Miracle-dz/UniFAR-FTUs huggingface dataset:
Highly Comparative Feature-Based Time-Series Classification

A highly comparative, feature-based approach to time series classification is introduced that uses an extensive database of algorithms to extract thousands of interpretable features from time series. These features are derived from across the scientific time-series analysis literature, and include summaries of time series in terms of their correlation structure, distribution, entropy, stationarity, scaling properties, and fits to a range of time-series models. After computing thousands of features for each time series in a training set, those that are most informative of the class structure are selected using greedy forward feature selection with a linear classifier. The resulting feature-based classifiers automatically learn the differences between classes using a reduced number of time-series properties, and circumvent the need to calculate distances between time series. Representing time series in this way results in orders of magnitude of dimensionality reduction, allowing the method to perform well on very large data sets containing long time series or time series of different lengths. For many of the data sets studied, classification performance exceeded that of conventional instance-based classifiers, including one nearest neighbor classifiers using euclidean distances and dynamic time warping and, most importantly, the features selected provide an understanding of the properties of the data set, insight that can guide further scientific investigation.
Genomics of Rapid Adaptation to Antibiotics: Convergent Evolution and Scalable Sequence Amplification

Evolutionary adaptation can be extremely fast, especially in response to high selection intensities. A prime example is the surge of antibiotic resistance in bacteria. The genomic underpinnings of such rapid changes may provide information on the genetic processes that enhance fast responses and the particular trait functions under selection. Here, we use experimentally evolved Escherichia coli for a detailed dissection of the genomics of rapid antibiotic resistance evolution. Our new analyses demonstrate that amplification of a sequence region containing several known antibiotic resistance genes represents a fast genomic response mechanism under high antibiotic stress, here exerted by drug combination. In particular, higher dosage of such antibiotic combinations coincided with higher copy number of the sequence region. The amplification appears to be evolutionarily costly, because amplification levels rapidly dropped after removal of the drugs. Our results suggest that amplification is a scalable process, as copy number rapidly changes in response to the selective pressure encountered. Moreover, repeated patterns of convergent evolution were found across the experimentally evolved bacterial populations, including those with lower antibiotic selection intensities. Intriguingly, convergent evolution was identified on different organizational levels, ranging from the above sequence amplification, high variant frequencies in specific genes, prevalence of individual nonsynonymous mutations to the unusual repeated occurrence of a particular synonymous mutation in Glycine codons. We conclude that constrained evolutionary trajectories underlie rapid adaptation to antibiotics. Of the identified genomic changes, sequence amplification seems to represent the most potent, albeit costly genomic response mechanism to high antibiotic stress.
Simulating Land Cover Changes and Their Impacts on Land Surface Temperature in Onitsha, South East Nigeria

The increasing urbanization generally is brought about by many eco-environmental problems, such as the drastic change of land use and development of urban heat island. This study identified the pattern of land cover changes in Onitsha, South East Nigeria, and assessed the trend in temperature over the area from 1986 to 2016, simulated the land cover changes for 2030 and 2044, and estimated their impacts on land surface temperature (LST). These were with the view to determining the effects of changes in land use/cover on the LST in the area. Primary and secondary data were used for the study. The primary data were coordinates of geographic features within the study area, collected through the use of global positioning system. The secondary data were minimum and maximum temperature data from the Nigerian Meteorological Agency (NIMET), high-resolution Quick-bird imagery, Landsat TM/ETM imageries for four epochs (1986, 2002, and 2016) with path and row of 189 and 56. Individual components (bare surface, built-up, vegetation and surface water bodies) in the study area were extracted from the images. Radiometric correction was first performed (for 2016 landsat imagery) to fill the line scan corrector (LSC) gaps using Focal Analysis tool in ERDAS Imagine 14.0. This was followed with clipping of the satellite imagery to extract only those portions that are within the boundary of the study area. Supervised image classification was done for the three series of remotely sensed imageries to extract the spatial pattern of land cover change. The results revealed that the study area has been growing to a relatively compact urban agglomeration. The concentration of built-up area at the western and the central part of the study area has been getting larger and more aggregated. Built-up area increased by 11.49% from 1986 to 2002 and 5.68% from 2002 to 2016 while vegetation decreased by 6.03% from 50.26% in 1986 to 44.23% in 2002. The decrease further continued from 44.23% in 2002 to 29.79% in 2016 (change of 14.44%). Expansion to spread into the sub-urban and rural communities bounding the metropolis, converting agricultural and green area to built-up areas. The land cover trend of the study area from the period of 1986-2016 shows dramatic changes for the dominant land cover types. The analyzed trend in temperature change shows that the central parts of the city have a temperature higher than the outlying parts. The results indicated that the average temperature of the study area increased from 24°C in 1986 to 28°C in 2016. The simulated land cover also showed a decreasing trend in vegetal cover. The study concluded that the increase in built-up area caused an annual increase in land surface temperature (0.31°C) over the study period.
MIMO block-fading channels with mismatched CSIR

