Miracle-dz/UniFAR-FTUs huggingface dataset:
Spatial scale and abundance patterns of large fish communities in freshwater marshes of the Florida Everglades

Anthropogenic habitat alterations and water-management practices have imposed an artificial spatial scale onto the once contiguous freshwater marshes of the Florida Everglades. To gain insight into how these changes may affect biotic communities, we examined whether variation in the abundance and community structure of large fishes (SL > 8 cm) in Everglades marshes varied more at regional or intraregional scales, and whether this variation was related to hydroperiod, water depth, floating mat volume, and vegetation density. From October 1997 to October 2002, we used an airboat electrofisher to sample large fishes at sites within three regions of the Everglades. Each of these regions is subject to unique water-management schedules. Dry-down events (water depth <10 cm) occurred at several sites during spring in 1999, 2000, 2001, and 2002. The 2001 dry-down event was the most severe and widespread. Abundance of several fishes decreased significantly through time, and the number of days post-dry-down covaried significantly with abundance for several species. Processes operating at the regional scale appear to play important roles in regulating large fishes. The most pronounced patterns in abundance and community structure occurred at the regional scale, and the effect size for region was greater than the effect size for sites nested within region for abundance of all species combined, all predators combined, and each of the seven most abundant species. Non-metric multi-dimensional scaling revealed distinct groupings of sites corresponding to the three regions. We also found significant variation in community structure through time that correlated with the number of days post-dry-down. Our results suggest that hydroperiod and water management at the regional scale influence large fish communities of Everglades marshes.
Ultrasonic assessment of the effects of self-assembling peptide scaffolds on preventing enamel demineralization

Abstract Objectives. This study evaluates the effect of self-assembling peptide P11-4 (Curodont Repair, CDR) on bovine enamel remineralization by measuring changes in ultrasonic propagation velocity. Methods. Six specimens per group were prepared by sectioning bovine teeth into enamel blocks. These blocks were then immersed in lactic acid buffer solution (pH = 4.75) for 10 min twice a day and stored in artificial saliva. Other specimens were first treated with CDR, followed by a 10-min immersion in the lactic acid buffer solution twice a day, before storage in artificial saliva. The propagation time of longitudinal ultrasonic waves was measured using a pulser/receiver. Six specimens were used for each treatment protocol. The obtained data were statistically analyzed using ANOVA followed by Tukey’s honestly significant difference tests (α = 0.05). Specimens were observed using laser scanning microscopy and scanning electron microscopy. Results. Sonic velocity was found to decrease with time for specimens stored in the demineralizing solution. On the other hand, increases in sonic velocity were found for specimens treated with CDR. These specimens also exhibited signs of mineral deposition. Conclusions. By measuring the ultrasonic propagation velocity, it can be concluded that CDR application has an ability to promote bovine enamel remineralization.
Herpes Simplex Virus 1 Regulatory Protein ICP22 Interacts with a New Cell Cycle-Regulated Factor and Accumulates in a Cell Cycle-Dependent Fashion in Infected Cells

ABSTRACT The herpes simplex virus 1 infected cell protein 22 (ICP22), the product of the α22 gene, is a nucleotidylylated and phosphorylated nuclear protein with properties of a transcriptional factor required for the expression of a subset of viral genes. Here, we report the following. (i) ICP22 interacts with a previously unknown cellular factor designated p78 in the yeast two-hybrid system. The p78 cDNA encodes a polypeptide with a distribution of leucines reminiscent of a leucine zipper. (ii) In uninfected and infected cells, antibody to p78 reacts with two major bands with an apparentM r of 78,000 and two minor bands with apparentM rs of 62,000 and 55,000. (ii) p78 also interacts with ICP22 in vitro. (iii) In uninfected cells, p78 was dispersed largely in the nucleoplasm in HeLa cells and in the nucleoplasm and cytoplasm in HEp-2 cells. After infection, p78 formed large dense bodies which did not colocalize with the viral regulatory protein ICP0. (iv) Accumulation of p78 was cell cycle dependent, being highest very early in S phase. (v) The accumulation of ICP22 in synchronized cells was highest in early S phase, in contrast to the accumulation of another protein, ICP27, which was relatively independent of the cell cycle. (vi) In the course of the cell cycle, ICP22 was transiently modified in an aberrant fashion, and this modification coincided with expression of p78. The results suggest that ICP22 interacts with and may be stabilized by cell cycle-dependent proteins.
Specific Copper Transfer from the Cox17 Metallochaperone to Both Sco1 and Cox11 in the Assembly of Yeast Cytochrome c Oxidase*

