Miracle-dz/UniFAR-FTUs huggingface dataset:
Bags of Binary Words for Fast Place Recognition in Image Sequences

We propose a novel method for visual place recognition using bag of words obtained from accelerated segment test (FAST)+BRIEF features. For the first time, we build a vocabulary tree that discretizes a binary descriptor space and use the tree to speed up correspondences for geometrical verification. We present competitive results with no false positives in very different datasets, using exactly the same vocabulary and settings. The whole technique, including feature extraction, requires 22 ms/frame in a sequence with 26 300 images that is one order of magnitude faster than previous approaches.
Plasma 24-metabolite Panel Predicts Preclinical Transition to Clinical Stages of Alzheimer’s Disease

We recently documented plasma lipid dysregulation in preclinical late-onset Alzheimer’s disease (LOAD). A 10 plasma lipid panel, predicted phenoconversion and provided 90% sensitivity and 85% specificity in differentiating an at-risk group from those that would remain cognitively intact. Despite these encouraging results, low positive predictive values limit the clinical usefulness of this panel as a screening tool in subjects aged 70–80 years or younger. In this report, we re-examine our metabolomic data, analyzing baseline plasma specimens from our group of phenoconverters (n = 28) and a matched set of cognitively normal subjects (n = 73), and discover and internally validate a panel of 24 plasma metabolites. The new panel provides a classifier with receiver operating characteristic area under the curve for the discovery and internal validation cohort of 1.0 and 0.995 (95% confidence intervals of 1.0–1.0, and 0.981–1.0), respectively. Twenty-two of the 24 metabolites were significantly dysregulated lipids. While positive and negative predictive values were improved compared to our 10-lipid panel, low positive predictive values provide a reality check on the utility of such biomarkers in this age group (or younger). Through inclusion of additional significantly dysregulated analyte species, our new biomarker panel provides greater accuracy in our cohort but remains limited by predictive power. Unfortunately, the novel metabolite panel alone may not provide improvement in counseling and management of at-risk individuals but may further improve selection of subjects for LOAD secondary prevention trials. We expect that external validation will remain challenging due to our stringent study design, especially compared with more diverse subject cohorts. We do anticipate, however, external validation of reduced plasma lipid species as a predictor of phenoconversion to either prodromal or manifest LOAD.
Neural Mechanisms of the Testosterone–Aggression Relation: The Role of Orbitofrontal Cortex

Testosterone plays a role in aggressive behavior, but the mechanisms remain unclear. The present study tested the hypothesis that testosterone influences aggression through the OFC, a region implicated in self-regulation and impulse control. In a decision-making paradigm in which people chose between aggression and monetary reward (the ultimatum game), testosterone was associated with increased aggression following social provocation (rejecting unfair offers). The effect of testosterone on aggression was explained by reduced activity in the medial OFC. The findings suggest that testosterone increases the propensity toward aggression because of reduced activation of the neural circuitry of impulse control and self-regulation.
Immobilization of the Antarctic Bacillus sp. LX-1 α-Galactosidase on Eudragit L-100 for the Production of a Functional Feed Additive

Partially purified α-galactosidase from Bacillus sp. LX-1 was non-covalently immobilized on a reversibly soluble-insoluble polymer, Eudragit L-100, and an immobilization efficiency of 0.93 was obtained. The optimum pH of the free and immobilized enzyme was 6.5 to 7.0 and 7.0, respectively, while there was no change in optimum temperature between the free and immobilized α-galactosidase. The immobilized α-galactosidase was reutilized six times without significant loss in activity. The immobilized enzyme showed good storage stability at 37°C, retaining about 50% of its initial activity even after 18 d at this temperature, while the free enzyme was completely inactivated. The immobilization of α-galactosidase from Bacillus sp. LX-1 on Eudragit L-100 may be a promising strategy for removal of α-galacto-oligosaccharides such as raffinose and stachyose from soybean meal and other legume in feed industry.
Computational Feasibility of Clustering under Clusterability Assumptions

