Miracle-dz/UniFAR-FTUs huggingface dataset:
Motor unit drive: a neural interface for real-time upper limb prosthetic control

Objective. Modern prosthetic limbs have made strident gains in recent years, incorporating terminal electromechanical devices that are capable of mimicking the human hand. However, access to these advanced control capabilities has been prevented by fundamental limitations of amplitude-based myoelectric neural interfaces, which have remained virtually unchanged for over four decades. Consequently, nearly 23% of adults and 32% of children with major traumatic or congenital upper-limb loss abandon regular use of their myoelectric prosthesis. To address this healthcare need, we have developed a noninvasive neural interface technology that maps natural motor unit increments of neural control and force into biomechanically informed signals for improved prosthetic control. Approach. Our technology, referred to as motor unit drive (MU Drive), utilizes real-time machine learning algorithms for directly measuring motor unit firings from surface electromyographic signals recorded from residual muscles of an amputated or congenitally missing limb. The extracted firings are transformed into biomechanically informed signals based on the force generating properties of individual motor units to provide a control source that represents the intended movement. Main results. We evaluated the characteristics of the MU Drive control signals and compared them to conventional amplitude-based myoelectric signals in healthy subjects as well as subjects with congenital or traumatic trans-radial limb-loss. Our analysis established a vital proof-of-concept: MU Drive provides a more responsive real-time signal with improved smoothness and more faithful replication of intended limb movement that overcomes the trade-off between performance and latency inherent to amplitude-based myoelectric methods. Significance. MU Drive is the first neural interface for prosthetic control that provides noninvasive real-time access to the natural motor control mechanisms of the human nervous system. This new neural interface holds promise for improving prosthetic function by achieving advanced control that better reflects the user intent. Beyond the immediate advantages in the field of prosthetics, MU Drive provides an innovative alternative for advancing the control of exoskeletons, assistive devices, and other robotic rehabilitation applications.
On legitimate mining of cryptocurrency in the browser - a feasibility study

Cryptocurrency mining in the browser has the potential to provide a new pay-as-you-go monetisation mechanism for consuming digital media over the Web. However, browser mining has recently received strong criticism due to illegitimate use of mining scripts in several popular websites (a practice called cryptojacking). Here we provide the first feasibility study of browser mining as a legitimate means of monetisation in terms of revenue, user consent and user experience within a specially built website. Our results compare browser mining to display advertisement and indicate browser mining provides a preferable user experience to advertising when the hash rate is user-adjustable. Furthermore, over 60% of participants would select browser mining over advertisement if they were invested in the ecosystem by obtaining half of the mined cryptocurrency. Our estimations show that browser mining currently generates revenue at a rate 46 times less than advertisement, however we would expect that gap to decrease as we observed a significant drop in mining difficulty after our tested cryptocurrency implemented ASIC-resistant mining measures. Overall, based on our results we find browser mining to be a legitimate alternative to display advertisement and conclude by discussing its current limitations and potential applications.
Physician stress and burnout: the impact of health information technology

Objective To quantify how stress related to use of health information technology (HIT) predicts burnout among physicians. Methods All 4197 practicing physicians in Rhode Island were surveyed in 2017 on their HIT use. Our main outcome was self-reported burnout. The presence of HIT-related stress was defined by report of at least 1 of the following: poor/marginal time for documentation, moderately high/excessive time spent on the electronic health record (EHR) at home, and agreement that using an EHR adds to daily frustration. We used logistic regression to assess the association between each HIT-related stress measure and burnout, adjusting for respondent demographics, practice characteristics, and the other stress measures. Results Of the 1792 physician respondents (43% response rate), 26% reported burnout. Among EHR users (91%), 70% reported HIT-related stress, with the highest prevalence in primary care-oriented specialties. After adjustment, physicians reporting poor/marginal time for documentation had 2.8 times the odds of burnout (95% CI: 2.0-4.1; P < .0001), compared to those reporting sufficient time. Physicians reporting moderately high/excessive time on EHRs at home had 1.9 times the odds of burnout (95% CI: 1.4-2.8; P < .0001), compared to those with minimal/no EHR use at home. Those who agreed that EHRs add to their daily frustration had 2.4 times the odds of burnout (95% CI: 1.6-3.7; P < .0001), compared to those who disagreed. Conclusion HIT-related stress is measurable, common (about 70% among respondents), specialty-related, and independently predictive of burnout symptoms. Identifying HIT-specific factors associated with burnout may guide healthcare organizations seeking to measure and remediate burnout among their physicians and staff.
Photoinactivation of the Staphylococcus aureus Lactose-Specific EIICB Phosphotransferase Component with p-azidophenyl-β-D-Galactoside and Phosphorylation of the Covalently Bound Substrate