The assembly of the copper sites in cytochrome c oxidase involves a series of accessory proteins, including Cox11, Cox17, and Sco1. The two mitochondrial inner membrane proteins Cox11 and Sco1 are thought to be copper donors to the CuB and CuA sites of cytochrome oxidase, respectively, whereas Cox17 is believed to be the copper donor to Sco1 within the intermembrane space. In this report we show Cox17 is a specific copper donor to both Sco1 and Cox11. Using in vitro studies with purified proteins, we demonstrate direct copper transfer from CuCox17 to Sco1 or Cox11. The transfer is specific because no transfer occurs to heterologous proteins, including bovine serum albumin and carbonic anhydrase. In addition, a C57Y mutant of Cox17 fails to transfer copper to Sco1 but is competent for copper transfer to Cox11. The in vitro transfer studies were corroborated by a yeast cytoplasm expression system. Soluble domains of Sco1 and Cox11, lacking the mitochondrial targeting sequence and transmembrane domains, were expressed in the yeast cytoplasm. Metallation of these domains was strictly dependent on the co-expression of Cox17. Thus, Cox17 represents a novel copper chaperone that delivers copper to two proteins.
Application of laplace transform in well test interpretation - an example of tahe oilfield cavity-fractured reservoirs in tarim basin

The oil and gas distribution is controlled by some factors in the cavity-fractured reservoirs, such as multiple reservoir formation, different epigenetic transformation induced destroys, heterogeneity of the reservoir space and so on, which lead to difference in hydrocarbon migration and accumulation and the extremely uneven distribution of reservoir properties. Constrained by the model, conventional analytical solution of well test analysis theory cannot meet such needs to solve the seepage in the cavity-fractured reservoirs. A new well test interpretation model of wells drilled in cavity was presented in the paper and a corresponding mathematical model was built up, Laplace transform and Stehfest reverser method was used to solve the model. The influences of inter-porosity flow coefficient and size of cavity to the bottom pressure response were analyzed, obtained the rules: when the size of cavity is constant, the smaller inter-porosity flow coefficient is, the later the seepage stage will emerge, the size of inter-porosity flow coefficient only affects the duration of early curve; when the size of inter-porosity flow coefficient is constant, the smaller the cavity is, the more obvious seepage stage will reflect. Early curve parallel to the different sizes cavity, the smaller cavity is, the larger the intercept will be. Well test interpretation method for wells drilled in cavity of cavity-fractured reservoirs was presented, practical software was developed. Finally, the new well test model was used to analysis one well test data in Tahe Reservoir and the explanation of well test accorded with the result of geological model and drilling data.
Time-Dependent Adhesive Interaction of Osteoblastic Cells with Polished Titanium Alloyed Implant Surfaces

Aim Design optimization and surface modifications of orthopedic implants are focused on adhesive properties depending on specific applications. To obtain an in vitro understanding of the adhesion interaction of bone cells on implant surfaces the time-dependent adhesion behavior of osteoblastic cells was studied. Materials and Methods MG-63 osteoblastic cells were seeded on discs of polished titanium alloy (Ti6Al4V) and allowed to adhere for various time periods (1 to 48 h). Using a spinning disc device and a confocal laser scanning microscope (LSM) the shear stress required to detach the bone cells from the substrate was determined. An approximation of the adhesion force was calculated from measurements of cell height and contact radius. Results Shear stress ranged from 40.4 N/m2 to 82.4 N/m2 showing an increase in cell adhesion reaching a maximum after 6 h before decreasing significantly. Using the cell height and contact radii, measured for the various time periods, the lowest adhesion force of 232 nN was approximated after 1 h cell adhesion and analogous to the adhesion strength measurements, the highest of 664 nN after 6 h. Generally, cell adhesion decreased at incubation times longer than 6 h before an increase after 48 h was observed once again. Conclusions differences in adhesion behavior over time indicate dynamic cell-substrate interactions because of cell migration and proliferation processes. The study stresses the importance of calculating the adhesion force rather than shear stress to gain more expressive data regarding cell adhesion.
Semantic Relation Classification by Bi-directional LSTM Architecture

