Miracle-dz/UniFAR-FTUs huggingface dataset:
Detection of ERCC1 118 Polymorphisms in Non-small-cell Lung Cancer by an Improved Fluorescence Polarization Assay

Excision repair cross-complementing 1-118 single nucleotide polymorphisms (SNPs) have been reported as predictive markers of response to platinum-based chemotherapy. Currently, the most used methods for genotyping of SNPs are costly and time consuming. It is necessary to develop a method that is more accurate, cost-effective, and simple. An improved fluorescence polarization assay based on asymmetric polymerase chain reaction hybridization for screening excision repair cross-complementing 1-118 SNPs has been developed. Excision repair cross-complementing 1-118 SNPs of all 907 samples were analyzed in sequence and improved fluorescence polarization assay in parallel. The sensitivity, specificity, and stability of the improved fluorescence polarization assay were measured. This study showed the accuracy, simplicity, and cost-effectiveness of the fluorescence polarization assay in the detection of excision repair cross-complementing 1-118 SNPs in a panel of 907 samples. The fluorescence polarization assay was more accurate for the heterozygous sample than was the sequence assay. The minimum detection level established with the fluorescence polarization assay was 2.5 genome copies per reaction and no cross-reaction was observed.
Utilization of machine learning methods for assembling, training and understanding autonomous robots

For decades human society has been supported by the proliferation of complex artifacts such as electronic appliances, personal vehicles and mass transportation systems, electrical and communications grids, and in the past few decades, Internet. In the very near future, robots will play increasingly important roles in our daily life. The increase in complexity of the tasks and sometimes physical forms or morphologies of the artifacts consequently requires complex assembling and controlling procedures of them, which soon will be unmanageable by the traditional manufacturing process. The aim of this paper is to give a brief review on the potentials of the non-traditional assembling of complex artifacts, which in this study is symbolized by the creation of autonomous robots. Methods in self-assembling modular robots, real time learning of autonomous robots and a method for giving the comprehensive understanding, albeit intuitively, to human will be explained through some physical experiments.
A Mutivariable Methodology for Fast Visual Servoing of Flexible Manipulators Moving in a Restricted Workspace

Abstract High-speed visual servoing of manipulators including flexibilities is considered. In the proposed methodology, a model taking into account all the dynamics of the system is identified from the measurements usually available in visual servoing. This model is valid around the working position of the arm and can be easily recomputed after camera displacement. Two multivariable strategies are proposed for controlling the position of the end-effector: generalized predictive control and control. Comparative simulation and experimental results on a 2-degrees of freedom planar manipulator are given. A robustness evaluation step shows that the available working space is quite large.
Effectiveness of Cognitive Behavioral Therapy on Anxiety Disorders in a Graduate Level Training Clinic

Anxiety Disorders rank among the most common and debilitating mental health diagnoses. Furthermore, the prevalence of presenting anxiety disorders has been found to be high in training clinics. While cognitivebehavioral therapy (CBT) has been shown to be the gold standard of treatments for anxiety disorders, little research has been done examining the effectiveness of CBT for anxiety disorders in a university training clinic. Even though training clinics are an excellent resource for collecting effectiveness research data, they are often underutilized for this purpose. The current study used a paired-samples t-test of preand posttest scores on a popular outcome measure to examine the effectiveness of CBT treatment for anxiety disorders in a training clinic. Results were significant and indicated that student clinicians are effective in treating anxiety disorders using CBT. A discussion of clinical implications of the research, limitations of the study, and future research is included.
Molecular structure of amyloid fibrils: insights from solid-state NMR