Background: The phosphoenolpyruvate (PEP):lactose phosphotransferase system of Staphylococcus aureus transports and phosphorylates lactose and various phenylgalactosides. Their phosphorylation is catalyzed by the Cys476-phosphorylated EIIB domain of the lactose-specific permease enzyme IICB (EIICBLac). Phosphorylation causes the release of galactosides bound to the EIIC domain into the cytoplasm by a mechanism not yet understood. Results: Irradiation of a reaction mixture containing the photoactivatable p-azidophenyl-β-D-galactopyranoside and EIICBLac with UV light caused a loss of EIICBLac activity. Nevertheless, photoinactivated EIICBLac could still be phosphorylated with [32P]PEP. Proteolysis of photoinactivated [32P]P-EIICBLac with subtilisin provided an 11-kDa radioactive peptide. Only the sequence of its first three amino acids (-H-G-P-, position 245–247) could be determined. They are part of the substrate binding pocket in EIICs of the lactose/cellobiose PTS family. Surprisingly, while acid treatment caused hydrolysis of the phosphoryl group in active [32P]P∼EIICBLac, photoinactivated [32P]P-EIICBLac remained strongly phosphorylated. Conclusion: Phosphorylation of the –OH group at C6 of p-nitrenephenyl-β-D-galactopyranoside covalently bound to EIICLac by the histidyl-phosphorylated [32P]P∼EIIBLac domain is a likely explanation for the observed acid resistance. Placing p-nitrenephenyl-β-D-galactopyranoside into the active site of modelled EIICLac suggested that the nitrene binds to the -NH- group of Ser248, which would explain why no sequence data beyond Pro247could be obtained.
Genomic and Genotypic Characterization of Cylindrospermopsis raciborskii: Toward an Intraspecific Phylogenetic Evaluation by Comparative Genomics

Cylindrospermopsis raciborskii is a freshwater cyanobacterial species with increasing bloom reports worldwide that are likely due to factors related to climate change. In addition to the deleterious effects of blooms on aquatic ecosystems, the majority of ecotypes can synthesize toxic secondary metabolites causing public health issues. To overcome the harmful effects of C. raciborskii blooms, it is important to advance knowledge of diversity, genetic variation, and evolutionary processes within populations. An efficient approach to exploring this diversity and understanding the evolution of C. raciborskii is to use comparative genomics. Here, we report two new draft genomes of C. raciborskii (strains CENA302 and CENA303) from Brazilian isolates of different origins and explore their molecular diversity, phylogeny, and evolutionary diversification by comparing their genomes with sequences from other strains available in public databases. The results obtained by comparing seven C. raciborskii and the Raphidiopsis brookii D9 genomes revealed a set of conserved core genes and a variable set of accessory genes, such as those involved in the biosynthesis of natural products, heterocyte glycolipid formation, and nitrogen fixation. Gene cluster arrangements related to the biosynthesis of the antifungal cyclic glycosylated lipopeptide hassallidin were identified in four C. raciborskii genomes, including the non-nitrogen fixing strain CENA303. Shifts in gene clusters involved in toxin production according to geographic origins were observed, as well as a lack of nitrogen fixation (nif) and heterocyte glycolipid (hgl) gene clusters in some strains. Single gene phylogeny (16S rRNA sequences) was congruent with phylogeny based on 31 concatenated housekeeping protein sequences, and both analyses have shown, with high support values, that the species C. raciborskii is monophyletic. This comparative genomics study allowed a species-wide view of the biological diversity of C. raciborskii and in some cases linked genome differences to phenotype.
Strengthening the Reporting of Observational Studies in Epidemiology—Nutritional Epidemiology (STROBE-nut): An Extension of the STROBE Statement