This paper presents the outage analysis of multiple-input multiple-output (MIMO) block-fading channels with nearest neighbour decoding and mismatched channel state information at the receiver (CSIR). Based on mismatched decoding arguments, we demonstrate the achievability of the generalised outage probability, the probability that the generalised mutual information (GMI) is less than the target data rate, and show that this probability is the fundamental limit for independent and identically distributed (i.i.d.) codebooks. We then analyse the behaviour of the generalised outage probability at high signal-to-noise ratio (SNR) regime. For both Gaussian and discrete signal codebooks, we provide a simple characterisation of the mismatched CSIR SNR exponents and derive the necessary condition on the block length to achieve those SNR exponents.
The influence of inclusion of either an antibiotic or a probiotic in the diet on the development of digestive enzyme activity in the Pig

The aim of the present experiment was to determine the influence of either probiotic or antibiotic inclusion in the diets of pigs from birth on the development of enzyme activity in the small intestine. Pigs were fed on creep feed and grower diets containing either a probiotic, an antibiotic or no added growth promoter. At 7, 17, 42 and 80 d of age pigs from each treatment group were sampled to investigate the development of carbohydrase and peptidase activity in the mucosa at five sites along the small intestine. Inclusion of either the probiotic or antibiotic had a significant effect on the development of sucrase (sucrose a-D-glucohydrolase; EC 3.2.1.48), lactase (p-D-galactoside galactohydrolase ; EC 3.2.1 .23) and tripeptidase (EC 3.4.11.4) activities before weaning but had no effect on depeptidase (EC 3.14.13.11) activity. The study of the distribution of enzyme activity along the small intestine showed significant differences between the proximal and distal sections associated with weaning.
Pre-Treatment Ferritin Level and Alveolar-Arterial Oxygen Gradient Can Predict Mortality Rate Due to Acute/Subacute Interstitial Pneumonia in Dermatomyositis Treated by Cyclosporine A/Glucocorticosteroid Combination Therapy: A Case Control Study

Background Acute/subacute interstitial pneumonia in dermatomyositis (DM-A/SIP) is a disease associated with a poor prognosis that resists treatment with glucocorticosteroids (GC) and progresses rapidly in a period of weeks to months to death. We retrospectively studied outcomes, prognostic factors, and their relations with survival rate in patients with DM-A/SIP treated with early cyclosporine A (CSA)/GC combination therapy and 2-hour postdose blood concentration monitoring. Methods This study comprised 32 DM-A/SIP patients who were simultaneously treated with CSA and prednisolone. Clinical and laboratory findings were compared between those who died due to DM-A/SIP and those surviving 24 weeks after beginning of therapy. Prognostic factors were extracted, and their relations with the survival rate were evaluated. Results Of the 32 DM-A/SIP patients, 25 survived, 5 died of DM-A/SIP, and 2 died of infections. In those who died due to DM-A/SIP, ferritin level and the alveolar-arterial oxygen gradient were significantly increased compared with the survivors (P<0.001 and P = 0.002, respectively). Multivariate analyses showed that ferritin and alveolar-arterial oxygen gradient were independent prognostic factors of poor outcome. The survival rate 24 weeks after beginning of treatment was significantly lower in those with a ferritin level of ≥600 ng/ml and alveolar-arterial oxygen gradient of ≥45 Torr (P<0.001 and P<0.001, respectively). All patients with both prognostic factors died, and the outcome was significantly poorer in these patients than in those with one or neither of the prognostic factors (P<0.001). Conclusions We identified pre-treatment high serum ferritin level and high alveolar-arterial oxygen gradient as poor prognostic factors in DM-A/SIP patients undergoing early CSA/GC combination therapy and showed that the outcomes were poor in patients with both factors.
The Infrared Extinction Law at Extreme Depth in a Dark Cloud Core