1. Introduction 2 2. Sources of structural information in solid-state NMR data 5 2.1 General remarks 5 2.2 Chemical shifts, linewidths, and magic-angle spinning 6 2.3 Dipole–dipole couplings and dipolar recoupling 8 2.4 Tensor correlation techniques 12 2.5 Solid-state NMR of aligned samples 14 2.6 Indirect sources of structural information 15 2.7 Sample preparation for solid-state NMR 15 3. Levels of structure in amyloid fibrils 18 4. Molecular structure of β-amyloid fibrils 25 4.1 Self-propagating, molecular-level polymorphism in Aβ1–40 fibrils 25 4.2 Structural model for Aβ1-40 fibrils 28 4.3 Staggering of β-strands in Aβ1-40 fibrils 32 4.4 Structure of Aβ1-42 fibrils 34 4.5 Structure of fibrils formed by short β-amyloid fragments 34 4.6 Structures of non-fibrillar aggregates 35 5. Molecular structure of other amyloid fibrils 36 5.1 Ure2p10–39 and full-length Ure2p fibrils 36 5.2 TTR105–115 fibrils 38 5.3 HET-s fibrils 38 5.4 Amylin fibrils 39 5.5 PrP fibrils 39 5.6 ccβ fibrils 40 5.7 α-synuclein fibrils 40 5.8 Calcitonin fibrils 41 6. Data relevant to various proposals regarding amyloid structure 41 6.1 β-helical models for amyloid fibrils 41 6.2 Amyloid fibrils as water-filled nanotubes 42 6.3 Domain swapping in amyloid fibrils 42 6.4 The parallel superpleated β-structure model 43 6.5 α-sheet structures in amyloid fibrils 43 7. Conclusions 44 8. Acknowledgments 46 9. References 46 Solid-state nuclear magnetic resonance (NMR) measurements have made major contributions to our understanding of the molecular structures of amyloid fibrils, including fibrils formed by the β-amyloid peptide associated with Alzheimer's disease, by proteins associated with fungal prions, and by a variety of other polypeptides. Because solid-state NMR techniques can be used to determine interatomic distances (both intramolecular and intermolecular), place constraints on backbone and side-chain torsion angles, and identify tertiary and quaternary contacts, full molecular models for amyloid fibrils can be developed from solid-state NMR data, especially when supplemented by lower-resolution structural constraints from electron microscopy and other sources. In addition, solid-state NMR data can be used as experimental tests of various proposals and hypotheses regarding the mechanisms of amyloid formation, the nature of intermediate structures, and the common structural features within amyloid fibrils. This review introduces the basic experimental and conceptual principles behind solid-state NMR methods that are applicable to amyloid fibrils, reviews the information about amyloid structures that has been obtained to date with these methods, and discusses how solid-state NMR data provide insights into the molecular interactions that stabilize amyloid structures, the generic propensity of polypeptide chains to form amyloid fibrils, and a number of related issues that are of current interest in the amyloid field.
Ranking from Crowdsourced Pairwise Comparisons via Smoothed Matrix Manifold Optimization

As the blooming development of data mining in social computing systems (e.g., crowdsourcing system), statistical inference from crowdsourced data severs as a powerful tool to provide diversified services. To support critical applications (e.g., recommendation), in this paper, we shall focus on the collaborative ranking problems and construct a system of which the input is crowdsourced pairwise comparisons and the output is individual rankings. Under the Bradley-Terry-Luce (BTL) parametric model assumption, we present a maximum likelihood estimation (MLE) based on low-rank approach to estimate the underlying weight/score matrix, thereby predicting the individual ranking for each user. To address the unique challenge of the coupled non-convex low-rank constraint and the non-smooth elementwise infinity norm constraint in the resulting MLE problem, we propose a novel regularized formulation with the smoothed surrogate of elementwise infinity norm. By further exploiting the geometry of quotient manifolds of fixed-rank matrices, we solve the resulting smoothed rank-constrained optimization problem via developing the Riemannian trust-region algorithm which converges to an approximate local minimum from arbitrary initial points. Numerical results demonstrate the extraordinary effectiveness of the proposed method compared with the state-of-art algorithms.
Conformational Stability of Inositol 1,3,4,5,6-Pentakisphosphate 2-Kinase (IPK1) Dictates Its Substrate Selectivity*