It is well known that most of the common clustering objectives are NP-hard to optimize. In practice, however, clustering is being routinely carried out. One approach for providing theoretical understanding of this seeming discrepancy is to come up with notions of clusterability that distinguish realistically interesting input data from worst-case data sets. The hope is that there will be clustering algorithms that are provably efficient on such 'clusterable' instances. In other words, hope that "Clustering is difficult only when it does not matter" (CDNM thesis, for short). We believe that to some extent this may indeed be the case. This paper provides a survey of recent papers along this line of research and a critical evaluation their results. Our bottom line conclusion is that that CDNM thesis is still far from being formally substantiated. We start by discussing which requirements should be met in order to provide formal support the validity of the CDNM thesis. In particular, we list some implied requirements for notions of clusterability. We then examine existing results in view of those requirements and outline some research challenges and open questions.
Disorders of fructose metabolism

There are fundamental differences between the metabolic fate of fructose and of glucose. Whereas the metabolism of glucose is controlled by hormones such as insulin, fructose uptake and phosphorylation in the liver occurs independently of hormones and its ultimate metabolic fate is unpredictable. Essential fructosuria, a harmless inherited anomaly of fructose metabolism, is the least harmful of the disorders of fructose metabolism. Hereditary fructose intolerance and fructose-1,6-diphosphatase deficiency are discussed in greater detail with regard to biochemical abnormalities and clinical aspects. HFI is most serious in bottle-fed infants who cannot reject their sucrose-containing diet. Patients with HFI will have no clinical symptoms if kept on a fructose-free diet. In contrast, patients with fructose-1,6-diphosphatase deficiency can tolerate frucose. However, severe infections precipitate attacks of hypoglycaemia and lactic acidosis.
Expectation Particle Belief Propagation

We propose an original particle-based implementation of the Loopy Belief Propagation (LPB) algorithm for pairwise Markov Random Fields (MRF) on a continuous state space. The algorithm constructs adaptively efficient proposal distributions approximating the local beliefs at each note of the MRF. This is achieved by considering proposal distributions in the exponential family whose parameters are updated iterately in an Expectation Propagation (EP) framework. The proposed particle scheme provides consistent estimation of the LBP marginals as the number of particles increases. We demonstrate that it provides more accurate results than the Particle Belief Propagation (PBP) algorithm of Ihler and McAllester (2009) at a fraction of the computational cost and is additionally more robust empirically. The computational complexity of our algorithm at each iteration is quadratic in the number of particles. We also propose an accelerated implementation with sub-quadratic computational complexity which still provides consistent estimates of the loopy BP marginal distributions and performs almost as well as the original procedure.
Lead concentrations in semen of healthy men without occupational exposure to lead.

Lead analyses were performed by atomic absorption spectrometry of semen and blood specimens from 21 medical students and technicians (ages 19 to 41 years) who had no occupational or avocational exposure to lead (Pb). Seminal Pb concentrations averaged 5.9 (S.D. +/- 2.7) microgram per dl (range = 1.0 to 11), and blood Pb concentrations averaged 13.1 (S.D. +/- 3.5) microgram per dl (range = 7.0 to 19). Sperm counts averaged 54 X 10(6) (S.D. +/- 29 X 10(6)) sperm per ml (range = 13 X 10(6) to 120 X 10(6)). Seminal protein concentrations averaged 2.9 (S.D. +/- 0.5) g per dl (range = 2.0 to 4.0). No significant correlations were found between seminal Pb concentrations and blood Pb concentrations or between seminal Pb concentrations and sperm counts. In each subject, the concentration of seminal Pb was less than or equal to the concentration of blood Pb. These measurements are the first published data on seminal Pb concentrations in healthy men, and they serve as reference values for measurements of Pb in semen from Pb-poisoned men.
Peripheral insulin resistance predicts liver damage in nondiabetic subjects with nonalcoholic fatty liver disease

