Miracle-dz/UniFAR-FTUs huggingface dataset:
Discovery and analysis of the first endogenous lentivirus

The lentiviruses are associated with a wide range of chronic diseases in mammals. These include immunodeficiencies (such as HIV/AIDS in humans), malignancies, and lymphatic and neurological disorders in primates, felids, and a variety of wild and domesticated ungulates. Evolutionary analyses of the genomic sequences of modern-day lentiviruses have suggested a relatively recent date for their emergence, but the failure to identify any endogenous, vertically transmitted examples has meant that their longer term evolutionary history and origin remain unknown. Here we report the discovery and characterization of retroviral sequences belonging to a new lentiviral subgroup from the European rabbit (Oryctolagus cuniculus). These viruses, the first endogenous examples described, are >7 million years old and thus provide the first evidence for an ancient origin of the lentiviruses. Despite being ancient, this subgroup contains many of the features found in present-day lentiviruses, such as the presence of tat and rev genes, thus also indicating an ancient origin for the complex regulation of lentivirus gene expression. Although the virus we describe is defective, reconstruction of an infectious progenitor could provide novel insights into lentivirus biology and host interactions.
Rephrasing between Disjunctives and Conditionals: Mental Models and the Effects of Thematic Content

Two experiments are reported that investigate whether the logical equivalence of conditionals and disjunctives is paralleled by a psychological equivalence. In these experiments, subjects rephrased from one form into the other. Experiment 1 demonstrated strong effects of familiarity and causality of rule content. Similar findings were found in Experiment 2 with a different conditional rule syntax. An account of the experiments is given in terms of mental models theory: In this account, task performance can be seen to depend upon the extent to which the model sets used by subjects to generate rephrasings are complete, task content being the most important factor affecting model set completion. A “Minimal Completion” strategy is proposed to operate in the absence of thematic content. The experiments also falsify the long-held assumption that conditionals with negative antecedents are always interpreted as their disjunctive equivalents. This raises doubts about the mental models explanation for matching bias in conditional reasoning.
Angiostrongylus costaricensis : Systematic Review of Case Reports

Introduction: Abdominal angiostrongyliasis is an infrequently diagnosed disease because it is little known and is usually well tolerated. Methods: We carried out a systematic review with PubMed as a search engine for the MedLine database, and we analysed the clinical, epidemiological and analytical parameters of this disease. Results: In total, reports of 27 case have been found, together with a series of 116 patients, which were later augmented up to 194 patients. In the results, we have observed a predominance of male patients, and Costa Rica, Brazil and the United States as the main countries of origin. Typical symptoms include abdominal pain on the right iliac fossa, with leukocytosis and eosinophilia. Discussion: There are some serological diagnostic methods, although lack of standardization leads to most of the diagnoses being reached via pathology. Surgery is the usual treatment approach. Although there are medical options, this is a controversial subject because of the low number of cases published in the literature, which implies an absence of solid studies.
HEMODYNAMIC AND PERFUSION END POINTS FOR VOLEMIC RESUSCITATION IN SEPSIS

Sepsis is the systemic inflammatory response syndrome secondary to a local infection, and severe sepsis and septic shock are the more devastating scenarios of this disease. In the last decade, considerable achievements were obtained in sepsis knowledge, and an international campaign was developed to improve the treatment of this condition. However, sepsis is still one of the most important causes of death in intensive care units. The early stages of sepsis are characterized by a variety of hemodynamic derangements that induce a systemic imbalance between tissue oxygen supply and demand, leading to global tissue hypoxia. This dysfunction, which may occur in patients presenting normal vital signs, can be accompanied by a significant increase in both morbidity and mortality. The early identification of high-risk sepsis patients through tissue perfusion markers such as lactate and venous oxygen saturation is crucial for prompt initiation of therapeutic support, which includes early goal-directed therapy as necessary. The purpose of this article was to review the most commonly used hemodynamic and perfusion parameters for hemodynamic optimization in sepsis, emphasizing the physiological background for their use and the studies that demonstrated their effectiveness as goals of volemic resuscitation.
Ontology-Based Knowledge Discovery on the World-Wide Web

