Miracle-dz/UniFAR-FTUs huggingface dataset:
Model Complexity-Accuracy Trade-off for a Convolutional Neural Network

Convolutional Neural Networks(CNN) has had a great success in the recent past, because of the advent of faster GPUs and memory access. CNNs are really powerful as they learn the features from data in layers such that they exhibit the structure of the V-1 features of the human brain. A huge bottleneck, in this case, is that CNNs are very large and have a very high memory footprint, and hence they cannot be employed on devices with limited storage such as mobile phone, IoT etc. In this work, we study the model complexity versus accuracy trade-off on MNSIT dataset, and give a concrete framework for handling such a problem, given the worst case accuracy that a system can tolerate. In our work, we reduce the model complexity by 236 times, and memory footprint by 19.5 times compared to the base model while achieving worst case accuracy threshold.
BmTGIF, a Bombyx mori Homolog of Drosophila DmTGIF, Regulates Progression of Spermatogenesis

TG-interacting factor (TGIF) in Drosophila consists of two tandemly-repeated genes, achintya (Dmachi) and vismay (Dmvis), which act as transcriptional activators in Drosophila spermatogenesis. In contrast, TGIF in humans is a transcriptional repressor that binds directly to DNA or interacts with corepressors to repress the transcription of target genes. In this study, we investigated the characteristics and functions of BmTGIF, a Bombyx mori homolog of DmTGIF. Like DmTGIF, BmTGIF is predominantly expressed in the testes and ovaries. Four alternatively spliced isoforms could be isolated from testes, and two isoforms from ovaries. Quantitative polymerase chain reaction indicated BmTGIF was abundantly expressed in the testis of 3rd instar larvae, when the testis is almost full of primary spermatocytes. The results of luciferase assays indicated that BmTGIF contains two adjacent acidic domains that activate the transcription of reporter genes. Immunofluorescence assay in BmN cells showed that the BmTGIF protein was located mainly in the nucleus, and paraffin sections of testis showed BmTGIF was grossly expressed in primary spermatocytes and mature sperms. Consistent with the role of DmVis in Drosophila development, BmTGIF significantly affected spermatid differentiation, as indicated by hematoxylin-eosin staining of paraffin sections of testis from BmTGIF-small interfering RNA (siRNA)-injected male silkworms. Co-immunoprecipitation experiments suggested that BmTGIF interacted with BmAly, and that they may recruit other factors to form a complex to regulate the genes required for meiotic divisions and spermatid differentiation. The results of this analysis of BmTGIF will improve our understanding of the mechanism of spermatid differentiation in B. mori, with potential applications for pest control.
Rasch analysis of the Center for Epidemiologic Studies Depression scale used for the assessment of community-residing patients with stroke

Purpose. To use Rasch analysis to validate a Center for Epidemiologic Studies Depression scale (CES-D) for measuring the level of depression in community-residing patients with stroke. Method. This study involved 183 community-residing stroke survivors. Depression was measured using the CES-D. The data were analysed with Winsteps version 3.62 using a Rasch model to investigate the unidimentionality of the items' fit, the distribution of items' difficulty and reliability and appropriateness of the rating scale. Result. Three items for CES-D showed a misfit with the Rasch model. Misfitting items included ‘I did not feel like eating; my appetite was poor’, ‘I felt hopeful about the future’ and ‘My sleep was restless’. The person separation was 2.58, reliability was 0.87 and the rating scale of the CES-D was appropriate for stroke patients. The cut-off point of 16 out of 60 equated to a logit score of 0.85, which when applied to the 17-item scale (with four categories) equated to a cut-off point of 14. Conclusion. At a new cut-off point of 14, the CES-D with 17 items was found to be reliable and valid as a screening tool for assessing depression in community-residing stroke patients. Moreover, it may not be appropriate to use a CES-D as it contains somatic factors for a population with physical dysfunctions.
Optimization of oil extraction from olive pomace using response surface methodology