Semantic relation extraction is a meaningful task in NLP that could provide some helpful information and semantic relation classification attracts many people to research it. This paper mainly introduces a Bi-direction LSTM (long short-term memory) deep neutral network and the parameter of embedding layer, and this network can solve the problem of over-fitting. And then according to the text of dataset, I propose a new idea to optimize the input structure and sequence padding.
Prospective Study of the Prevalence, Genotyping, and Clinical Relevance of Dientamoeba fragilis Infections in an Australian Population

ABSTRACT A prospective study was conducted over a 30-month period, in which fecal specimens from 6,750 patients were submitted to the Department of Microbiology at St. Vincent's Hospital, Sydney, Australia. Trophozoites of Dientamoeba fragilis were detected in 60 (0.9%) patients by permanent staining, and confirmation was performed by PCR. Gastrointestinal symptoms were present in all patients, with diarrhea and abdominal pain the most common symptoms. Thirty-two percent of patients presented with chronic symptoms. The average age of infected patients was 39.8 years. No correlation was found between D. fragilis and Enterobius vermicularis, a proposed vector of transmission for D. fragilis. The genetic diversity of 50 D. fragilis isolates was examined by PCR, and the PCR products were analyzed for the presence of restriction fragment length polymorphisms. These results showed no variation in the small-subunit rRNA gene and demonstrated a single genotype for all Australian isolates. This study shows the potential pathogenic properties of D. fragilis and the need for all laboratories to routinely test for this organism.
Environment mapping & interpretation by drone

In this paper we present the processing chain for geometric and semantic mapping of a drone environment that we developed for search-and-rescue purposes. A precise 3D modelling of the environment is computed using video and (if available) Lidar data captured during the drone flight. Then semantic mapping is performed by interactive learning on the model, thus allowing generic object detection. Finally, tracking of moving objects are performed in the video stream and localized in the 3D model, thus giving a global view of the situation. We assess our system on real data captured on various test locations.
Dual use of cigarettes and smokeless tobacco among South African adolescents.

OBJECTIVES To determine factors associated with dual use of tobacco products in a population of black South African adolescents. METHODS Data were obtained from a self-administered questionnaire completed by a representative sample of grade 8 students from 21 randomly selected secondary state schools in the Limpopo Province, South Africa (n=1878). RESULTS Of the respondents, 11.4% used smokeless tobacco (SLT), and 55.2% of SLT users also smoked cigarettes (dual users). Dual users were more likely to be vulnerable to depression, engage in binge drinking, smoke cannabis, and attend schools without rules against smoking. CONCLUSION Dual tobacco use forms part of multiple-risk-taking behavior.
On Reducing Dimensionality of Dissimilarity Matrices for Optimizing DBC - An Experimental Comparison

One problem of dissimilarity-based classifications (DBCs) is the high dimensionality of dissimilarity matrices. To address this problem, two kinds of solutions have been proposed in the literature: prototype selection (PS) based methods and dimensionality reduction (DR) based methods. The DR-based method consists of building the dissimilarity matrices using all the available training samples and subsequently applying some of the standard DR schemes. On the other hand, the PS-based method works by directly choosing a small set of representatives from the training samples. Although DR-based and PS-based methods have been explored separately by many researchers, not much analysis has been done on the study of comparing the two. Therefore, this paper aims to find a suitable method for optimizing DBCs by a comparative study. In the experiments, four DR and four PS methods are used to reduce the dimensionality of the dissimilarity matrices, and classification accuracies of the resultant DBCs trained with two real-life benchmark databases are analyzed. Our empirical evaluation on the two approaches demonstrates that the DR-based method can improve the classification accuracies more than the PS-based method. Especially, the experimental results show that the DR-based method is clearly more useful for nonparametric classifiers, but not for parametric ones.
Validity of self-report in alcoholism research: results of a Veterans Administration Cooperative Study.