We combined sensitive near-infrared data obtained with ground-based imagers on the ESO NTT and VLT telescopes with space mid-infrared data acquired with the IRAC imager on the Spitzer Space Telescope to calculate the extinction law Aλ/A as a function of λ between 1.25 and 7.76 μm to an unprecedented depth in Barnard 59, a star-forming, dense core located in the Pipe Nebula. The ratios Aλ/A were calculated from the slopes of the distributions of sources in color-color diagrams λ-Ks versus H-Ks. The distributions in the color-color diagrams are fit well with single slopes to extinction levels of A ≈ 7 (AV ≈ 59 mag). Consequently, there appears to be no significant variation of the extinction law with depth through the B59 line of sight. However, when slopes are translated into the relative extinction coefficients Aλ/A, we find an extinction law that departs from the simple extrapolation of the near-infrared power-law extinction curve, and agrees more closely with a dust extinction model for a cloud with a total to selective absorption RV = 5.5 and a grain size distribution favoring larger grains than those in the diffuse interstellar medium. Thus, the difference we observe could possibly be due to the effect of grain growth in denser regions. Finally, the slopes in our diagrams are somewhat less steep than those from the study of Indebetouw et al. for clouds with lower column densities, and this indicates that the extinction law between 3 and 8 μm might vary slightly as a function of environment.
Cardiac differentiation in Xenopus requires the cyclin-dependent kinase inhibitor, p27Xic1

Abstract Aims Cyclin-dependent kinase inhibitors (CDKIs) play a critical role in negatively regulating the proliferation of cardiomyocytes, although their role in cardiac differentiation remains largely undetermined. We have shown that the most prominent CDKI in Xenopus, p27Xic1(Xic1), plays a role in neuronal and myotome differentiation beyond its ability to arrest the cell cycle. Thus, we investigated whether it plays a similar role in cardiomyocyte differentiation. Methods and results Xenopus laevis embryos were sectioned, and whole-mount antibody staining and immunofluorescence studies were carried out to determine the total number and percentage of differentiated cardiomyocytes in mitosis. Capped RNA and/or translation-blocking Xic1 morpholino antisense oligonucleotides (Xic1Mo) were microinjected into embryos, and their role on cardiac differentiation was assessed by in situ hybridization and/or PCR. We show that cell-cycling post-gastrulation is not essential for cardiac differentiation in Xenopus embryos, and conversely that some cells can express markers of cardiac differentiation even when still in cycle. A targeted knock-down of Xic1 protein by Xic1Mo microinjection decreases the expression of markers of cardiac differentiation, which can be partially rescued by co-injection of full-length Xic1 RNA, demonstrating that Xic1 is essential for heart formation. Furthermore, using deleted and mutant forms of Xic1, we show that neither its abilities to inhibit the cell cycle nor the great majority of CDK kinase activity are essential for Xic1’s function in cardiomyocyte differentiation, an activity that resides in the N-terminus of the molecule. Conclusion Altogether, our results demonstrate that the CDKI Xic1 is required in Xenopus cardiac differentiation, and that this function is localized at its N-terminus, but it is distinct from its ability to arrest the cell cycle and inhibit overall CDK kinase activity. Hence, these results suggest that CDKIs play an important direct role in driving cardiomyocyte differentiation in addition to cell-cycle regulation.
One year prospective survey of Candida bloodstream infections in Scotland