A statistical methodology, combining Plackett–Burman design with Box–Behnken design, was applied to optimize the oil extraction process from olive pomace using hexane as solvent. Plackett–Burman design was used in the first step to evaluate the effects of five independent variables on the oil extraction yield. Temperature of extraction, time of contact, solvent-to-solids ratio and moisture content of the olive pomace were identified as significant independent variables and were further optimized by using response surface methodology based on Box–Behnken design. The optimized conditions to maximize the yield were as follows: extraction temperature at 33 ℃, contact time at 10 min, solvent-to-solids ratio at 3.5 mL/g and moisture content at 13%. The experimental value of the yield (5.98%) at these optimum conditions was found in perfect agreement with the value predicted by model (5.80%).
Clinical Risk Scoring Models for Prediction of Acute Kidney Injury after Living Donor Liver Transplantation: A Retrospective Observational Study

Acute kidney injury (AKI) is a frequent complication of liver transplantation and is associated with increased mortality. We identified the incidence and modifiable risk factors for AKI after living-donor liver transplantation (LDLT) and constructed risk scoring models for AKI prediction. We retrospectively reviewed 538 cases of LDLT. Multivariate logistic regression analysis was used to evaluate risk factors for the prediction of AKI as defined by the RIFLE criteria (RIFLE = risk, injury, failure, loss, end stage). Three risk scoring models were developed in the retrospective cohort by including all variables that were significant in univariate analysis, or variables that were significant in multivariate analysis by backward or forward stepwise variable selection. The risk models were validated by way of cross-validation. The incidence of AKI was 27.3% (147/538) and 6.3% (34/538) required postoperative renal replacement therapy. Independent risk factors for AKI by multivariate analysis of forward stepwise variable selection included: body-mass index >27.5 kg/m2 [odds ratio (OR) 2.46, 95% confidence interval (CI) 1.32–4.55], serum albumin <3.5 mg/dl (OR 1.76, 95%CI 1.05–2.94), MELD (model for end-stage liver disease) score >20 (OR 2.01, 95%CI 1.17–3.44), operation time >600 min (OR 1.81, 95%CI 1.07–3.06), warm ischemic time >40 min (OR 2.61, 95%CI 1.55–4.38), postreperfusion syndrome (OR 2.96, 95%CI 1.55–4.38), mean blood glucose during the day of surgery >150 mg/dl (OR 1.66, 95%CI 1.01–2.70), cryoprecipitate > 6 units (OR 4.96, 95%CI 2.84–8.64), blood loss/body weight >60 ml/kg (OR 4.05, 95%CI 2.28–7.21), and calcineurin inhibitor use without combined mycophenolate mofetil (OR 1.87, 95%CI 1.14–3.06). Our risk models performed better than did a previously reported score by Utsumi et al. in our study cohort. Doses of calcineurin inhibitor should be reduced by combined use of mycophenolate mofetil to decrease postoperative AKI. Prospective randomized trials are required to address whether artificial modification of hypoalbuminemia, hyperglycemia and postreperfusion syndrome would decrease postoperative AKI in LDLT.
3,3′-(p-Phenylenedimethylene)di-1H-imidazol-1-ium bis(4-nitrobenzoate)–4-nitrobenzoic acid (1/2)

The asymmetric unit of the title compound, C14H16N4 2+·2C7H4NO4 −·2C7H5NO4, comprises one-half of the 3,3′-(p-phenylenedimethylene)di-1H-imidazol-1-ium dication, which lies on an inversion centre, one 4-nitrobenzoate anion and one 4-nitrobenzoic acid molecule. In the crystal, the components are linked into a two-dimensional network parallel to (110) by O—H⋯O, N—H⋯O and C—H⋯O hydrogen bonds.
Insights into the structure and assembly of the Bacillus subtilis clamp-loader complex and its interaction with the replicative helicase