Background Concerns have been raised about the quality of reporting in nutritional epidemiology. Research reporting guidelines such as the Strengthening the Reporting of Observational Studies in Epidemiology (STROBE) statement can improve quality of reporting in observational studies. Herein, we propose recommendations for reporting nutritional epidemiology and dietary assessment research by extending the STROBE statement into Strengthening the Reporting of Observational Studies in Epidemiology—Nutritional Epidemiology (STROBE-nut). Methods and Findings Recommendations for the reporting of nutritional epidemiology and dietary assessment research were developed following a systematic and consultative process, coordinated by a multidisciplinary group of 21 experts. Consensus on reporting guidelines was reached through a three-round Delphi consultation process with 53 external experts. In total, 24 recommendations for nutritional epidemiology were added to the STROBE checklist. Conclusion When used appropriately, reporting guidelines for nutritional epidemiology can contribute to improve reporting of observational studies with a focus on diet and health.
Differential expression of genes in greenbug (Schizaphis graminum Rondani) treated by imidacloprid and RNA interference.

BACKGROUND Insecticides act as toxins, inhibitors of digestion and deterrents, and affect the expression of many genes in insects. To assess key genes associated with the detoxification or regulation of imidacloprid in greenbug, Schizaphis graminum (Rondani), the transcriptome and digital gene expression (DGE) profile were analyzed using Illumina sequencing. RESULTS In total, 48 763 494 clean reads were obtained by sequencing. Expression profile analysis showed that 2782 unigenes were differently expressed between the imidacloprid treatment and control groups. After exposure to imidacloprid, the expression levels of 1846 unigenes were upregulated and 936 were downregulated in comparison with controls. Expression patterns of the top 20 highly expressed genes show that they could be involved in the detoxification of imidacloprid. Silencing of multidrug resistance-associated gene (MRA), GATA-binding gene (GAT) and takeout-like precursor gene (TLP) resulted in increasing susceptibility to imidacloprid. CONCLUSIONS The differentially expressed genes in S. graminum have potential regulatory or detoxification roles in response to imidacloprid. These results should be useful in understanding the molecular mechanisms of greenbug adaption to imidacloprid. © 2018 Society of Chemical Industry.
Ultra fast miniaturized real-time PCR: 40 cycles in less than six minutes

We have designed, fabricated and tested a real-time PCR chip capable of conducting one thermal cycle in 8.5 s. This corresponds to 40 cycles of PCR in 5 min and 40 s. The PCR system was made of silicon micromachined into the shape of a cantilever terminated with a disc. The thin film heater and a temperature sensor were placed on the disc perimeter. Due to the system's thermal constant of 0.27 s, we have achieved a heating rate of 175°C s−1 and a cooling rate of −125°C s−1. A PCR sample encapsulated with mineral oil was dispensed onto a glass cover slip placed on the silicon disc. The PCR cycle time was then determined by heat transfer through the glass, which took only 0.5 s. A real-time PCR sample with a volume of 100 nl was tested using a FAM probe. As the single PCR device occupied an area of only a few square millimeters, devices could be combined into a parallel system to increase throughput.
Biometric liveness detection using gaze information