Background: The phosphate profile of the inositol phosphate (IP) substrate defines inositol 1,3,4,5,6-pentakisphosphate 2-kinase (IPK1) specificity. Results: IP substrate specificity is linked to IPK1 stability. Conclusion: IPK1 employs a mechanism of IP-induced stabilization to selectively recognize IP5. Significance: The IP recognition mechanism of IPK1 can be exploited to selectively target IPK1 for the study of higher IPs. Inositol 1,3,4,5,6-pentakisphosphate 2-kinase (IPK1) converts inositol 1,3,4,5,6-pentakisphosphate(IP5) to inositol hexakisphosphate (IP6). IPK1 shares structural similarity with protein kinases and is suspected to employ a similar mechanism of activation. Previous studies revealed roles for the 1- and 3-phosphates of IP5 in IPK1 activation and revealed that the N-lobe of IPK1 is unstable in the absence of inositol phosphate (IP). Here, we demonstrate the link between IPK1 substrate specificity and the stability of its N-lobe. Limited proteolysis of IPK1 revealed that N-lobe stability is dependent on the presence of the 1-phosphate of the substrate, whereas overall stability of IPK1 was increased in ternary complexes with nucleotide and IPs possessing 1- and 3-phosphates that engage the N-lobe of IPK1. Thus, the 1- and 3-phosphates possess dual roles in both IPK1 activation and IPK1 stability. To test whether kinase stability directly contributed to substrate selectivity of the kinase, we engineered IPK1 mutants with disulfide bonds that artificially stabilized the N-lobe in an IP-independent manner thereby mimicking its substrate-bound state in the absence of IP. IPK1 E82C/S142C exhibited a DTT-sensitive 5-fold increase in kcat for 3,4,5,6-inositol tetrakisphosphate (3,4,5,6-IP4) as compared with wild-type IPK1. The crystal structure of the IPK1 E82C/S142C mutant confirmed the presence of the disulfide bond and revealed a small shift in the N-lobe. Finally, we determined that IPK1 E82C/S142C is substantially more stable than wild-type IPK1 under nonreducing conditions, revealing that increased stability of IPK1 E82C/S142C correlates with changes in substrate specificity by allowing IPs lacking the stabilizing 1-phosphate to be used. Taken together, our results show that IPK1 substrate selection is linked to the ability of each potential substrate to stabilize IPK1.
The power of the tests of robinson (1994) in the context of fractionall[y integrated moving average models

We examine in this article the power of the tests of Robinson (1994) for testing I(d) statistical models in the presence of moving average (MA) disturbances. The results show that the tests behave relatively well if we correctly assume that the disturbances are MA. However, assuming white noise or autoregressive disturbances, the power of the tests against one-sided alternatives is very low.
Applied Regression Analysis

for discovering the relationships among variables. This classic text, with its emphasis on clear, thorough presentation of concepts and applications, offers a complete, easily accessible introduction to the fundamentals of regression analysis. Assuming only a basic knowledge of elementary statistics, Applied Regression Analysis, Third Edition focuses on the fitting and checking of both linear and nonlinear regression models, using small and large data sets, with pocket calculators or computers.
Heterogeneous Base Station Placement for Wireless Networks

The base station (BS) deployment planning is become more complex for the next-generation wireless networks, which is an architecture with multi-tier topology. The multiple coexist networks are deployed to serve different kinds of mobile users that their traffic requirements and moving speeds are different. Thus, in this paper, we discuss how to deploy the heterogenous BSs that support differentservice ranges, costs, speeds, capacities, and delay requirements with budgetary limit. The problem is formulated as an integer non-linear programming problem. Accordingly, we proposed some placement algorithms (i.e., Lagrangean Relaxation and simulated annealing approaches) to give a deployment strategy based on constructed BSs to minimize the total deployment cost under the satisfaction of user requirements. The experiment results show the heuristics based on the cost per unit of service point is the best than other two methods.
Collaborative scaffolding in synchronous environment: congruity and antagonism of tutor/student facilitation acts

This paper focuses on the theoretical framework for investigating facilitation acts of the tutor and the students in problem-solving groups as reciprocally congruent. We propose to broaden the scaffolding debate in collaborative teams towards the areas of students' shared metacognitive and cognitive grounding acts. Similar tutor-supported and untutored science-related dilemma-solving activities in network-based synchronous mode were categorically analyzed and compared with respect to their scaffolding acts. We asked the question, whether there emerges the collaborative scaffolding situation in teams and how does tutor influence the peer scaffolding. Results indicated the presence of several scaffolding actors in collaborative teams. The nature of activity (tutored or untutored) had an influence on the practice of specific supportive acts by the tutor and the students. The various interrelations between student and tutor scaffolding acts must be considered when preparing the tutor support during problem solving.
The reciprocal relationship between melanization and tyrosinase activity in melanosomes (melanin granules).