A 12 month survey of candidaemia in Scotland, UK, in which every Scottish hospital laboratory submitted all blood isolates of yeasts for identification, strain typing and susceptibility testing, provided 300 isolates from 242 patients, generating incidence data of 4.8 cases per 100 000 population per year and 5.9 cases per 100 000 acute occupied bed days; 27.9 % of cases occurred in intensive care units. More than half the patients with candidaemia had an underlying disease involving the abdomen, 78 % had an indwelling intravenous catheter, 62 % had suffered a bacterial infection within the 2 weeks prior to candidaemia and 37 % had undergone a laparotomy. Candida albicans was the infecting species in 50 % of cases, followed by Candida glabrata (21 %) and Candida parapsilosis (12 %). Seven cases of candidaemia were caused by Candida dubliniensis, which was more prevalent even than Candida lusitaniae and Candida tropicalis (six cases each). Among C. glabrata isolates, 55 % showed reduced susceptibility to fluconazole, but azole resistance among other species was extremely low. Multilocus sequence typing showed isolates with high similarity came from different hospitals across the country, and many different types came from the hospitals that submitted the most isolates, indicating no tendency towards hospital-specific endemic strains. Multiple isolates of C. albicans and C. glabrata from individual patients were of the same strain type with single exceptions for each species. The high prevalence of candidaemia in Scotland, relative to other population-based European studies, and the high level of reduced fluconazole susceptibility of Scottish C. glabrata isolates warrant continued future surveillance of invasive Candida infections.
Gene Expression During the Life Cycle of Drosophila melanogaster

Molecular genetic studies of Drosophila melanogaster have led to profound advances in understanding the regulation of development. Here we report gene expression patterns for nearly one-third of all Drosophila genes during a complete time course of development. Mutations that eliminate eye or germline tissue were used to further analyze tissue-specific gene expression programs. These studies define major characteristics of the transcriptional programs that underlie the life cycle, compare development in males and females, and show that large-scale gene expression data collected from whole animals can be used to identify genes expressed in particular tissues and organs or genes involved in specific biological and biochemical processes.
SU(3)-equivariant quiver gauge theories and nonabelian vortices

We consider SU(3)-equivariant dimensional reduction of Yang-Mills theory on Kahler manifolds of the form M × SU(3)/H, with H = SU(2) × U(1) or H = U(1) × U(1). The induced rank two quiver gauge theories on M are worked out in detail for representations of H which descend from a generic irreducible SU(3)-representation. The reduction of the Donaldson-Uhlenbeck-Yau equations on these spaces induces nonabelian quiver vortex equations on M, which we write down explicitly. When M is a noncommutative deformation of the space d, we construct explicit BPS and non-BPS solutions of finite energy for all cases. We compute their topological charges in three different ways and propose a novel interpretation of the configurations as states of D-branes. Our methods and results generalize from SU(3) to any compact Lie group.
Insulin-like growth factors 1 and 2 in bovine colostrum. Sequences and biological activities compared with those of a potent truncated form.

1. Insulin-like growth factors 1 and 2 (IGF-1 and IGF-2) together with a truncated form of IGF-1 were purified to homogeneity from bovine colostrum. 2. Two forms of IGF-1 were totally resolved from IGF-2 in the purification by h.p.l.c. involving cation-exchange and reverse-phase columns. 3. The complete amino acid sequences for all three forms of IGF were determined. The sequence of bovine IGF-1 was found to be identical with that of human IGF-1, and that of the variant lacked the N-terminal tripeptide Gly-Pro-Glu (-3N:IGF-1). Bovine IGF-2 was found to differ in three residues of the C-domain compared with human IGF-2, with serine, isoleucine and asparagine substituted for alanine, valine and serine respectively at positions 32, 35 and 36. 4. Protein synthesis in L6 rat myoblasts was stimulated and protein degradation inhibited in a co-ordinate response with all three IGFs. The relative potency in both processes was -3N:IGF-1 greater than IGF-1 greater than IGF-2. A similar order of potency was obtained for the stimulation of DNA synthesis by -3N:IGF-1 and IGF-1. The approximately 10-fold effect on biological activity of removing the N-terminal tripeptide is unexpected in view of current information on IGF-1 structure and function.
Investigation of Parents’ Early Literacy Beliefs in the Context of Turkey through the Parent Reading Belief Inventory (PRBI)