This thesis is concerned with liveness detection for biometric systems and in particular for face recognition systems. Biometric systems are well studied and have the potential to provide satisfactory solutions for a variety of applications. However, presentation attacks (spoofng), where an attempt is made at subverting them system by making a deliberate presentation at the sensor is a serious challenge to their use in unattended applications. Liveness detection techniques can help with protecting biometric systems from attacks made through the presentation of artefacts and recordings at the sensor. In this work novel techniques for liveness detection are presented using gaze information. The notion of natural gaze stability is introduced and used to develop a number of novel features that rely on directing the gaze of the user and establishing its behaviour. These features are then used to develop systems for detecting spoofng attempts. The attack scenarios considered in this work include the use of hand held photos and photo masks as well as video reply to subvert the system. The proposed features and systems based on them were evaluated extensively using data captured from genuine and fake attempts. The results of the evaluations indicate that gaze-based features can be used to discriminate between genuine and imposter. Combining features through feature selection and score fusion substantially improved the performance of the proposed features.
An approach for the protection of users' book browsing preference privacy in a digital library

Purpose The problem of privacy protection in digital libraries is causing people to have increasingly extensive concerns. This study aims to design an approach to protect the preference privacy behind users’ book browsing behaviors in a digital library. Design/methodology/approach This paper proposes a client-based approach, whose basic idea is to construct a group of plausible book browsing dummy behaviors, and submit them together with users’ true behaviors to the untrusted server, to cover up users’ sensitive preferences. Findings Both security analysis and evaluation experiment demonstrate the effectiveness of the approach, which can ensure the privacy security of users’ book browsing preferences on the untrusted digital library server, without compromising the usability, accuracy and efficiency of book services. Originality/value To the best of the authors’ knowledge, this paper provides the first attempt to the protection of users’ behavior privacy in digital libraries, which will have a positive influence on the development of privacy-preserving libraries in the new network era.
New pharmacological targets of three Asphodeline species using in vitro and ex vivo models of inflammation and oxidative stress

ABSTRACT This study explored the efficacy of the methanolic extract of three Asphodeline species (A. damascena subsp. rugosa, A. tenuior subsp. tenuiflora var. tenuiflora, and A. cilicica) to protect against hydrogen peroxide (H2O2)-induced lactate dehydrogenase (LDH) activity in HCT116 cells, and also any protective effects against lipopolysaccharides (LPS)-induced nitrite levels, prostaglandin E2 (PGE2) and 8-iso-prostaglandin F2α (8-iso-PGF2α) levels, 5HIAA/5-HT ratio, tumor necrosis factor (TNF)-α and interleukin (IL)-6 gene expression in rat colon specimens. Interestingly, A. tenuior extract was most effective in improving the tested biomarkers, by reducing LDH activity and nitrite level. On the other hand, A. damascena was the only species able to blunt LPS-induced TNF-α gene expression in rat colon specimens. The present findings highlighted the protective effects of Asphodeline extracts via in vitro and ex vivo models of inflammation and oxidative stress, adding new insights to the pharmacological actions of these medicinal plant species. Abbreviations: IBD: inflammatory bowel disease; LPS: lipopolysaccharide; LDH: lactate dehydrogenase; 5HIAA: 5-hydroxyindoleacetic acid; 5-HT: 5-hydroxytryptamine
CIC-IPN@INLI2018: Indian Native Language Identification

In this paper, we describe the CIC-IPN submissions to the shared task on Indian Native Language Identification (INLI 2018). We use the Support Vector Machines algorithm trained on numerous feature types: word, character, part-of-speech tag, and punctuation mark n-grams, as well as character n-grams from misspelled words and emotionbased features. The features are weighted using log-entropy scheme. Our team achieved 41.8% accuracy on the test set 1 and 34.5% accuracy on the test set 2, ranking 3rd in the official INLI shared task scoring.
Identification of Clinical Mold Isolates by Sequence Analysis of the Internal Transcribed Spacer Region, Ribosomal Large-Subunit D1/D2, and β-Tubulin