This paper describes SHOE, a set of Simple HTML Ontology Extensions. SHOE allows World-Wide Web authors to annotate their pages with ontology-based knowledge about page contents. We present examples showing how the use of SHOE can support a new generation of knowledge-based search and knowledge discovery tools that operate on the WorM-Wide Web.
Nosocomial Colonization, Septicemia, and Ilickman/Broviac Catheter‐Related Infections in Bone Marrow Transplant Recipients: A 5‐Year Prospective Study

&NA; Abbreviations used in this article: BMT, bone marrow transplantation; CVC, central venous catheter; GVHD, graft‐versus‐host disease; PMNs, polymorphonuclear neutrophils; VOD, veno‐occlu‐sive disease.
Hydrophobic organic contaminant transport property heterogeneity in the Borden Aquifer

We determined that the spatial heterogeneity in aquifer properties governing the reactive transport of volatile organic contaminants is defined by the arrangement of lithofacies. We measured permeability (k) and perchloroethene sorption distribution coefficient (Kd) for lithofacies that we delineated for samples from the Canadian Forces Base Borden Aquifer. We compiled existing data and collected 57 new cores to characterize a 30 m section of the aquifer near the test location of Mackay et al. (1986). The k and Kd were measured for samples taken at six elevations from all cores to create a data set consisting of nearly 400 colocated measurements. Through analysis of variance (corrected for multiple comparisons), we determined that the 12 originally mapped lithofacies could be grouped into five relatively distinct chemohydrofacies that capture the variability of both transport properties. The mean of ln k by lithofacies was related to the grain size and the variance was relatively consistent. In contrast, both the mean and variance of ln Kd were greater for more poorly sorted lithofacies, which were also typically more coarse‐grained. Half of the aquifer sorption capacity occurred in the three highest‐sorbing lithofacies but comprised only 20% of its volume. The model of the aquifer that emerged is that of discontinuous scour‐fill deposits of medium sand, generally characterized by greater Kd and k, within laterally extensive fine‐grained to very fine‐grained sands of lower Kd and k. Our findings demonstrate the importance of considering source rock composition, transport, and deposition processes when constructing conceptual models of chemohydrofacies.
A framework for the Recognition of Human Emotion using Soft Computing models

Human-computer intelligent interaction (HCII) is an emerging field of science. The interaction between human beings and computers will be more natural if computers are able to perceive and respond to human non-verbal communication such as emotions. The most expressive way humans display emotions is through facial expressions. In this paper a method for emotion recognition from facial images has been proposed. The system consists of three steps. At the very outset some pre-processing has been applied on the input image and face features have been extracted from face images before applying the emotion recognition technique. A comparison between two edge detection techniques-Sobel edge detection and Fuzzy logic based edge detection has been shown. Observation of various emotions characterizes that eye exhibits ellipses of different parameters for different types of emotions. Genetic Algorithm has been applied to optimize the ellipse characteristics of the eye feature. Finally a classification has been carried out by using Back-propagation Neural Network (BPNN). The proposed approaches are tested on a number of face images. General Terms Emotion Recognition, Image Processing.
Differential regulation of microtubule‐associated protein 1B (MAP1B) in rat CNS and PNS during development