This paper aims to test the reliability and validity of the Turkish adaptation of DeBaryshe and Binder's Parent Reading Belief Inventory (PRBI) and to investigate parents' literacy beliefs. The primary focus of this paper is to explore parents’ beliefs and practices and their relatedness on the emergent literacy of their children aged 3–7 (M=69.8 months; SD= 9.33 months). As data collection tools, we availed ourselves of the Parent Reading Belief Inventory,(PRBI), Home Literacy Inventory (HLI) and Child Literacy Behaviours (CLB). In addition, the Personal Information Form, prepared by the researchers, was utilized. Moreover, confirmatory factor analyses were performed on samples of parents from Adana, a city in southern Turkey (N= 952). The study showed that a seven-factor structure in the original form of the PRBI was validated , excluding items 8, 30 and 31. Consistent with the results of the confirmatory factor analysis and reliability analysis, it can be concluded that the PRBI is a valid and reliable tool to investigate the process of parents' literacy activities with their children in Turkey.
A robust feature for single image camera identification using local binary patterns

Most of the camera identification methods work in batch mode. However, in many applications, there is just one image from the resource. In addition, previous proposed camera identification algorithms are prepared to classify the sources for a specified compression quality factor. In contrast, the compression qualities of the image may be changed during further processing and tampering. In this paper, a new single image feature is proposed based on local binary pattern of extracted edges from the input image. The feature showed good robustness against JPEG compression quality variations. The feature was empirically explored and showed its discrimination characteristics in Dresden standard camera identification dataset. The method was assessed with state of the art camera identification methods on the dataset and revealed its capabilities in both high and low quality images.
Magnetization process of the spin-1/2 XXZ models on square and cubic lattices

The magnetization process of the spin-1/2 antiferromagnetic $\mathrm{XXZ}$ models with Ising-like anisotropy in the ground state is investigated. We show numerically that the Ising-like $\mathrm{XXZ}$ models on square and cubic lattices show a first-order phase transition at some critical magnetic field. We estimate the value of the critical field and the magnetization jump on the basis of the Maxwell construction. The magnetization jump in the Ising limit is investigated by means of perturbation theory. Based on our numerical results, we briefly discuss the phase diagram of the extended Bose-Hubbard model in the hard-core limit.
Observation and imitation of actions performed by humans, androids, and robots: an EMG study

Understanding others’ actions is essential for functioning in the physical and social world. In the past two decades research has shown that action perception involves the motor system, supporting theories that we understand others’ behavior via embodied motor simulation. Recently, empirical approach to action perception has been facilitated by using well-controlled artificial stimuli, such as robots. One broad question this approach can address is what aspects of similarity between the observer and the observed agent facilitate motor simulation. Since humans have evolved among other humans and animals, using artificial stimuli such as robots allows us to probe whether our social perceptual systems are specifically tuned to process other biological entities. In this study, we used humanoid robots with different degrees of human-likeness in appearance and motion along with electromyography (EMG) to measure muscle activity in participants’ arms while they either observed or imitated videos of three agents produce actions with their right arm. The agents were a Human (biological appearance and motion), a Robot (mechanical appearance and motion), and an Android (biological appearance and mechanical motion). Right arm muscle activity increased when participants imitated all agents. Increased muscle activation was found also in the stationary arm both during imitation and observation. Furthermore, muscle activity was sensitive to motion dynamics: activity was significantly stronger for imitation of the human than both mechanical agents. There was also a relationship between the dynamics of the muscle activity and motion dynamics in stimuli. Overall our data indicate that motor simulation is not limited to observation and imitation of agents with a biological appearance, but is also found for robots. However we also found sensitivity to human motion in the EMG responses. Combining data from multiple methods allows us to obtain a more complete picture of action understanding and the underlying neural computations.