Miracle-dz/UniFAR-FTUs huggingface dataset:
LeafView: A User Interface for Automated Botanical Species Identification and Data Collection

LeafView is a Tablet-PC–based user interface for automated identification of botanical species in the field, developed for the Columbia, University of Maryland and Smithsonian Electronic Field Guide Project. Leaf images are captured with a digital camera and wirelessly transferred to the tablet. A computer vision component developed by our colleagues finds the best set of matching species, and we present the results in a zoomable user interface. Samples are matched with existing species or marked unknown for further study. A history of collected samples along with collection context can be browsed for further study and comparison. The system has been field tested by Smithsonian botanists on Plummers Island, Maryland.
The Global Burden of Alveolar Echinococcosis

Background Human alveolar echinococcosis (AE) is known to be common in certain rural communities in China whilst it is generally rare and sporadic elsewhere. The objective of this study was to provide a first estimate of the global incidence of this disease by country. The second objective was to estimate the global disease burden using age and gender stratified incidences and estimated life expectancy with the disease from previous results of survival analysis. Disability weights were suggested from previous burden studies on echinococcosis. Methodology/Principal Findings We undertook a detailed review of published literature and data from other sources. We were unable to make a standardised systematic review as the quality of the data was highly variable from different countries and hence if we had used uniform inclusion criteria many endemic areas lacking data would not have been included. Therefore we used evidence based stochastic techniques to model uncertainty and other modelling and estimating techniques, particularly in regions where data quality was poor. We were able to make an estimate of the annual global incidence of disease and annual disease burden using standard techniques for calculation of DALYs. Our studies suggest that there are approximately 18,235 (CIs 11,900–28,200) new cases of AE per annum globally with 16,629 (91%) occurring in China and 1,606 outside China. Most of these cases are in regions where there is little treatment available and therefore will be fatal cases. Based on using disability weights for hepatic carcinoma and estimated age and gender specific incidence we were able to calculate that AE results in a median of 666,434 DALYs per annum (CIs 331,000-1.3 million). Conclusions/Significance The global burden of AE is comparable to several diseases in the neglected tropical disease cluster and is likely to be one of the most important diseases in certain communities in rural China on the Tibetan plateau.
Essential Function of the Pseudorabies Virus UL36 Gene Product Is Independent of Its Interaction with the UL37 Protein

ABSTRACT The large tegument protein encoded by the UL36 gene of pseudorabies virus (PrV) physically interacts with the product of the adjacent UL37 gene (B. G. Klupp, W. Fuchs, H. Granzow, R. Nixdorf, and T. C. Mettenleiter, J. Virol.76:3065-3071, 2002). To analyze UL36 function, two PrV recombinants were generated by mutagenesis of an infectious PrV full-length clone in Escherichia coli: PrV-ΔUL36F exhibited a deletion of virtually the complete UL36 coding region, whereas PrV-UL36BSF contained two in-frame deletions of 238 codons spanning the predicted UL37 binding domain. Coimmunoprecipitation experiments confirmed that the mutated gene product of PrV-UL36BSF did not interact with the UL37 protein. Like the previously described PrV-ΔUL37 (B. G. Klupp, H. Granzow, and T. C. Mettenleiter, J. Virol.75:8927-8936, 2001) but in contrast to PrV-ΔUL36F, PrV-UL36BSF was able to replicate in rabbit kidney (RK13) cells, although maximum virus titers were reduced ca. 50-fold and plaque diameters were reduced by ca. 45% compared to wild-type PrV. PrV-ΔUL36F was able to productively replicate after repair of the deleted gene or in a trans-complementing cell line. Electron microscopy of infected RK13 cells revealed that PrV-UL36BSF and phenotypically complemented PrV-ΔUL36F were capable of nucleocapsid formation and egress from the nucleus by primary envelopment and deenvelopment at the nuclear membrane. However, reenvelopment of nucleocapsids in the cytoplasm was blocked. Only virus-like particles without capsids were released efficiently from cells. Interestingly, cytoplasmic nucleocapsids of PrV-UL36BSF but not of PrV-ΔUL36F were found in large ordered structures similar to those which had previously been observed with PrV-ΔUL37. In summary, our results demonstrate that the interaction between the UL36 and UL37 proteins is important but not strictly essential for the formation of secondary enveloped, infectious PrV particles. Furthermore, UL36 possesses an essential function during virus replication which is independent of its ability to bind the UL37 protein.
Boosting performance for 2D Linear Discriminant Analysis via regression

Two dimensional linear discriminant analysis (2DLDA) has received much interest in recent years. However, 2DLDA could make pairwise distances between any two classes become significantly unbalanced, which may affect its performance. Moreover 2DLDA could also suffer from the small sample size problem. Based on these observations, we propose two novel algorithms called regularized 2DLDA and Ridge Regression for 2DLDA (RR-2DLDA). Regularized 2DLDA is an extension of 2DLDA with the introduction of a regularization parameter to deal with the small sample size problem. RR-2DLDA integrates ridge regression into Regularized 2DLDA to balance the distances among different classes after the transformation. These proposed algorithms overcome the limitations of 2DLDA and boost recognition accuracy. The experimental results on the Yale, PIE and FERET databases showed that RR-2DLDA is superior not only to 2DLDA but also other state-of-the-art algorithms.
Parent Care as Unpaid Family Labor: How Do Spouses Share?