MAP1B is a major cytoskeletal protein in growing axons and is strongly regulated during brain development. The present studies compare the expression of MAP1B mRNA, the protein, and its phosphorylated isoform in spinal cord and dorsal root ganglia (DRGs) with brain. In spinal cord and brain, MAP1B mRNA levels were highest in early stages of development, decreased several fold during postnatal development, and remained low in adults. In contrast, there were no significant changes of MAP1B mRNA levels during development of DRG and they remained high in adults. The levels of MAP1B protein decreased in brain and spinal cord in parallel with the changes of their mRNA. The protein levels in DRG remained relatively high but declined in the sciatic nerve. Phosphorylated MAP1B was expressed in high levels during the early stages of development in brain, spinal cord, and sciatic nerve and decreased rapidly to undetectable levels postnatally except for sciatic nerve where it remained detectable. Immunohistochemical analysis showed that phosphorylated MAP1B was absent from DRG cell bodies at all stages but was present in axons of DRG and motor neurons in both spinal cord and sciatic nerve. Immunostaining also confirmed Western blot analysis indicating that MAP1B was initially abundant within the spinal cord but was at later stages present only in motor neurons and the central processes of DRG neurons. These results reflect differential distribution of MAP1B isoforms at different stages of development and in different regions of the nervous system. J. Neurosci. Res. 49:319–332, 1997. © 1997 Wiley‐Liss, Inc.
Resting‐state functional connectivity predicts the strength of hemispheric lateralization for language processing in temporal lobe epilepsy and normals

In temporal lobe epilepsy (TLE), determining the hemispheric specialization for language before surgery is critical to preserving a patient's cognitive abilities post‐surgery. To date, the major techniques utilized are limited by the capacity of patients to efficiently realize the task. We determined whether resting‐state functional connectivity (rsFC) is a reliable predictor of language hemispheric dominance in right and left TLE patients, relative to controls. We chose three subregions of the inferior frontal cortex (pars orbitalis, pars triangularis, and pars opercularis) as the seed regions. All participants performed both a verb generation task and a resting‐state fMRI procedure. Based on the language task, we computed a laterality index (LI) for the resulting network. This revealed that 96% of the participants were left‐hemisphere dominant, although there remained a large degree of variability in the strength of left lateralization. We tested whether LI correlated with rsFC values emerging from each seed. We revealed a set of regions that was specific to each group. Unique correlations involving the epileptic mesial temporal lobe were revealed for the right and left TLE patients, but not for the controls. Importantly, for both TLE groups, the rsFC emerging from a contralateral seed was the most predictive of LI. Overall, our data depict the broad patterns of rsFC that support strong versus weak left hemisphere language laterality. This project provides the first evidence that rsFC data may potentially be used on its own to verify the strength of hemispheric dominance for language in impaired or pathologic populations. Hum Brain Mapp, 36:288–303, 2015. © 2014 Wiley Periodicals, Inc.
The Internal Narrative of Desistance

Recent desistance research has emphasized the importance of shifts in offenders' identities to explain cessation from crime. Explanatory weight is given to how the agent reflects and acts upon relevant social circumstances rather than seeing desistance as the product of greater control exerted by the obligations of new roles. This kind of self-reflexivity is achieved through an internal moral conversation that is often couched in terms of agents' ultimate concerns and their relationship with others. In so doing, desisters fashion a narrative identity, which acknowledges yet disclaims past actions and commits them to an ideal future self.
Kainate Receptors

Ionotropic glutamate receptors of the N-methyl-d-aspartate (NMDA)- and AMPA-type, as well as metabotropic glutamate receptors have been extensively invoked in plasticity. Until relatively recently, however, kainate-type receptors (KARs) had been the most elusive to study because of the lack of appropriate pharmacological tools to specifically address their roles. With the development of selective glutamate receptor antagonists, and knockout mice with specific KAR subunits deleted, the functions of KARs in neuromodulation and synaptic transmission, together with their involvement in some types of plasticity, have been extensively probed in the central nervous system. In this review, we summarize the findings related to the roles of KARs in short- and long-term forms of plasticity, primarily in the hippocampus, where KAR function and synaptic plasticity have received avid attention.
On the Capacity Limit of Wireless Channels Under Colored Scattering

