Miracle-dz/UniFAR-FTUs huggingface dataset:
Physical layer network coding: A cautionary story with interference and spatial reservation

Physical layer network coding (PLNC) has the potential to improve throughput of multi-hop networks. However, most of the works are focused on the simple, three-node model with two-way relaying, not taking into account the fact that there can be other neighboring nodes that can cause/receive interference. The way to deal with this problem in distributed wireless networks is usage of MAC-layer mechanisms that make a spatial reservation of the shared wireless medium, similar to the well-known RTS/CTS in IEEE 802.11 wireless networks. In this paper, we investigate two-way relaying in presence of interfering nodes and usage of spatial reservation mechanisms. Specifically, we introduce a reserved area in order to protect the nodes involved in two-way relaying from the interference caused by neighboring nodes. We analytically derive the end-to-end rate achieved by PLNC considering the impact of interference and reserved area. A relevant performance measure is data rate per unit area, in order to reflect the fact that any spatial reservation blocks another data exchange in the reserved area. The numerical results carry a cautionary message that the gains brought by PLNC over one-way relaying may be vanishing when the two-way relaying is considered in a broader context of a larger wireless network.
CBRAP: Contextual Bandits with RAndom Projection

Contextual bandits with linear payoffs, which are also known as linear bandits, provide a powerful alternative for solving practical problems of sequential decisions, e.g., online advertisements. In the era of big data, contextual data usually tend to be high-dimensional, which leads to new challenges for traditional linear bandits mostly designed for the setting of low-dimensional contextual data. Due to the curse of dimensionality, there are two challenges in most of the current bandit algorithms: the first is high time-complexity; and the second is extreme large upper regret bounds with high-dimensional data. In this paper, in order to attack the above two challenges effectively, we develop an algorithm of Contextual Bandits via RAndom Projection (CBRAP) in the setting of linear payoffs, which works especially for high-dimensional contextual data. The proposed CBRAP algorithm is time-efficient and flexible, because it enables players to choose an arm in a low-dimensional space, and relaxes the sparsity assumption of constant number of non-zero components in previous work. Besides, we prove an upper regret bound for the proposed algorithm, which is associated with reduced dimensions. By comparing with three benchmark algorithms, we demonstrate improved performance on cumulative payoffs of CBRAP during its sequential decisions on both synthetic and real-world datasets, as well as its superior time-efficiency.
Gait recognition using sparse representation

A new approach of gait recognition based on sparse representation is proposed. Static and motion information are fused using the averaged boundary which is extracted by canny operator. The training data and the testing data belong to one object when there is a sparse representation in training data for the testing data. The algorithm is implemented on USF gait database. Experimental results prove the higher performance of the method on the gait datasets which are captured on different time.
Challenges and State-of-the-Art Solutions to Underwater Slam

The unstructured scenario, the extraction of significant features, imprecision of sensors along with the impossibility of using GPS signals are some of the challenges encountered in underwater environments. Given this adverse context, the Simultaneous Localization and Mapping techniques (SLAM) attempt to localize the robot in an efficient way in an unknown underwater environment while at the same time, generate a representative model of the environment. In this paper, we focus on key topics related to SLAM applications in underwater environments. Moreover, a review of major studies in the literature and proposed solutions for address the problem are presented. As the main contribution of this work, a comprehensive review of the applications and topics in underwater SLAM were produced. Future trends and topics for research are also related.
Rapid and Robust Denoising of Pyrosequenced Amplicons for Metagenomics