In mammals, melanin pigment is synthe sized in a speciffc cell, the melanocyte, by the action of a copper-containing oxidase, tyrosinase (1•`3). This enzyme catalyzes the aerobic oxidation of tyrosine, the precursor of melanin, to a monomer, 5,6-dihydroxy indole; this monomer, in turn, is transformed into a large polymer which is probably at tached through its quinone linkages to the amino or sulfhydryl groups of the protein matrix of the pigment granule. It has been shown that mammalian tyrosinase is attached to a specific cytoplasmic particle (4, 5). The name " melanosome " has been proposed for these distinctive, enzymatically active particles which are the site of melanin formation and are found only within the cytoplasm of the melanocyte (6). Melanosomes have been shown by biochemical and electronmicroscopic studies to be different from mitochondia (6). Electronmicroscopy has revealed the mor
Hyponatremia in Children with Acute Central Nervous System Diseases

Result: Eight of 75 pediatric patients (10.7%) with acute CNS diseases had hyponatremia syndrome, 3 of which were diagnosed with inappropriate antidiuretic hormone secretion. Another 2 patients showed signs of dehydration and evidence of cerebral salt wasting. In the remaining 3 patients the clinical and laboratory data were insufficient for further classification. The highest percentage of hyponatremia (3 out of 6 patients; 50%) was found in patients with intracranial diseases. Four out of 38 patients (15.5%) presented with CNS infections. Mean serum levels of glucose, sodium and osmolality were significantly lower in all patients with acute CNS diseases compared with the control, while urinary urea and osmolality levels were significantly higher in those patients as compared with the control group.
Chronic toxicity studies on proximate compositionrnof Cyprinus carpio exposed to fenthion

The present study indicates proximate composition, including protein, carbohydrates, moisture, LSI and lipids contents of fresh water fish Cyprinus carpio chronically exposed to fenthion. In the present study the significant decrease in glycogen, protein, and increase in lipid and moisture content could be observed. Significant drop in LSI observed in Fenthion treated C. carpio clearly indicates fall in nutritional value or quality of food.
Anomaly detection in performance regression testing by transaction profile estimation

As part of the process to test a new release of an application, the performance testing team need to confirm that the existing functionalities do not perform worse than those in the previous release, a problem known as performance regression anomaly. Most existing approaches to analyse performance regression testing data vary according to the applied workload, which usually leads to the need for an extra performance testing run. To ease such lengthy tasks, we propose a new workload‐independent, automated technique to detect anomalies in performance regression testing data using the concept known as transaction profile (TP). The TP is inferred from the performance regression testing data along with the queueing network model of the testing system. Based on a case study conducted against two web applications, one open source and one industrial, we have been able to automatically generate the ‘TP run report’ and verify that it can be used to uncover performance regression anomalies caused by software updates. In particular, the report helped us to isolate the real anomaly issues from those caused by workload changes with an average F1 measure of 85% for the open source application and 90% for the industrial application. Such results support our proposal to use the TP as a more efficient technique in identifying performance regression anomalies than the state of the art industry and research techniques. Copyright © 2015 John Wiley & Sons, Ltd.
Molecular Pathogenesis of Genetic and Inherited Diseases Cross-Seeding and Cross-Competition in Mouse Apolipoprotein A-II Amyloid Fibrils and Protein A Amyloid Fibrils

From the Department of Aging Biology,* Institute on Aging and Adaptation, Shinshu University Graduate School of Medicine, Matsumoto; The Core Research for Evolutional Science and Technology, Japan Science and Technology Corporation, Tokyo; the Research Center for Human and Environmental Science, Shinshu University, Matsumoto; and the Division of Molecular Pathology, Department of Pathological Sciences, Faculty of Medical Science, University of Fukui, Fukui, Japan
Siderotic Nodules at MR Imaging: Regenerative or Dysplastic?