It has been generally believed that the multiple-input multiple-output channel capacity grows linearly with the size of antenna arrays. In terms of degrees of freedom, linear transmit and receive arrays of length L in a scattering environment of total angular spread \Ω\ asymptotically have \Ω\L degrees of freedom. In this paper, it is claimed that the linear increase in degrees of freedom may not be attained when scattered electromagnetic fields in the underlying scattering environment are statistically correlated. After introducing a model of correlated scattering, which is referred to as the colored scattering model, we derive a capacity upper bound, assuming that the channel is known perfectly at the receiver and in distribution at the transmitter. Unlike the uncorrelated case, the prelog factor of the capacity, i.e., the number of degrees of freedom, in the colored scattering channel is asymptotically limited by \Ω\·min{L, 1/ ΓI} where Γ is a parameter determining the extent of correlation. In other words, for very large arrays in the colored scattering environment, degrees of freedom can get saturated to an intrinsic limit rather than increasing linearly with the array size.
Suppression of transformed phenotypes of human fibrosarcoma cells by overexpression of recombinant fibronectin.

Loss of fibronectin (FN) from the cell surface has been shown to be closely associated with malignant transformation of cells. To elucidate the role of the FN matrix in the modulation of malignant phenotypes, we overexpressed a full-length cDNA encoding plasma-type FN in HT1080 human fibrosarcoma cells. The cells overexpressing FN adopted a more flattened morphology and deposited a moderately developed FN matrix both in vitro and in vivo, although the level of expression of integrin alpha5beta1 remained unchanged. FN-overexpressing cells exhibited a reduced cell motility on the substratum and grew poorly when injected s.c. into nude mice. Overexpression of FN also suppressed the ability of the tumor cells to proliferate in soft agar, whereas the suppression was reversed by inclusion in soft agar of the Arg-Gly-Asp (RGD)-containing peptide and adhesion-blocking antibodies against the central cell-binding domain of FN. Neither cell motility nor growth potential was altered by overexpression of a truncated form of FN lacking the central cell-binding domain. These results, taken together, indicate that increased deposition of FN in the pericellular matrix per se can suppress the motility and growth potential of tumor cells through interaction with RGD-recognizing integrins, most likely alpha5beta1.
A Combined Boosting And Sampling Approach For Imbalanced Data Classification

Class imbalance is a problem in many application domains. Classifier learns the data-sets, that are imbalanced class distributions. This is the challenging problem in a data mining domain. Many techniques have been used to alleviate the problem of class imbalance, including data sampling and Boosting. A new hybrid sampling/boosting algorithm, for learning from skewed training data. RUSBoost provides a simpler and faster alternative to all traditional datamining algorithms. Compare the performances of RUSBoost and SMOTEBoost, as well as their individual components (Undersampling, Oversampling, Boosting, synthetic minority oversampling technique, and AdaBoost) Data sets from various application domains used for the experiments RUSBoost performed with base learners, and evaluation metrics RUSBoost and SMOTEBoost both outperform the other procedures, and RUSBoost performs comparably to better than the SMOTEBoost while being a simpler and faster technique. Performance results, highly recommend RUSBoost as an attractive alternative classification problem of learners built using imbalanced data.
Adherent Endotoxin on Orthopedic Wear Particles Stimulates Cytokine Production and Osteoclast Differentiation

Aseptic loosening of orthopedic implants is thought to be caused primarily by osteoclast differentiation induced by bone resorptive cytokines produced in response to phagocytosis of implant‐derived wear particles. This study examined whether adherent endotoxin on the wear particles is responsible for inducing osteoclast differentiation as well as production of interleukin‐1β (IL‐1β), IL‐6, and tumor necrosis factor α (TNF‐α). Removal of adherent endotoxin almost completely inhibited the responses to titanium (Ti) particles by both murine marrow cells and human peripheral blood monocytes. In vivo experiments showed that endotoxin removal reduced particle‐induced osteolysis by 50–70%. Addition of lipopolysaccharide (LPS) to the “endotoxin‐free” particles restored their ability to induce cytokine production and osteoclast differentiation in vitro. Moreover, marrow cells from mice that are hyporesponsive to endotoxin because of mutation of Toll‐like receptor 4 induced significantly less cytokine production and osteoclast differentiation in response to Ti particles with adherent endotoxin than did marrow cells from normoresponsive mice. This mutation also resulted in significantly less particle‐induced osteolysis in vivo. Taken together, these results show that adherent endotoxin is involved in many of the biological responses induced by orthopedic wear particles and should stimulate development of new approaches designed to reduce the activity of adherent endotoxin in patients with orthopedic implants.
Is Orentation-Specific Color Adaptation in Human Vision Due to Edge Detectors, Afterimages, or "Dipoles"?