Surrogate indexes of insulin resistance and insulin sensitivity are widely used in nonalcoholic fatty liver disease (NAFLD), although they have never been validated in this population. We aimed to validate the available indexes in NAFLD subjects and to test their ability to predict liver damage also in comparison with the NAFLD fibrosis score. Surrogate indexes were validated by the tracer technique (6,6‐D2‐glucose and U‐13C‐glucose) in the basal state and during an oral glucose tolerance test. The best‐performing indexes were used in an independent cohort of 145 nondiabetic NAFLD subjects to identify liver damage (fibrosis and nonalcoholic steatohepatitis). In the validation NAFLD cohort, homeostasis model assessment of insulin resistance, insulin to glucose ratio, and insulin sensitivity index Stumvoll had the best association with hepatic insulin resistance, while peripheral insulin sensitivity was most significantly related to oral glucose insulin sensitivity index (OGIS), insulin sensitivity index Stumvoll, and metabolic clearance rate estimation without demographic parameters. In the independent cohort, only oral glucose tolerance test‐derived indexes were associated with liver damage and OGIS was the best predictor of significant (≥F2) fibrosis (odds ratio = 0.76, 95% confidence interval 0.61‐0.96, P = 0.0233) and of nonalcoholic steatohepatitis (odds ratio = 0.75, 95% confidence interval 0.63‐0.90, P = 0.0021). Both OGIS and NAFLD fibrosis score identified advanced (F3/F4) fibrosis, but OGIS predicted it better than NAFLD fibrosis score (odds ratio = 0.57, 95% confidence interval 0.45‐0.72, P < 0.001) and was also able to discriminate F2 from F3/F4 (P < 0.003). Conclusion: OGIS is associated with peripheral insulin sensitivity in NAFLD and inversely associated with an increased risk of significant/advanced liver damage in nondiabetic subjects with NAFLD. (Hepatology 2016;63:107–116)
Persistent fecal Salmonella shedding in five dairy herds.

OBJECTIVE To monitor patterns of Salmonella fecal shedding in naturally infected dairy herds, determine the association between fecal shedding and individual animal production measures, and evaluate potential risk factors for shedding of Salmonella organisms among cattle in dairy herds. DESIGN Longitudinal study. SAMPLE POPULATION 5 Ohio dairy herds. PROCEDURE For 3 herds, fecal samples were collected from all mature cows and unweaned calves 7 times during an 18-month period. For the remaining 2 herds, fecal samples were collected from 50 lactating cows 6 times during a 12-month period. Individual animal production records for 3 herds were used to examine associations between individual fecal Salmonella shedding status and 305-day mature-equivalent milk production, somatic cell count, milk fat content, and milk protein content. Multivariable logistic regression was used to test for associations between fecal shedding status and breed, lactation status, lactation number, and duration of lactation. RESULTS None of the adult animals had clinical signs of salmonellosis, but prevalence of fecal Salmonella shedding at individual collection times ranged from 0 to 99% for cows and from 0 to 67% for unweaned calves. Mature cows were more likely to be shedding Salmonella organisms than were unweaned calves. Within herds, lactation status and duration of lactation for individual animals were associated with Salmonella shedding status. Salmonella fecal shedding status was not associated with individual cow production measures. CONCLUSIONS AND CLINICAL RELEVANCE Results suggest that subclinical fecal Salmonella shedding can persist in dairy herds for up to 18 months with no measurable effects on health or production of individual cows.
Cell cycle regulation during plant growth and development, gene expression studies in Arabidopsis thaliana (L.) Heynh.