Objective To determine if iron containing “siderotic” nodules detected at magnetic resonance (MR) imaging are regenerative (RN) or dysplastic (DN) and to attempt to identify features that may distinguish them. Material and Methods MR imaging (1.5 T) was performed on 77 cirrhotic patients who underwent orthotopic liver transplantation within 0–117 days (mean 30 days) of MR imaging. Two readers retrospectively evaluated breath-hold gradient-echo pulse sequences (echo time ≥9.0 ms, flip angle ≤45°) for the presence of hypointense nodules, which were classified as micronodular (≤3 mm), macronodular (>3 mm), or mixed. Nodule distribution was classified as focal (<5), scattered (5–20), or diffuse (>20) per slice. Thin section pathologic correlation was available in all cases, and Prussian blue iron stains were performed. Results Of 35 patients with pathologically proven siderotic nodules, 10 (29%) had at least 2 siderotic DN. MR detected siderotic nodules in 10 of 10 (100%) patients with siderotic DN and RN, and in 18 of 25 patients (72%) with siderotic RN only. Conclusion Siderotic RN cannot be reliably distinguished from siderotic DN with MR imaging, and therefore the widely used term “siderotic regenerative nodule” should be avoided and replaced by “siderotic nodule. ”
Association of Epstein–Barr virus infection with p53 protein accumulation but not bcl‐2 protein in nasopharyngeal carcinoma

The aim of this study was to investigate the association of Epstein–Barr virus (EBV) infection with status of p53 protein expression in nasopharyngeal carcinoma (NPC). The expression of EBV gene and gene product, p53 protein and bcl‐2 protein in NPC was histopathologically studied.
Familial Intrahepatic Cholestatic Jaundice in Infancy 0

Recurrent jaundice due to intrahepatic cholestasis is reported most often in adults. Some varieties are familial and are associated with failure of excretion of conjugated bilirubin by the liver cell. The original descriptions of these types given by Rotor, Manahan, and Florentin (1948) and Dubin and Johnson (1954) concerned patients with a benign recurrent jaundice. The diseases described by these authors differ in liver histology and certain liver function tests. The fundamental defect appears to be an inability to transport conjugated bilirubin across the cell membrane between the liver cell and the bile canaliculus. We report two sisters both of whom died under 3 years of age from a malignant variety of intrahepatic cholestasis due to a similar difficulty in bile excretion. Both children were born and lived in South Wales; the mother is a native of Wales, but the father is Irish. The parents are not related. The father's uncle had jaundice on several occasions in adult life, but further details are not available.
Design of a Q-Band Eight-Way Lumped Power Divider in 90 nm CMOS Technology

A Q-band eight-way power divider in CMOS technology is presented. This divider is designed using lumped elements to realize a compact layout. Parametric analyses for the parasitic effects are given using simplified inductor/capacitor models. Measurement in the 37-49 GHz frequency range shows an insertion loss less than 2.7 dB, the input/output return loss better than -13.7 dB and the port-to-port isolation better than 22.5 dB (more than 30 dB over 44-49 GHz).
Isolation of inclusion bodies from rabbit lung parenchyma

The mitochondrial‐plus‐lysosomal fraction of rabbit lung parenchyma was studied by equilibrium density centrifugation in continuous sucrose density gradients (specific gravity 1.035 to 1.250). High concentrations of lysosomal marker enzymes were found both in a broad band at density 1.15–1.18, a density typical for lysosomes, and in a band at density 1.06–1.07. This light density band also had the highest specific activity of phospholipid, which thin layer and gas‐liquid chromatography showed to be primarily lecithin with a high content of palmitic acid residues. Electron microscopy of material from the light density band showed a homogeneous array of particles which bear a strong resemblance to the inclusion bodies of the type II alveolar epithelial cell as seen in electron micrographs of rabbit lung tissue sections. These data suggest that the light density band is an isolation of intact type II alveolar epithelial cell inclusion bodies, which previous studies have implicated as the storage site of the phospholipid moiety of pulmonary surfactant.