The study adapts theories of the household division of labor to the division of parent care between spouses and expands them by taking the kin relationship with the parent and the intensity of care into account. Tobit and weighted logit models are used to analyze the division of parent care in 2,214 couples from the British General Household Surveys. The models revealed patterns of parent care that are predominantly governed by the kin relationship. Time availability was strongly associated with couples' division of parent care, whereas the resource-bargaining approach received little support except for dual-earner couples that provided more intensive care for the husband's parents. Children-in-law's characteristics were hardly related to the division of high-intensity caregiving in dual-earner couples.
Individual patient data meta-analysis of diagnostic studies: opportunities and challenges

Individual patient data meta-analyses using the raw data from primary diagnostic accuracy studies are taking hold in systematic reviews evaluating tests. Conventional reviews and meta-analyses that summarise study-level data on test accuracy (sensitivity and specificity) have several disadvantages. The most fundamental limitation of this approach is that it estimates the rates of test result-given disease (sensitivity is probability of positive test result-given disease is present; and specificity is probability of negative test result-given disease is absent). This may be addressed by summarising predictive values, but estimating accuracy for individual tests without consideration of other tests in the test chains that make up everyday diagnostic work-ups remain a problem. To inform clinical practice it is essential that test evaluation generates information about probability of disease given test results, and that it does so in view of the preceding contribution to diagnosis of other tests, for example, symptoms and signs. A multivariable (logistic regression) framework generates disease probabilities taking into account the important factors that play a role in diagnosis. Most primary accuracy studies lack statistical power to do this, particularly because of the small absolute number of disease events per test included in the diagnostic work. Synthesis using their raw data can overcome this problem, but meta-analysts will have limited success if there are difficulties in obtaining the large majority of valid studies, without ‘missing’ data on the tests relevant in clinical decision-making. Successful individual patient data meta-analyses create the opportunity to calculate directly and reliably disease probabilities corresponding with realistic chains of tests, thereby making outputs of reviews of test accuracy clinically applicable.
Microbial Virulence as an Emergent Property: Consequences and Opportunities

Although an existential threat from the microbial world might seem like science fiction, a catastrophic decline in amphibian populations with the extinction of dozens of species has been attributed to a chytrid fungus [1], [2], and North American bats are being decimated by Geomyces destructans, a new fungal pathogen [3]. Hence, individual microbes can cause the extinction of a species. In the foregoing instances, neither fungus had a known relationship with the threatened species; there was neither selection pressure for pathogen attenuation nor effective host defense. Humans are also constantly confronted by new microbial threats as witnessed by the appearance of HIV, SARS coronavirus, and the latest influenza pandemic. While some microbial threats seem to be frequently emerging or re-emerging, others seem to wane or attenuate with time, as exemplified by the decline of rheumatic heart disease [4], the evolution of syphilis from a fulminant to a chronic disease [5], and the disappearance of “English sweating sickness” [6]. A defining feature of infectious diseases is changeability, with change being a function of microbial, host, environmental, and societal changes that together translate into changes in the outcome of a host–microbe interaction. Given that species as varied as amphibians and bats can be threatened with extinction by microbes, the development of predictive tools for identifying microbial threats is both desirable and important.
Finding the Factors of Reduced Genetic Diversity on X Chromosomes of Macaca fascicularis: Male-Driven Evolution, Demography, and Natural Selection

The ratio of genetic diversity on X chromosomes relative to autosomes in organisms with XX/XY sex chromosomes could provide fundamental insight into the process of genome evolution. Here we report this ratio for 24 cynomolgus monkeys (Macaca fascicularis) originating in Indonesia, Malaysia, and the Philippines. The average X/A diversity ratios in these samples was 0.34 and 0.20 in the Indonesian–Malaysian and Philippine populations, respectively, considerably lower than the null expectation of 0.75. A Philippine population supposed to derive from an ancestral population by founding events showed a significantly lower ratio than the parental population, suggesting a demographic effect for the reduction. Taking sex-specific mutation rate bias and demographic effect into account, expected X/A diversity ratios generated by computer simulations roughly agreed with the observed data in the intergenic regions. In contrast, silent sites in genic regions on X chromosomes showed strong reduction in genetic diversity and the observed X/A diversity ratio in the genic regions cannot be explained by mutation rate bias and demography, indicating that natural selection also reduces the level of polymorphism near genes. Whole-genome analysis of a female cynomolgus monkey also supported the notion of stronger reduction of genetic diversity near genes on the X chromosome.
Transnational Kinscription: A Case of Parachute Kids in the USA and Their Parents in Taiwan