Background The identification of molds in clinical laboratories is largely on the basis of phenotypic criteria, the classification of which can be subjective. Recently, molecular methods have been introduced for identification of pathogenic molds in clinical settings. Here, we employed comparative sequence analysis to identify molds. Methods A total of 47 clinical mold isolates were used in this study, including Aspergillus and Trichophyton. All isolates were identified by phenotypic properties, such as growth rate, colony morphology, and reproductive structures. PCR and direct sequencing, targeting the internal transcribed spacer (ITS) region, the D1/D2 region of the 28S subunit, and the β-tubulin gene, were performed using primers described previously. Comparative sequence analysis by using the GenBank database was performed with the basic local alignment search tool (BLAST) algorithm. Results For Aspergillus, 56% and 67% of the isolates were identified to the species level by using ITS and β-tubulin analysis, respectively. Only D1/D2 analysis was useful for Trichophyton identification, with 100% of isolates being identified to the species level. Performances of ITS and D1/D2 analyses were comparable for species-level identification of molds other than Aspergillus and Trichophyton. In contrast, the efficacy of β-tubulin analysis was limited to genus identification because of the paucity of database information for this gene. Conclusions The molecular methods employed in this study were valuable for mold identification, although the different loci used had variable usefulness, according to mold genus. Thus, a tailored approach is recommended when selecting amplification targets for molecular identification of molds.
Finite Element Stress Analysis of Applied Forces to Implants and Supporting Tissues Using the “All‐on‐Four” Concept with Different Occlusal Schemes

PURPOSE The aim of this study was to evaluate stress distributions on implants and alveolar bone due to occlusal load produced during chewing by prostheses prepared according to the All-on-Four concept with different occlusal schemes using a finite element analysis method. MATERIALS AND METHODS On standard jaw models, teeth were set in accordance with the basic standards of canine-guided occlusion, group function occlusion, bilateral balanced occlusion (BBO), lingualized occlusion, and monoplane occlusion schemes. Three-dimensional (3D) images of these models were obtained using a surface scanner. Implants, superstructures, the maxilla, and mandible were modeled in the All-on-Four concept with 3D modeling software. Forces were defined on contacts formed in maximum intercuspation, lateral, and protrusive movement position for all 5 occlusion types. Stress outputs were recorded as maximum and minimum principal stresses (Pmax , Pmin ) and von Mises stress values for the implants. RESULTS The highest Pmax value for the maxilla was observed in cortical bone in the group function occlusion during lateral movement (15.56 MPa). For the mandible, the highest Pmax value was observed on the cortical bone in maximum intercuspation of lingualized occlusion (72.75 MPa). The highest Pmin value for the maxilla was observed during the lateral movement in group function and for the mandible in BBO (-29.23 and -86.31 MPa, respectively). The lowest stress values were observed with canine-guided occlusion in all related conditions and on all structures. CONCLUSIONS With the limitations of this simulation study, considering stresses on alveolar bone and implants in All-on-Four applications, the use of canine-guided occlusion may be suggested.
Fast Affine Invariant Image Matching

Methods performing Image Matching by Aﬃne Simulation (IMAS) attain aﬃne invariance by applying a ﬁnite set of aﬃne transforms to the images before comparing them with a Scale In-variant Image Matching (SIIM) method like SIFT or SURF. We describe here how to optimize IMAS methods. First, we detail an algorithm computing a minimal discrete set of aﬃne transforms to be applied to each image before comparison. It yields a full practical aﬃne invariance at the lowest computational cost. The matching complexity of current IMAS algorithms is divided by about 4. Our approach also associates to each image an aﬃne invariant set of descriptors, which is twice smaller than the set of descriptors usually used in IMAS methods, and only 6.4 times larger than the set of similarity invariant descriptors of SIIM methods. In order to reduce the number of false matches, which are inherently more frequent in IMAS approaches than in SIIM, we introduce the notion of hyper-descriptor, which groups descriptors whose keypoints are spatially close. Finally, we also propose a matching criterion allowing each keypoint of the query image to be matched with several keypoints of the target image, in order to deal with situations where an object is repeated several times in the target image.