Plant specific cell cycle regulation in response to developmental and environmental signals was investigated at the level of gene expression in the model plant Arabidopsis thaliana (L.) Heynh. Specific attention was paid to the regulation of the mitotic cyclin CYCB1;1, by means of a mutant approach, during lateral root development and in salt stress conditions. Analysis of the activity of a GUS reporter line of CYCB1:1 promoter (CYCB1;1::uidA) in anatomical sections of the wild type root apical meristem revealed specific localization into the cortical and epidermal cell layers. With the aim to identify factors acting in trans on the CYCB1:1 promoter the CYCB1;1::uidA line was targeted to chemical mutagenesis. In a reduced CYCB1;1::uidA mutant (rcb), identified from the mutant screen, the meristematic expression was absent while it was ectopically induced in lateral root cap initial cells, however, without effect on root morphology. In the root cap of rcb the CYCB1:1 promoter activity appeared at the time of root cap maturation and at the time the expression disappeared from the wild type root cap, indicating that the CYCB1;1 promoter was under a cell-type specific regulation mediating both positive and negative regulation depending on the tissue. Candidate genes for CYCB1;1 promoter regulators were identified from a microarray study. To investigate the effects of phytohormone auxin on the cell cycle regulation during lateral root organ development a lateral root inducible (LRI) system was developed. The system was based on successive treatments with polar auxin transport inhibitor (NPA) and exogenous auxin (NAA) allowing G1 phase specific cell cycle block on NPA and fast and uniform cell cycle reactivation in the xylem pole pericycle upon NAA treatment. Auxin was shown to downregulate the CDK inhibitor KRP2 gene, thereby releasing the cell cycle block. Development of a synchronized lateral root inducible (LRI) system allowed for the first time genome wide expression analysis of the developmental process and thereby characterization of putative signaling cascades involved. Upon auxin signal perception two of the auxin-signaling systems, the Aux/IAA and heterotrimeric G protein alpha dependent responses were initiated. The G1-to-S phase transition was activated within four hours as marked by induction of cell cycle marker genes as well as DNA replication and protein synthesis related genes. Thereafter G2-to-M phase specific genes were induced together with a new set of signal transduction genes.
Evaluation of gelatinases and IL-6 in the cerebrospinal fluid of patients with optic neuritis, multiple sclerosis and other inflammatory neurological diseases

The activities of the metalloproteinase gelatinase B, and the presence of IL‐6, an inducer of metalloproteinase inhibitors, were investigated in CSF samples of 190 patients with multiple sclerosis (MS; n = 55), optic neuritis (ON; n = 46), other inflammatory neurological diseases (OIND; n = 27) or control patients (CON) with non‐inflammatory neurological diseases (n = 62). IL‐6, measurable as hybridoma growth factor activity (detection limit 3 pg/ml), was found in only four of these 190 CSF samples (three OIND, one CON). Elevated CSF gelatinase B levels were detected in 40%, 35% and 54% of the patients with MS, ON and OIND, respectively, while all control CSFs were devoid of gelatinase B activity. Clinical and laboratory data were compared with gelatinase B levels. No correlation was found between the CSF cytoses and gelatinase B levels, suggesting that this enzyme in the CSF originates from CNS lesions rather than from CSF cells. However, the occurrence of the gelatinase B significantly correlated with the IgG index in the MS patient group. This study stimulates further investigation into the possible usage of protease inhibition in demyelinating diseases.
Diversities in biomarker compositions of Carboniferous–Permian humic coals in the Ordos Basin, China

ABSTRACT The molecular composition of Carboniferous–Permian coals in the maturity range from 0.66 to 1.63% vitrinite reflectance has been analysed using organic geochemistry to investigate the factors influencing the biomarker compositions of humic coals. The Carboniferous–Permian coal has a variable organofacies and is mainly humic-prone. There is a significant difference in the distribution of saturated and aromatic hydrocarbons in these coals, which can be divided into three types. The Group A coals have biomarker compositions typical of humic coal, characterised by high Pr/Ph ratios, a lower abundance of tricyclic terpanes with a decreasing distribution from C19 tricyclic terpane to C24 tricyclic terpane and a high number of terrigenous-related biomarkers, such as C24 tetracyclic terpane and C29 steranes. The biomarker composition of Group B coals, which were deposited in a suboxic environment, have a higher abundance of rearranged hopanes than observed in Group A coals. In contrast, in Group C coals, the Pr/Ph ratio is less than 1.0, and the sterane and terpane distributions are very different from those in groups A and B. Group C coals generally have abnormally abundant tricyclic terpanes with a normal distribution maximising at the C23 peak; C27 steranes predominates in the m/z 217 mass fragmentograms. The relationships between biomarker compositions, thermal maturity, Pr/Ph ratios and depositional environments, indicate that the biomarker compositions of Carboniferous–Permian coals in Ordos Basin are mainly related to their depositional environment. This leads to the conclusion that the biomarker compositions of groups A and B coals collected from Shanxi and Taiyuan formations in the northern Ordos Basin are mainly related to their marine–terrigenous transitional environment, whereas the biomarker compositions for the Group C coals from Carboniferous strata and Shanxi Formation in the eastern Ordos Basin are associated with marine incursions.
An Empirical Analysis of Neurofeedback Using PID Control Systems