The validity of self-report in alcoholism treatment research is controversial. Our recently completed Veterans Administration Cooperative Study evaluating the efficacy of disulfiram treatment for alcoholism provided an opportunity to assess the validity of self-report. To assess treatment response, patients and household contacts were interviewed at seven scheduled points during the 1 year of follow-up. Blood specimens also were obtained from the patients at these times and were analyzed for ethanol. Eighty-eight percent of the patient and/or collateral interviews were obtained at 6 months and 90% at 1 year. The mean number of blood and urine specimens collected per patient was 4.3 and 14.4, respectively. Outcome criteria included continuous abstinence during the year and total number of drinking days. Continuous abstinence: If we had had only the patients' self reports, we would have significantly underestimated the percentage of men who drank. By self-report 58.7% (355/605) relapsed whereas the combination of self report, collaterals' reports, and laboratory tests indicated that 72.4% (438/605) drank (p less than 0.001). Using Bayes' theorem, the conditional probability that a patient is continuously abstinent for 1 year when he so claims is 65%. Total drinking days: Of the 213 patient-collateral pairs each of whom provided all seven scheduled interviews, 46.9% (100/213) agreed on the total number of drinking days during the year. (ABSTRACT TRUNCATED AT 250 WORDS)
Trajectory optimization of COmpliant HuMANoid (COMAN) robot arm using path parameter based dynamic programming

In this paper, the problem of trajectory optimization for the COmpliant huMANoid robot (COMAN) arm is solved by Dynamic Programming. It is based on dimensionality reduction and uses a path parameter to convert the dynamical equations of the robotic manipulator to a set of second order differential equations. First, the path parameter is calculated from the given geometrical path information and then the path parameter based reduced dynamical equations and the terminal conditions are described in the discretized form. Bellman's optimality principle is applied to calculate the minimum performance index and to optimize the objective function. To show the effectiveness of path parameter based Dynamic Programming approach, it is tested on a simulation of the COMAN robot arm and the obtained optimal results are compared in terms of numerical accuracy and computational time with the optimal solutions obtained by other state-of-the-art techniques.
New evaluation framework for human-assistive devices based on humanoid robotics

This paper presents the new application of a humanoid robot as an evaluator of human-assistive devices. The reliable and objective evaluation framework for assistive devices is necessary for making industrial standards in order that those devices are used in various applications. In this framework, we utilize a recent humanoid robot with its high similarity to humans, human motion retargeting techniques to a humanoid robot, and identification techniques of robot’s mechanical properties. We also show two approaches to estimate supporting torques from the sensor data, which can be used properly according to the situations. With the general formulation of the wire-driven multi-body system, the supporting torque of passive assistive devices is also formulated. We evaluate a passive assistive wear ‘Smart Suit Lite (SSL)’ as an example of device, and use HRP-4 as the humanoid platform. Graphical Abstract
Mitochondrial DNA Sequences of Triatomines (Hemiptera: Reduviidae): Phylogenetic Relationships