This study uses ‘parachute kids’ in the USA and their parents in Taiwan as a case study to examine how cross-border kinship networks shape child-rearing strategies. The author argues that cross-border kin ties activated by parents are central to understanding the familial and cultural belonging of their children who are sent to study abroad. Drawing on 40 interviews with parachute kids and their parents, the author uses the concept of ‘transnational kinscription’ to demonstrate how non-migrant parents reconfigure kinship ideologies and relations to raise the next generation across borders. This article also highlights how parachute kids' emotional responses to growing up in their relatives' households often offset or even invalidate their parents' efforts to establish multiple homes transnationally.
Estimation of the haemodynamic response to epileptic activity in EEG-fMRI data

In this work, a new approach to simultaneous Electroencephalography correlated Functional Magnetic Imaging (EEG-fMRI) data processing in epilepsy is introduced. Independent component analysis decomposition was performed on EEG data and multiple model based metrics were applied to the resulting time courses, these were then used to predict the fMRI data. When compared with the conventional fMRI data analysis based on square waveform descriptions of seizure activity, more significant activations were found with the method proposed here, for the four patients studied. In general, the results were consistent with the neurophysiologist's expectation, but further validation using more direct measurements of seizure activity is necessary. A detailed study on the hemodynamic response function (HRF) to the EEG metrics was performed for one patient. The HRFs estimated were broader than the canonical HRF and the distributions of its delay and dispersion were mapped throughout the subject's brain.
Customer Lifetime Value: A review

The concept of regarding customers as assets that should be managed and whose value should be measured is now accepted and recognized by academics and practitioners. This focus on customer relationship management makes it extremely important to understand customer lifetime value (CLV) because CLV models are an efficient and effective way to evaluate a firm’s relationship with its customers. Assessment of CLV is especially important for firms in implementing customer-oriented services. In this paper we provide a critical review of the literature on the development process and applications of CLV.
[Socioeconomic differences between self- and interviewer-classification of color/race].

OBJECTIVE To assess (1) the consistency between self-classified and interviewer-classified color/race according to socioeconomic and demographic variables and (2) the magnitude of the ethnic-racial inequalities of income and socioeconomic status using self-classified and interviewer-classified color/race. METHODS A cross-sectional population-based study was carried out among individuals of both sexes aged>or=20 years (N=3,353), living in the urban area of a city in Southern Brazil, in 2005. A two-stage sampling scheme was adopted and data collection was performed at participants' homes. Face-to-face interviews were conducted using standardized precoded questionnaires. The consistency between self-classified and interviewer-classified color/race was checked by means of concordance proportions and kappa statistics. Ethnic-racial inequalities of income and socioeconomic status were estimated using linear and ordinal logistic regression models, adjusting for sex, age and schooling. RESULTS The response rate was 93.5%. Despite the high reproducibility observed between self-classified and interviewer-classified color/race, a tendency towards whitening was seen among the interviewees. Self-classified brown (pardo) and black individuals were 1.4 and 1.5 times more likely to be classified as whites than as blacks and browns (pardos), respectively. Socioeconomically deprived strata presented higher kappa values. Ethnic-racial inequalities of income and socioeconomic status were found, and these were slightly greater using interviewer-classified color/race. CONCLUSIONS Racial classification presents a tendency towards the whitening of participants by interviewers. Browns (pardos) and blacks were socioeconomically disadvantaged in comparison with whites.
Water-induced modulation of Helicobacter pylori virulence properties

While the influence of water in Helicobacter pylori culturability and membrane integrity has been extensively studied, there are little data concerning the effect of this environment on virulence properties. Therefore, we studied the culturability of water-exposed H. pylori and determined whether there was any relation with the bacterium’s ability to adhere, produce functional components of pathogenicity and induce inflammation and alterations in apoptosis in an experimental model of human gastric epithelial cells. H. pylori partially retained the ability to adhere to epithelial cells even after complete loss of culturability. However, the microorganism is no longer effective in eliciting in vitro host cell inflammation and apoptosis, possibly due to the non-functionality of the cag type IV secretion system. These H. pylori-induced host cell responses, which are lost along with culturability, are known to increase epithelial cell turnover and, consequently, could have a deleterious effect on the initial H. pylori colonisation process. The fact that adhesion is maintained by H. pylori to the detriment of other factors involved in later infection stages appears to point to a modulation of the physiology of the pathogen after water exposure and might provide the microorganism with the necessary means to, at least transiently, colonise the human stomach.
Lysophosphatidic Acid Induces Thrombogenic Activity Through Phosphatidylserine Exposure and Procoagulant Microvesicle Generation in Human Erythrocytes