Metagenomic sequencing has become a crucial tool for obtaining a gene catalogue of operational taxonomic units (OTUs) in a microbial community. High-throughput pyrosequencing is a next-generation sequencing technique very popular in microbial community analysis due to its longer read length compared to alternative methods. Computational tools are inevitable to process raw data from pyrosequencers, and in particular, noise removal is a critical data-mining step to obtain robust sequence reads. However, the slow rate of existing denoisers has bottlenecked the whole pyrosequencing process, let alone hindering efforts to improve robustness. To address these, we propose a new approach that can accelerate the denoising process substantially. By using our approach, it now takes only about 2 hours to denoise 62,873 pyrosequenced amplicons from a mixture of 91 full-length 16S rRNA clones. It would otherwise take nearly 2.5 days if existing software tools were used. Furthermore, our approach can effectively reduce overestimating the number of OTUs, producing 6.7 times fewer species-level OTUs on average than a state-of-the-art alternative under the same condition. Leveraged by our approach, we hope that metagenomic sequencing will become an even more appealing tool for microbial community analysis.
Throughput-competitive on-line routing

We develop a framework that allows us to address the issues of admission control and routing in high-speed networks under the restriction that once a call is admitted and routed, it has to proceed to completion and no reroutings are allowed. The "no rerouting" restriction appears in all the proposals for future high-speed networks and stems from current hardware limitations, in particular the fact that the bandwidth-delay product of the newly developed optical communication links far exceeds the buffer capacity of the network. In case the goal is to maximize the throughput, our framework yields an on-line O(log nT)-competitive strategy, where n is the number of nodes in the network and T is the maximum call duration. In other words, our strategy results in throughput that is within O(log nT) factor of the highest possible throughput achievable by an omniscient algorithm that knows all of the requests in advance. Moreover, we show that no on-line strategy can achieve a better competitive ratio. Our framework leads to competitive strategies applicable in several more general settings. Extensions include assigning each connection an associated "profit" that represents the importance of this connection, and addressing the issue of call-establishment costs. <<ETX>>
Expression of 9-cis-EPOXYCAROTENOID DIOXYGENASE4 Is Essential for Thermoinhibition of Lettuce Seed Germination but Not for Seed Development or Stress Tolerance[C][W]

A gene encoding an enzyme involved in abscisic acid biosynthesis is necessary and sufficient to enable high-temperature inhibition of lettuce seed germination. Introgressed and mutant alleles of NCED4 with reduced expression or enzymatic activity will allow breeding of lettuce cultivars with greater temperature tolerance during germination without compromising tolerance to water stress. Thermoinhibition, or failure of seeds to germinate at warm temperatures, is common in lettuce (Lactuca sativa) cultivars. Using a recombinant inbred line population developed from a lettuce cultivar (Salinas) and thermotolerant Lactuca serriola accession UC96US23 (UC), we previously mapped a quantitative trait locus associated with thermoinhibition of germination to a genomic region containing a gene encoding a key regulated enzyme in abscisic acid (ABA) biosynthesis, 9-cis-EPOXYCAROTENOID DIOXYGENASE4 (NCED4). NCED4 from either Salinas or UC complements seeds of the Arabidopsis thaliana nced6-1 nced9-1 double mutant by restoring germination thermosensitivity, indicating that both NCED4 genes encode functional proteins. Transgenic expression of Salinas NCED4 in UC seeds resulted in thermoinhibition, whereas silencing of NCED4 in Salinas seeds led to loss of thermoinhibition. Mutations in NCED4 also alleviated thermoinhibition. NCED4 expression was elevated during late seed development but was not required for seed maturation. Heat but not water stress elevated NCED4 expression in leaves, while NCED2 and NCED3 exhibited the opposite responses. Silencing of NCED4 altered the expression of genes involved in ABA, gibberellin, and ethylene biosynthesis and signaling pathways. Together, these data demonstrate that NCED4 expression is required for thermoinhibition of lettuce seeds and that it may play additional roles in plant responses to elevated temperature.
Dietary nutrients and anthropometry of Dene/Métis and Yukon children