Abstract The phylogenetic relationships among 18 species of Triatominae were inferred based on mitochondrial DNA (mtDNA) sequences. The species of Triatoma included 11 belonging to the infestans complex [T. infestans (Klug), T. guasayana Wygodzinsky & Abalos, T. sordida (Stål), T. platensis Neiva, T. brasiliensis Neiva, T. rubrovaria (Blanchard), T. vitticeps (Stål), T. delpontei Romaña & Abalos, T. maculata (Erichson), T. patagonica Del Ponte, and T. matogrossensis Leite & Barbosa] and four others of the same genus but of different complexes [T. circummaculata (Stål), T. protracta (Uhler), T. dimidiata (Latreille), and T. mazzottii Usinger]. As possible outgroups we used Mepraia spinolai Mazza, Panstrongylus megistus (Burmeister), and Rhodnius prolixus Stål. We analyzed mtDNA fragments of the 12S and 16S ribosomal RNA genes from each of the 18 species, as well as of the cytochrome oxidase I (COI) gene from nine. The 12S, 16S, and COI gene sequences were analyzed individually and combined. All of the phylogenetic analyses unambiguously supported two clusters: one including T. infestans, T. platensis, and T. delpontei, and the other T. sordida and T. matogrossensis. Inclusion of T. circummaculata into the infestans complex was confirmed, although this is in disagreement with the morphological classification. On the other hand, our analyses showed that T. dimidiata is closely related to a phyllosoma complex species, T. mazzottii. This is consistent with the tentative classification previously made based on morphological characters. The issue of the monophyly of the genus Triatoma remains unresolved.
INTERSPECIFIC HYBRIDS OF DROSOPHILA HETERONEURA AND D. SILVESTRIS I. COURTSHIP SUCCESS

Drosophila heteroneura and D. silvestris are well‐defined, sympatric species of the planitibia subgroup of Hawaiian Drosophila. D. silvestris can be subdivided into two allopatric morphotypes that differ in the number of bristle rows on the front tibia (two rows versus three rows). We measured courtship success of intraspecific and interspecific hybrids as the proportion of females inseminated during a two‐week period with a single sib male. Proportions were arcsin‐transformed so that the values were asymptotically normal in distribution, and tests of homogeneity and of mean differences were performed. Of key importance is the discovery of genetic variation for the proportion of inseminated females within both D. heteroneura and D. silvestris. The interspecific crosses and the D. silvestris intraspecific crosses also provide evidence for a coadapted gene complex with some dominance or heterosis. This coadapted gene complex correlates with the morphotypes of these flies, rather than with the D. heteroneura/D. silvestris contrasts per se. This observation stresses the importance of recognizing both behavioral and morphological components of the mate‐recognition system. The incompatible coadaptation that separates the two‐row from the three‐row forms also supports recent molecular studies which indicate that the three‐row form split from the two‐row form prior to the split between D. heteroneura and two‐row D. silvestris. The observations of intraspecific variability and coadaptation support the predictions of a genetic‐transilience model which explains the origin of a new mate‐recognition system in terms of sexual selection in the context of a founder‐flush event.
Guided Imagery and Relaxation Audio for Children with Cancer: Development and Evaluation

The study aims to develop, validate and evaluate a Guided Imagery and Relaxation (GIR) audio in Bahasa Malaysia, serving as one of the coping tools for children with cancer. Based on extensive review, GIR script was developed by a clinical psychologist. Panels of experts including pediatric oncologists and psychiatrists conducted initial assessment at multiple stages of hearing sessions. The final version of the audio was pre-recorded in MP3 player for evaluation. Face and content validation of 3 × approximately 5 minutes duration of GIR audio series were obtained via experts’ reports. Twenty-three participants (5 adults, 18 children with cancer) listened to the audio and completed evaluation form. All adult evaluators gave positive remarks on the script, narration and recording quality. As for the children, 100% completed audio-hearing and majority (66.7% - 88.9%) were able to imagine well without falling asleep and in some way were positively affected by the imagery-induced relaxation audio. Majority was not disturbed during the hearing sessions (66.7%), will hear it again (83.3%) and found it enjoyable (88.8%). This is the first known study developing GIR audio in Bahasa Malaysia which is feasible, enjoyable and beneficial for children that warrants efficacy study.
Diagnostic accuracy of sonohysterography, hysterosalpingography and diagnostic hysteroscopy in diagnosis of arcuate, septate and bicornuate uterus

Aim: To evaluate the diagnostic accuracy of sonohysterography (SHG), hysterosalpingography (HSG) and diagnostic hysteroscopy (DH) in uterine anomaly detection and to assess the role of these various modalities in the differential diagnosis of arcuate, septate and bicornuate uteri.