Objective—Although erythrocytes have been suggested to play a role in blood clotting, mediated through phosphatidylserine (PS) exposure and/or PS-bearing microvesicle generation, an endogenous substance that triggers the membrane alterations leading to a procoagulant activity in erythrocytes has not been reported. We now demonstrated that lysophosphatidic acid (LPA), an important lipid mediator in various pathophysiological processes, induces PS exposure and procoagulant microvesicle generation in erythrocytes, which represent a biological significance resulting in induction of thrombogenic activity. Methods and Results—In human erythrocytes, LPA treatment resulted in PS exposure on remnant cells and PS-bearing microvesicle generation in a concentration-dependent manner. Consistent with the microvesicle generation, scanning electron microscopic study revealed that LPA treatment induced surface changes, alteration of normal discocytic shape into echinocytes followed by spherocytes. Surprisingly, chelation of intracellular calcium did not affect LPA-induced PS exposure and microvesicle generation. On the other hand, protein kinase C (PKC) inhibitors significantly reduced PS exposure and microvesicle generation induced by LPA, reflecting the role of calcium-independent PKC. Activation of PKC was confirmed by Western blot analysis showing translocation of calcium-independent isoform, PKC&zgr;, to erythrocyte membrane. The activity of flippase, which is important in the maintenance of membrane asymmetry, was also inhibited by LPA. Furthermore, LPA-exposed erythrocytes actually potentiated the thrombin generation as determined by prothrombinase assay and accelerated the coagulation process initiated by recombinant human tissue factor in plasma. The adherence of erythrocytes to endothelial cells, another important feature of thrombogenic process, was also stimulated by LPA treatment. Conclusion—These results suggested that LPA-exposed erythrocytes could make an important contribution to thrombosis mediated through PS exposure and procoagulant microvesicle generation.
Vertebrate Paralogous Conserved Noncoding Sequences May Be Related to Gene Expressions in Brain

Vertebrate genomes include gene regulatory elements in protein-noncoding regions. A part of gene regulatory elements are expected to be conserved according to their functional importance, so that evolutionarily conserved noncoding sequences (CNSs) might be good candidates for those elements. In addition, paralogous CNSs, which are highly conserved among both orthologous loci and paralogous loci, have the possibility of controlling overlapping expression patterns of their adjacent paralogous protein-coding genes. The two-round whole-genome duplications (2R WGDs), which most probably occurred in the vertebrate common ancestors, generated large numbers of paralogous protein-coding genes and their regulatory elements. These events could contribute to the emergence of vertebrate features. However, the evolutionary history and influences of the 2R WGDs are still unclear, especially in noncoding regions. To address this issue, we identified paralogous CNSs. Region-focused Basic Local Alignment Search Tool (BLAST) search of each synteny block revealed 7,924 orthologous CNSs and 309 paralogous CNSs conserved among eight high-quality vertebrate genomes. Paralogous CNSs we found contained 115 previously reported ones and newly detected 194 ones. Through comparisons with VISTA Enhancer Browser and available ChIP-seq data, one-third (103) of paralogous CNSs detected in this study showed gene regulatory activity in the brain at several developmental stages. Their genomic locations are highly enriched near the transcription factor-coding regions, which are expressed in brain and neural systems. These results suggest that paralogous CNSs are conserved mainly because of maintaining gene expression in the vertebrate brain.
Preschool Children's Conceptions of Sex-Role Transgressions.

SMETANA, JUDITH G. Preschool Children's Conceptions of Sex-Role Transgressions. CHILD DEVELOPMENT, 1986, 57, 862-871. The purpose of this research was to examine the conceptual basis of preschoolers' judgments regarding cross-gender behavior, taking into consideration the type of sexrole regularity and whether it is male or female sex-role stereotyped. 48 preschool children, 24 boys and 24 girls, reasoned and made judgments about counterstereotypical sex-role behaviors and appearances in comparison to judgments regarding moral and conventional transgressions. Sex-role transgressions were judged to be more flexible, permissible, and subject to subordinate jurisdiction than moral or conventional transgressions. Children were more strongly committed to the maintenance of male than female sex-role expectations and to female sex-typed appearances than activities. Boys also considered male cross-gender appearances more serious than male cross-gender activities. Children reasoned about sex-role violations as personal or conventional issues; male sex-role deviations were more likely to be seen as violations of social norms than were female sex-role deviations. Personal reasoning about sex roles was significantly correlated with greater flexibility and less commitment to sex-role expectations. Thus, young children were flexible but committed to sex-role expectations, and sex-role concepts were multifaceted, entailing different types of social concepts.