies should be community generated by bodies such as the Analysis Groups," thus placing the onus on the planetary community to generate and support these exploration strategies. In late 2022, the Venus Exploration Analysis Group began a project to develop a new exploration strategy for Venus, reflecting the 2021 selections of the VERITAS, DAVINCI, and EnVision missions and the sweeping comparative planetology recommendations relevant to Venus in Origins, Worlds, and Life.
  This is that strategy.
  Taking a broad look at the scientific, technological, and programmatic advances required to address the key outstanding questions that Venus poses, and predicated on VERITAS, DAVINCI, and EnVision flying as planned in the early 2030s, this report outlines a set of actions available to NASA, VEXAG, and the planetary science community at large to establish a sustained program of Venus exploration in the years and decades ahead. Key to this approach is recognizing Venus as a unique setting where multiple, cross-disciplinary, Decadal-level planetary, Earth, heliophysics, and exoplanet science questions can be addressed, as well as being a worthy target of exploration in its own right.
  This report offers Assessments of the current state of Venus exploration, and Actions for the U.S. and international Venus community, as well as NASA, to consider. This strategy is a living document and should be updated as warranted.

Research question: What are the major technological and engineering challenges to conducting sustained, long-term exploration of Venus, and what approaches or technologies are being considered to address them?
The characterisation of CMB polarisation is one of the next challenge in observationnal cosmology. This is especially true for the so-called B-modes that are at least 3 order of magnitude lower than CMB temperature fluctuations. A precise measurement of the angular power spectrum of these B-modes will give important constraints on inflation parameters. In this talk, I will describe two complementary experiments, BRAIN and CLOVER, dedicated to CMB polarisation measurement. These experiments are proposed to be installed in Dome-C, Antarctica, to take advantage of the extreme dryness of the atmosphere and to allow long integration time.

Research question: What are the main sources of contamination and systematic error when trying to measure CMB B-mode polarization, and how can they be mitigated in ground-based experiments?
Vibrio cholerae is a globally distributed water-borne pathogen that causes severe diarrheal disease and mortality, with current outbreaks as part of the seventh pandemic. Further understanding of the role of environmental factors in potential pathogen distribution and corresponding V. cholerae disease transmission over time and space is urgently needed to target surveillance of cholera and other climate and water-sensitive diseases. We used an ecological niche model (ENM) to identify environmental variables associated with V. cholerae presence in marine environments, to project a global model of V. cholerae distribution in ocean waters under current and future climate scenarios. We generated an ENM using published reports of V. cholerae in seawater and freely available remotely sensed imagery. Models indicated that factors associated with V. cholerae presence included chlorophyll-a, pH, and sea surface temperature (SST), with chlorophyll-a demonstrating the greatest explanatory power from variables selected for model calibration. We identified specific geographic areas for potential V. cholerae distribution. Coastal Bangladesh, where cholera is endemic, was found to be environmentally similar to coastal areas in Latin America. In a conservative climate change scenario, we observed a predicted increase in areas with environmental conditions suitable for V. cholerae. Findings highlight the potential for vulnerability maps to inform cholera surveillance, early warning systems, and disease prevention and control.

Research question: How can environmental and satellite-derived data be used to build operational early-warning systems for cholera and other waterborne diseases, and what are the main limitations and challenges in implementing such systems in low-resource settings?
We conducted an eye-tracking study where 30 participants performed searches on the web. We measured their topical knowledge before and after each task. Their eye-fixations were labelled as "reading" or "scanning". The series of reading fixations in a line, called "reading-sequences" were characterized by their length in pixels, fixation duration, and the number of fixations making up the sequence. We hypothesize that differences in knowledge-change of participants are reflected in their eye-tracking measures related to reading. Our results show that the participants with higher change in knowledge differ significantly in terms of their total reading-sequence-length, reading-sequence-duration, and number of reading fixations, when compared to participants with lower knowledge-change.

Research question: How reliably can eye-tracking metrics (e.g., fixation durations and reading-sequence lengths) be used to predict or assess a user’s learning or knowledge gain during online search tasks?
All online sharing systems gather data that reflects users' collective behaviour and their shared activities. This data can be used to extract different kinds of relationships, which can be grouped into layers, and which are basic components of the multidimensional social network proposed in the paper. The layers are created on the basis of two types of relations between humans, i.e. direct and object-based ones which respectively correspond to either social or semantic links between individuals. For better understanding of the complexity of the social network structure, layers and their profiles were identified and studied on two, spanned in time, snapshots of the Flickr population. Additionally, for each layer, a separate strength measure was proposed. The experiments on the Flickr photo sharing system revealed that the relationships between users result either from semantic links between objects they operate on or from social connections of these users. Moreover, the density of the social network increases in time. The second part of the study is devoted to building a social recommender system that supports the creation of new relations between users in a multimedia sharing system. Its main goal is to generate personalized suggestions that are continuously adapted to users' needs depending on the personal weights assigned to each layer in the multidimensional social network. The conducted experiments confirmed the usefulness of the proposed model.

Research question: How can a recommender system effectively combine multiple types of social and semantic relationships (different network layers) to generate personalized suggestions, and how are the relative importance or weights of those relationship types determined and adapted over time?