Neurofeedback systems can be modeled as closed-loop control systems with negative feedback. However, little work to date has investigated the potential of this representation in gaining a better understanding of the actual dynamics of neurofeedback towards explaining subjects' performance. In this paper, we analyze neurofeedback training data through a PID control model. We first show that PID model fitting can produce curves that are qualitatively aligned to the measured BCI signal. Secondly, we examine how brain activity during neurofeedback can be related to common characteristics of control systems. For this, we formalized a pre-existing neurofeedback EEG experiment using a Simulink® model that captures both the neural activity and the external algorithm that was utilized to generate the feedback signal. We then used a regression model to fit individual trial data to PID coefficients for the control model. Our results suggest that successful trials tend to be associated to higher average values of Ki, which represents the error-reducing component of the PID controller. It hints that convergence in successful neurofeedback is progressive but complete in approaching the target.
Outcomes of speech-language pathology following stroke: Investigation of inpatient rehabilitation and rehabilitation in the home programs

Speech-language pathology outcomes following stroke are poorly understood, and potential predictors of these, such as age and therapy input have not been well documented. For 12 months, the Australian Therapy Outcome Measures (AusTOMs) for Speech Pathology scales were used to rate swallowing and language outcomes for patients (n = 63) receiving rehabilitation post stroke. Outcomes were compared by service type (inpatient versus home based), amount of input and patient age. Greatest improvement was seen on the Swallowing scale. There was no difference in outcomes of inpatients compared to home based rehabilitation patients. There was a trend towards better outcomes with increasing input for the Swallowing scale and for Participation Restriction and Distress/Wellbeing domains. Patients less than 75 years of age had better Participation Restriction and Distress/Wellbeing outcomes, compared to older patients. These results align with previous studies, suggesting that inpatient and home based service models may be equally effective post stroke. Therapy input and patient age were related to some, but not all, domains of the AusTOMs, and these results may have implications for patient management. They should also direct future research to further explore these relationships; for example, to identify optimal input to achieve best outcomes.
A Primary Care–Based, Multicomponent Lifestyle Intervention for Overweight Adolescent Females

BACKGROUND AND OBJECTIVE: Most clinic-based weight control treatments for youth have been designed for preadolescent children by using family-based care. However, as adolescents become more autonomous and less motivated by parental influence, this strategy may be less appropriate. This study evaluated a primary care–based, multicomponent lifestyle intervention specifically tailored for overweight adolescent females. METHODS: Adolescent girls (N = 208) 12 to 17 years of age (mean ± SD: 14.1 ± 1.4 years), with a mean ± SD BMI percentile of 97.09 ± 2.27, were assigned randomly to the intervention or usual care control group. The gender and developmentally tailored intervention included a focus on adoptable healthy lifestyle behaviors and was reinforced by ongoing feedback from the teen’s primary care physician. Of those randomized, 195 (94%) completed the 6-month posttreatment assessment, and 173 (83%) completed the 12-month follow-up. The primary outcome was reduction in BMI z score. RESULTS: The decrease in BMI z score over time was significantly greater for intervention participants compared with usual care participants (−0.15 in BMI z score among intervention participants compared with −0.08 among usual care participants; P = .012). The 2 groups did not differ in secondary metabolic or psychosocial outcomes. Compared with usual care, intervention participants reported less reduction in frequency of family meals and less fast-food intake. CONCLUSIONS: A 5-month, medium-intensity, primary care–based, multicomponent behavioral intervention was associated with significant and sustained decreases in BMI z scores among obese adolescent girls compared with those receiving usual care.