Abstract Objective. To describe nutrient intakes and anthropometry of 10-12–year-old Dene/Métis and Yukon children in the Canadian Arctic. Study design. 24h-recall interviews (n = 222 interviews) were conducted on Canadian Dene/Métis and Yukon children in five communities during two seasons in 2000 – 2001; the children were measured for height and weight (n = 216). Methods. Assessment of nutrient adequacy used Dietary Reference Intakes (DRIs) including cutpoint procedures. Anthropometric measurements (height and weight) were assessed and body mass index (BMI) was compared to the 2000 CDC Growth Charts. Results. Thirty-two percent of the children were above the 85th percentile of BMI-for-age. More than 50 percent of children were below the Estimated Average Requirement (EAR) for vitamins A and E, phosphorus and magnesium; mean intakes were below the Adequate Intake (AI) for vitamin D, calcium, dietary fiber, omega-6 fatty acids, and omega-3 fatty acids. Nutrients that were probably adequate for some gender/season groups were protein, carbohydrate, iron, copper, selenium, zinc, manganese, riboflavin and vitamins B6 and C. Conclusions. Excessive prevalence of overweight and inadequacy of some nutrients were observed among Dene/Métis and Yukon children, suggesting a necessity for dietary improvement. However, many nutrients were adequate, in some cases probably due to continued traditional food use. (Int J Circumpolar Health 2005; 64(2):147–156)
Deformable shape retrieval using bag-of-feature techniques

We present a novel method for 3D-shape matching using Bag-of-Feature techniques (BoF). The method starts by selecting and then describing a set of points from the 3D-object. Such descriptors have the advantage of being invariant to different transformations that a shape can undergo. Based on vector quantization, we cluster those descriptors to form a shape vocabulary. Then, each point selected in the object is associated to a cluster (word) in that vocabulary. Finally, a BoF histogram counting the occurrences of every word is computed. These results clearly demonstrate that the method is robust to non-rigid and deformable shapes, in which the class of transformations may be very wide due to the capability of such shapes to bend and assume different forms.
AnyQ: Answer Set based Information Retrieval System

The accuracy of IR result continues to grow on importance as exponential growth of WWW, and it is therefore increasingly important that appropriate retrieval technologies be developed for the web. We explore a new type of IR, "answer set based IR", and its operational experience. Our proposed approach attempts to provide high quality answer documents to user by maintaining a knowledge base with expected queries and corresponding answer document. We will elaborate on our architecture and the experimental results.
What use is domestication theory to information systems research

This chapter introduces and discusses domestication theory—essentially about giving technology a place in everyday life—and its relevance and importance to information systems (IS) research. The authors discuss domestication within the context of the social shaping of technology and critique use and adoption theories more widely found in IS studies. The authors illustrate how domestication theory underpins studies of how Irish households find ways of using computers (or not) in their everyday life and research into the use of ICTs in UK gendered households. In conclusion they outline how developments in domestication theory can contribute to future IS research.
Distributed match-making for processes in computer networks (preliminary version)

In the very large multiprocessor systems and, on a gander scale, computer networks now emerging, processes are not tied to fixed processors but run on processors taken from a pool of processors. Processors are released when a process dies, migrates or when the process crashes. In distributed operating systems using the service concept, processes can be clients asking for a service, servers giving a service or both. Establishing communication between a process asking for a service and a process giving that service, without centralized control in a distributed environment with mobile processes, constitutes the problem of 1 distributed matchmaking. Logically, such a match-making phase precedes routing in store-and-forward d6mputer networks of this type. Algorithms for distributed match-making are developed and their complexity is investigated in terms of message passes and in terms of storage needed. The heoretical limitations of distributed matchmaking are established, and the techniques are applied to several network topologies.
Identifying eye blinks in EEG signal analysis

The electroencephalogram is a noninvasive record of the brain activity using electrodes placed on the scalp. The electroencephalographic signal can be contaminated by other signal sources, called artifacts. Among the several artifact sources, eye blink is one of the main sources of interference in the EEG exam, and can be erroneously interpreted as epileptiform activity. This study analyzed eye blink signals acquired by EEG electrodes. The main objective of this study was to develop a neural network classifier specialized in the identification of eye blinks in EEG signals. The statistical study of the eye blinks in EEG signals, the methodology and the results of the identification of this event are presented.
Auto-tuning a high-level language targeted to GPU codes