The clamp-loader complex plays a crucial role in DNA replication by loading the β-clamp onto primed DNA to be used by the replicative polymerase. Relatively little is known about the stoichiometry, structure and assembly pathway of this complex, and how it interacts with the replicative helicase, in Gram-positive organisms. Analysis of full and partial complexes by mass spectrometry revealed that a hetero-pentameric τ3-δ-δ′ Bacillus subtilis clamp-loader assembles via multiple pathways, which differ from those exhibited by the Gram-negative model Escherichia coli. Based on this information, a homology model of the B. subtilis τ3-δ-δ′ complex was constructed, which revealed the spatial positioning of the full C-terminal τ domain. The structure of the δ subunit was determined by X-ray crystallography and shown to differ from that of E. coli in the nature of the amino acids comprising the τ and δ′ binding regions. Most notably, the τ-δ interaction appears to be hydrophilic in nature compared with the hydrophobic interaction in E. coli. Finally, the interaction between τ3 and the replicative helicase DnaB was driven by ATP/Mg2+ conformational changes in DnaB, and evidence is provided that hydrolysis of one ATP molecule by the DnaB hexamer is sufficient to stabilize its interaction with τ3.
Antibacterial activity and chemical compounds of leaves and branches of Protium hebetatum

The extracts and fractions of leaves and branches of Protium hebetatum D. C. Daly (Burseraceae) were investigated for their antibacterial activity and chemical composition. The methanol extract of branches (EMG) was considered active against the Escherichia coli and the Proteus vulgaris, showing an inhibition zone of 13 mm, and was selected for bioassayguided phytochemical fractionation. From the technique of broth microdilution, the extract was considered a moderate inhibitor against Staphylococcus aureus, Pseudomonas aeruginosa and Enterococcus faecalis, with a minimum inhibitory concentration (MIC) of 1 mg/mL. The dichloromethane fraction was considered a moderate inhibitor against S. aureus (MIC of 1 mg/mL) and a potent inhibitor against E. faecalis (MIC of 0.5 mg/mL). F1, F2, F5 and F6 from chromatographic column of dichloromethane fraction were considered moderate inhibitors against S. aureus (MIC of 1 mg/mL). Through analysis by a gas chromatography mass spectrometry, eighteen compounds were identified, from which thirteen (isoeugenol, p-vinylguaiacol, metoxyeugenol, coumarin, 5-hydroxy-scopoletin, 4,7-dihydroxy-6-metoxicromam-2-one, 4[(1E]3-hydroxy-1-propenyl)-2-methoxyphenol, piperonal, scoparon, o-guaiacol, spathulenol, seringol and antiarol) are unprecedented in these species. We also identified the triterpenes α-amyrin and β-amyrin, the steroids stigmasterol and sitosterol and the coumarin scopoletin, which was closely linked to the antibacterial activity of the samples.
A Novel Cytochrome P450 Is Implicated in Brassinosteroid Biosynthesis via the Characterization of a Rice Dwarf Mutant, dwarf11, with Reduced Seed Length

We have characterized a rice (Oryza sativa) dwarf mutant, dwarf11 (d11), that bears seeds of reduced length. To understand the mechanism by which seed length is regulated, the D11 gene was isolated by a map-based cloning method. The gene was found to encode a novel cytochrome P450 (CYP724B1), which showed homology to enzymes involved in brassinosteroid (BR) biosynthesis. The dwarf phenotype of d11 mutants was restored by the application of the brassinolide (BL). Compared with wild-type plants, the aberrant D11 mRNA accumulated at higher levels in d11 mutants and was dramatically reduced by treatment with BL, implying that the gene is feedback-regulated by BL. Precise determination of the defective step(s) in BR synthesis in d11 mutants proved intractable because of tissue specificity and the complex control of BR accumulation in plants. However, 6-deoxotyphasterol (6-DeoxoTY) and typhasterol (TY), but not any upstream intermediates before these compounds, effectively restored BR response in d11 mutants in a lamina joint bending assay. Multiple lines of evidence together suggest that the D11/CYP724B1 gene plays a role in BR synthesis and may be involved in the supply of 6-DeoxoTY and TY in the BR biosynthesis network in rice.
An effective and versatile keyword search engine on heterogenous data sources