After one looks alternately at red vertical and green horizontal stripes, vertical and horizontal white stripes appear greenish and pink, respectively. This color aftereffect might imply that contour-detecting cells participate in human vision, or might simply be due to afterimages. A procedure that precludes afterimages still yields aftereffects, but sensory units less complex than edge detectors could be responsible.
Review of two books on salutogenesis

The shift from a pathogenic to a salutogenic approach towards health and well-being started in the late 1970s with the work of Antonovsky (1979, 1985, 1987a, 1987b, 1990, 1993) when he introduced the salutogenic paradigm that focuses on health rather than disease. During these years, he conceptualised the construct of sense of coherence to reflect a person's orientation towards handling multiple stressors.
Group B Streptococci serotype distribution in pregnant women in Ghana: assessment of potential coverage through future vaccines

Group B streptococcal (GBS) colonization of pregnant women can lead to subsequent infection of the new‐born and potentially fatal invasive disease. Data on GBS colonization prevalence and serotype distribution from Africa are scarce, although GBS‐related infections are estimated to contribute substantially to infant mortality. In recent years, GBS vaccine candidates provided promising results in phase I and II clinical trials. We aimed to assess the prevalence and serotype distribution of GBS in Ghana since this knowledge is a prerequisite for future evaluation of vaccine trials.
What Works for Female Offenders: A Meta-Analytic Review

Although the question of what works for general offender populations has received considerable attention within the rehabilitation literature, very little research has examined female offenders. The present investigation examined the principles of effective correctional treatment for female offenders through a meta-analytic review. The results indicated that the clinically relevant and psychologically informed principles of human service, risk, need, and responsivity identified in past meta-analytic reviews were associated with enhanced reductions in reoffending.
A new table of constant weight codes

A table of binary constant weight codes of length nl28 is presented. Explicit constructions are given for most of the 600 codes in the table; the majority of these codes are new. The known techniques for constructing constant weight codes are surveyed, and a table of (unrestricted) binary codes of length nl28 is given
CONSORT: Different End-Points of Preoperative Nutrition and Outcome of Bowel Resection of Crohn Disease

Abstract Nutritional therapy cannot only improve nutritional status but also reduce bowel inflammation in Crohn disease (CD). The benefits of preoperative nutritional therapy on outcomes of surgery for CD have been demonstrated. However, the ideal end-points of preoperative nutrition in CD remain elusive. We conducted this study to figure out whether improvement of malnutrition or reduction of inflammation is the better end-point of preoperative nutrition for CD. This was a prospective, randomized study. All patients enrolled received preoperative nutrition with different end-points (improvement of malnutrition, IOM, or reduction of inflammation, ROI). The end-points were defined using serum albumin and body weight gain, and serum C-reactive protein (CRP), respectively. Postoperative complications, rate of fecal diversion, and postoperative recurrence of the disease were compared. A total of 108 patients were randomized and 91 patients (44 in IOM group and 47 in ROI group) completed this study. It took 25.57 ± 11.68 days to achieve ROI and 45.29 ± 18.47 days for IOM (P = 0.0023). After nutritional therapy, serum CRP, CDAI, and serum albumin in both groups improved significantly. But patients in the IOM group had a higher albumin level and body weight gain compared with ROI group (P = 0.0026, P < 0.0001). When comparing postoperative complications, rate of fecal diversion, and postoperative recurrence, no significant differences were noted. Compared with IOM, ROI as the end-point of preoperative nutrition had the same benefits on operative outcomes in CD patients undergoing resection, but could be achieved in a shorter time (NCT01540942).