Determining the best set of optimizations to apply to a kernel to be executed on the graphics processing unit (GPU) is a challenging problem. There are large sets of possible optimization configurations that can be applied, and many applications have multiple kernels. Each kernel may require a specific configuration to achieve the best performance, and moving an application to new hardware often requires a new optimization configuration for each kernel. In this work, we apply optimizations to GPU code using HMPP, a high-level directive-based language and source-to-source compiler that can generate CUDA / OpenCL code. However, programming with high-level languages may mean a loss of performance compared to using low-level languages. Our work shows that it is possible to improve the performance of a high-level language by using auto-tuning. We perform auto-tuning on a large optimization space on GPU kernels, focusing on loop permutation, loop unrolling, tiling, and specifying which loop(s) to parallelize, and show results on convolution kernels, codes in the PolyBench suite, and an implementation of belief propagation for stereo vision. The results show that our auto-tuned HMPP-generated implementations are significantly faster than the default HMPP implementation and can meet or exceed the performance of manually coded CUDA / OpenCL implementations.
A Common Path to Innate Immunity to HIV-1 Induced by Toll-Like Receptor Ligands in Primary Human Macrophages

Toll-like receptors (TLR) represent the best characterized receptor family transducing innate immune responses, the first line of defense against microbial invaders. This study was designed to investigate whether responses through TLR inhibit HIV-1 replication in its primary target cells. Primary human macrophages and lymphocytes from several different donors and HIV-1 infection in tissue culture were used exclusively in this work. We report that ligands of three different TLR: LPS, R848, and double stranded RNA, induce a common antiviral response in macrophages as assayed by measurement of HIV-1 p24 protein, gag DNA, and entry into cells. HIV-1 infection is arrested after efficient entry but prior to reverse transcription. TLR-ligand activated cells secrete antiviral factors that induce a similar restriction. HIV-1 infection of lymphocytes is not affected by exposure to TLR ligands or to antiviral factors secreted by activated macrophages. TBK1, but neither NF-κB nor JAK-STAT activity, is required in macrophages to mount this antiviral response; the combination of p38 MAPK and JNK are partially required for induction of antiviral activity. Based on transcriptional induction and inhibition, the TLR-linked antiviral activity is different from APOBEC3 A or G, interferon-β, NAMPT, or p21Cip1. The cell-type specificity, site of action, and requirement for signaling intermediates suggest that the TLR-linked antiviral activity is novel.
Effect of Decellularization Protocol on the Mechanical Behavior of Porcine Descending Aorta

Enzymatic-detergent decellularization treatments may use a combination of chemical reagents to reduce vascular tissue to sterilized scaffolds, which may be seeded with endothelial cells and implanted with a low risk of rejection. However, these chemicals may alter the mechanical properties of the native tissue and contribute to graft compliance mismatch. Uniaxial tensile data obtained from native and decellularized longitudinal aortic tissue samples was analyzed in terms of engineering stress and fit to a modified form of the Yeoh rubber model. One decellularization protocol used SDS, while the other two used TritonX-100, RNase-A, and DNase-I in combination with EDTA or sodium-deoxycholate. Statistical significance of Yeoh model parameters was determined by paired t-test analysis. The TritonX-100/EDTA and 0.075% SDS treatments resulted in relatively variable mechanical changes and did not effectively lyse VSMCs in aortic tissue. The TritonX-100/sodium-deoxycholate treatment effectively lysed VSMCs and was characterized by less variability in mechanical behavior. The data suggests a TritonX-100/sodium-deoxycholate treatment is a more effective option than TritonX-100/EDTA and SDS treatments for the preparation of aortic xenografts and allografts because it effectively lyses VSMCs and is the least likely treatment, among those considered, to promote a decrease in mechanical compliance.
Ticks, Ixodes scapularis, Feed Repeatedly on White-Footed Mice despite Strong Inflammatory Response: An Expanding Paradigm for Understanding Tick–Host Interactions