We present EASE, an effective and versatile keyword search engine that enables users to easily access the heterogenous data composed of unstructured, semi-structured and structured data, without the need of learning XPath/XQuery or SQL languages. EASE addresses a challenge in keyword search that has been neglected in the literature: how to efficiently and adaptively process keyword queries on the heterogenous data. To provide such capability, EASE models unstructured, semi-structured and structured data as graphs, summarizes the graphs, and constructs graph indices instead of using traditional inverted indices for effective keyword search. EASE adopts an extended inverted index to facilitate keyword-based search, and employs a novel ranking mechanism for enhancing search effectiveness.
Predicting Gene Function from Gene Expressions and Ontologies

We introduce a methodology for inducing predictive rule models for functional classification of gene expressions from microarray hybridisation experiments. The basic learning method is the rough set framework for rule induction. The methodology is different from the commonly used unsupervised clustering approaches in that it exploits background knowledge of gene function in a supervised manner. Genes are annotated using Ashburner's Gene Ontology and the functional classes used for learning are mined from these annotations. From the original expression data, we extract a set of biologically meaningful features that are used for learning. A rule model is induced from the data described in terms of these features. Its predictive quality is fine-turned via cross-validation on subsets of the known genes prior to classification of unknown genes. The predictive and descriptive quality of such a rule model is demonstrated on the fibroblast serum response data previously analysed by Iyer et. al. Our analysis shows that the rules are capable of representing the complex relationship between gene expressions and function, and that it is possible to put forward high quality hypotheses about the function of unknown genes.
A Partial-Repeatability Approach to Data Mining

Unlike the data approached in traditional data mining activities, software data are featured with partial-repeatability or parepeatics, which is an invariant property that can neither be proved in mathematics nor validated to a high accuracy in physics, but still (partially) governs the behavior of the data. Parepeatics emerges as a result of the inaccurate universe. The universe comprises all possible C language programs is an example that cannot be accurately characterized since human writes defect-prone programs. In this paper we design a parepeatic mining framework for software data diming, where the mined knowledge is represented in terms of parepeatic models. A parepeatic model consists of central knowledge, a knowledge fluctuation zone and a correctness factor. Our approach can generate the required parepeatic model as a new form of knowledge representation from a given dataset and apply it to software data mining. Experimental results with real C language programs show that the proposed approach is effective.
Visual Risk Factors for Falls in Older People

OBJECTIVES: To determine the tests most predictive of falls in community‐dwelling older people from a range of visual screening tests (high and low contrast visual acuity, edge contrast sensitivity, depth perception, and visual field size). To determine whether one or more of these visual measures, in association with measures of sensation, strength, reaction time, and balance, can accurately predict falls in this group.
Cocaine-induced myocardial infarction in patients with normal coronary arteries.

OBJECTIVE To review the reported cases of myocardial infarction temporally related to recreational and topical anesthetic use of cocaine, with special regard for underlying etiologic factors in patients subsequently found to have normal coronary arteries. DATA SOURCES Personal records of three cases and a comprehensive literature review using MEDLINE and supplemented by Index Medicus and the bibliographies of case reports. DATA SYNTHESIS A total of 114 cases of cocaine-induced myocardial infarction were identified. The coronary anatomy was defined by angiography or autopsy in 92 patients, 38% of whom had normal coronary arteries. In these 35 patients (average age, 32; range, 21 to 60 years), myocardial infarction typically involved the anterior left ventricular wall (77%). Moderate cigarette smoking with one or fewer associated coronary risk factors was prevalent (68%). Focal coronary vasospasm was shown convincingly in only two cases. Intracoronary thrombus was initially found on 9 of 11 angiograms (82%) done within 12 hours of the myocardial infarction. Experimental evidence suggests that cocaine has direct and indirect sympathomimetic effects on vascular smooth muscle, attenuates endothelium vasodilator capacity, exerts a potent depressant effect on cardiac myocytes, and promotes atherogenesis. CONCLUSIONS Cocaine-induced myocardial infarction in patients with normal coronary arteries probably involves adrenergically mediated increases in myocardial oxygen consumption, vasoconstriction of large epicardial arteries or small coronary resistance vessels, and coronary thrombosis. Accelerated atherosclerosis and impairment of endothelium vasodilator function may occur after chronic cocaine use.
The RacerPro knowledge representation and reasoning system 1

RacerPro is a software system for building applications based on ontologies. The backbone of RacerPro is a description logic reasoner. It provides inference services for terminological knowledge as well as for representations of knowledge about individuals. Based on new optimization techniques and techniques that have been developed in the research field of description logics throughout the years, a mature architecture for typical-case reasoning tasks is provided. The system has been used in hundreds of research projects and industrial contexts throughout the last twelve years. W3C standards as well as detailed feedback reports from numerous users have influenced the design of the system architecture in general, and have also shaped the RacerPro knowledge representation and interface languages. With its query and rule languages, RacerPro goes well beyond standard inference services provided by other OWL reasoners.
Adaptive Neighboring Selection Algorithm Based on Curvature Prediction in Manifold Learning

Recently manifold learning algorithm for dimensionality reduction attracts more and more interests, and various linear and nonlinear,global and local algorithms are proposed. The key step of manifold learning algorithm is the neighboring region selection. However,so far for the references we know,few of which propose a generally accepted algorithm to well select the neighboring region. So in this paper,we propose an adaptive neighboring selection algorithm,which successfully applies the LLE and ISOMAP algorithms in the test. It is an algorithm that can find the optimal K nearest neighbors of the data points on the manifold. And the theoretical basis of the algorithm is the approximated curvature of the data point on the manifold. Based on Riemann Geometry,Jacob matrix is a proper mathematical concept to predict the approximated curvature. By verifying the proposed algorithm on embedding Swiss roll from R3 to R2 based on LLE and ISOMAP algorithm,the simulation results show that the proposed adaptive neighboring selection algorithm is feasible and able to find the optimal value of K,making the residual variance relatively small and better visualization of the results. By quantitative analysis,the embedding quality measured by residual variance is increased 45. 45% after using the proposed algorithm in LLE.
Nitrogen regulation of fungal secondary metabolism in fungi

Fungi occupy diverse environments where they are constantly challenged by stressors such as extreme pH, temperature, UV exposure, and nutrient deprivation. Nitrogen is an essential requirement for growth, and the ability to metabolize a wide variety of nitrogen sources enables fungi to colonize different environmental niches and survive nutrient limitations. Favored nitrogen sources, particularly ammonium and glutamine, are used preferentially, while the expression of genes required for the use of various secondary nitrogen sources is subject to a regulatory mechanism called nitrogen metabolite repression. Studies on gene regulation in response to nitrogen availability were carried out first in Saccharomyces cerevisiae, Aspergillus nidulans, and Neurospora crassa. These studies revealed that fungi respond to changes in nitrogen availability with physiological and morphological alterations and activation of differentiation processes. In all fungal species studied, the major GATA transcription factor AreA and its co-repressor Nmr are central players of the nitrogen regulatory network. In addition to growth and development, the quality and quantity of nitrogen also affects the formation of a broad range of secondary metabolites (SMs). Recent studies, mainly on species of the genus Fusarium, revealed that AreA does not only regulate a large set of nitrogen catabolic genes, but can also be involved in regulating production of SMs. Furthermore, several other regulators, e.g., a second GATA transcription factor, AreB, that was proposed to negatively control nitrogen catabolic genes by competing with AreA for binding to GATA elements, was shown to act as activator of some nitrogen-repressed as well as nitrogen-induced SM gene clusters. This review highlights our latest understanding of canonical (AreA-dependent) and non-canonical nitrogen regulation mechanisms by which fungi may regulate biosynthesis of certain SMs in response to nitrogen availability.
Methods of the International Tobacco Control (ITC) China Survey

This paper describes the design features, data collection methods and analytical strategies of the ITC China Survey, a prospective cohort study of 800 adult smokers and 200 adult non-smokers in each of six cities in China . In addition to features and methods which are common to ITC surveys in other countries, the ITC China Survey possesses unique features in frame construction, a large first phase data enumeration and sampling selection; and it uses special techniques and measures in training, field work organisation and quality control. It also faces technical challenges in sample selection and weight calculation when some selected upper level clusters need to be replaced by new ones owing to massive relocation exercises within the cities.