Ticks transmit infectious agents including bacteria, viruses and protozoa. However, their transmission may be compromised by host resistance to repeated tick feeding. Increasing host resistance to repeated tick bites is well known in laboratory animals, including intense inflammation at the bite sites. However, it is not known whether this also occurs in wild rodents such as white-footed mice, Peromyscus leucopus, and other wildlife, or if it occurs at all. According to the “host immune incompetence” hypothesis, if these mice do not have a strong inflammatory response, they would not reject repeated tick bites by Ixodes scapularis. To test this hypothesis, histopathological studies were done comparing dermal inflammation in P. leucopus versus guinea pigs, Cavia porcellus, repeatedly infested with I. scapularis. In P. leucopus, the immune cell composition was like that seen in laboratory mouse models, with some differences. However, there was a broad sessile lesion with intact dermal architecture, likely enabling the ticks to continue feeding unimpeded. In contrast, in C. porcellus, there was a relatively similar mixed cellular profile, but there also was a large, leukocyte-filled cavitary lesion and scab-like hyperkeratotic changes to the epidermal layer, along with itching and apparent pain. Ticks attached to sensitized C. porcellus fed poorly or were dislodged, presumably due to the weakened anchoring of the tick’s mouthparts cemented in the heavily inflamed and disintegrating dermal tissues. This is the first time that the architecture of the skin lesions has been recognized as a major factor in understanding tick–host tolerance versus tick bite rejection. These findings broadly strengthen previous work done on lab animal models but also help explain why I. scapularis can repeatedly parasitize white-footed mice, supporting the “immune evasion theory” but cannot repeatedly parasitize other, non-permissive hosts such as guinea pigs.
Brain–computer interfaces: communication and restoration of movement in paralysis

The review describes the status of brain–computer or brain–machine interface research. We focus on non‐invasive brain–computer interfaces (BCIs) and their clinical utility for direct brain communication in paralysis and motor restoration in stroke. A large gap between the promises of invasive animal and human BCI preparations and the clinical reality characterizes the literature: while intact monkeys learn to execute more or less complex upper limb movements with spike patterns from motor brain regions alone without concomitant peripheral motor activity usually after extensive training, clinical applications in human diseases such as amyotrophic lateral sclerosis and paralysis from stroke or spinal cord lesions show only limited success, with the exception of verbal communication in paralysed and locked‐in patients. BCIs based on electroencephalographic potentials or oscillations are ready to undergo large clinical studies and commercial production as an adjunct or a major assisted communication device for paralysed and locked‐in patients. However, attempts to train completely locked‐in patients with BCI communication after entering the complete locked‐in state with no remaining eye movement failed. We propose that a lack of contingencies between goal directed thoughts and intentions may be at the heart of this problem. Experiments with chronically curarized rats support our hypothesis; operant conditioning and voluntary control of autonomic physiological functions turned out to be impossible in this preparation. In addition to assisted communication, BCIs consisting of operant learning of EEG slow cortical potentials and sensorimotor rhythm were demonstrated to be successful in drug resistant focal epilepsy and attention deficit disorder. First studies of non‐invasive BCIs using sensorimotor rhythm of the EEG and MEG in restoration of paralysed hand movements in chronic stroke and single cases of high spinal cord lesions show some promise, but need extensive evaluation in well‐controlled experiments. Invasive BMIs based on neuronal spike patterns, local field potentials or electrocorticogram may constitute the strategy of choice in severe cases of stroke and spinal cord paralysis. Future directions of BCI research should include the regulation of brain metabolism and blood flow and electrical and magnetic stimulation of the human brain (invasive and non‐invasive). A series of studies using BOLD response regulation with functional magnetic resonance imaging (fMRI) and near infrared spectroscopy demonstrated a tight correlation between voluntary changes in brain metabolism and behaviour.