Miracle-dz/UniFAR-FTUs huggingface dataset:
Data-Compression-Based Resource Management in Cloud Computing for Biology and Medicine

With the application and development of biomedical techniques such as next-generation sequencing, mass spectrometry, and medical imaging, the amount of biomedical data have been growing explosively. In terms of processing such data, we face the problems surrounding big data, highly intensive computation, and high dimensionality data. Fortunately, cloud computing represents significant advantages of resource allocation, data storage, computation, and sharing and offers a solution to solve big data problems of biomedical research. In order to improve the efficiency of resource management in cloud computing, this paper proposes a clustering method and adopts Radial Basis Function in order to compress comprehensive data sets found in biology and medicine in high quality, and stores these data with resource management in cloud computing. Experiments have validated that with such a data-compression-based resource management in cloud computing, one can store large data sets from biology and medicine in fewer capacities. Furthermore, with reverse operation of the Radial Basis Function, these compressed data can be reconstructed with high accuracy.
Monoclonal antibodies specific to porin of Haemophilus influenzae type b: localization of their cognate epitopes and tests of their biological activities

The major outer membrane protein of Haemophilus influenzae type b (Hib) is porin (Mr 38000, 341 amino acids). To identify antigenic determinants on Hib porin that might be exposed at the bacterial ceil surface, seven mouse monoclonal anti‐Hib porin antibodies were generated. The monoclonal antibodies were tested for their binding to intact cells by flow cytometry; all but one bound to the cell surface. Digestions of Hib porin with cyanogen bromide, hydroxylamine or trypsin generated fragments, the identities of which were confirmed by microsequencing of the amino termini. Following electrophoresis and immunoblotting of the fragments, the specificities of the monoclonal antibodies for their cognate sequences were determined. The porin gene ompP2 was expressed in the baculovirus expression vector system; the recombinant porin was recognized by all of the monoclonal antibodies. Deletions were created by omega mutagenesis of ompP2, generating proteins truncated after amino acids 139, 174, 182, and 264. These deletion proteins were tested for reactivities with the monoclonal antibodies, thereby establishing the boundaries of three antigenic determinants that were recognized by the monoclonals: domain (i), amino acids 104–139; domain (ii) amino acids 162–174; and domain (iii), amino acids 267–341. The biological activities of monoclonal antibodies that were representative of these three classes were tested for their bactericidal activity in complement‐mediated tysis of whole cells. The monoclonal antibodies were also tested for their immunoprotective properties in the infant rat model of bacteraemia. Although the monoclonal antibodies were surface‐binding, they were neither bactericidal nor protective.
ESI-MS quantitation of increased sphingomyelin in Niemann-Pick disease type B HDLs⃞s⃞ The online version of this article (available at http://www.jlr.org) contains an additional figure and two tables. Published, JLR Papers in Press, March 1, 2005. DOI 10.1194/jlr.M500011-JLR200

HDLs have been proposed to have antiatherogenic properties because of their role in reverse cholesterol transport as lipid acceptors. To elucidate the phospholipid profile of these particles, we used electrospray ionization mass spectrometry to examine the phosphatidylcholine (PC) and sphingomyelin (SM) composition of HDLs purified from plasma and nascently generated in vitro from fibroblasts. We also quantitatively compared the phospholipids present in these lipoproteins between normal and Niemann-Pick disease type B (NPD-B) subjects characterized by sphingomyelinase (SMase) deficiency. We demonstrated that plasma HDLs from NPD-B were significantly enriched in SM by an average of 28%, particularly the palmitoyl SM (with an increase of 95%), which accounted for ∼25–44% of total SM molecular species. Similarly, we observed an increase of ∼63% in total SM levels in nascent HDLs prepared from NPD-B fibroblasts. Although PC levels in nascent HDLs were comparable between control and NPD-B cells, there was a 95% increase in total PC levels similar to that of SM in plasma HDLs extracted from NPD-B subjects. These data provide insight into the structure of HDLs and identify potential new roles for SMase in lipoprotein metabolism.
Pattern reconfigurable Cpw uwb antenna for wireless application using ferrite based EBG metasurface

This paper presents a pattern reconfigurable coplanar wave guide ultra wide band antenna for Wi-Fi application at 5 GHz. Ferrite based EBG is designed to achieve reconfigurability of +/−22° in E plane while shift from −6° to −14° is obtained in H plane simultaneously. Bloch boundary condition is applied on unit cell of high impedance surface consists of primitive structure of rectangular shaped metal patch and finally 5×7 periodicity of metasurface is conceived. Two different dc biasing angles are applied to realize reconfigurability. Design and simulation of antenna is performed on HFSS v.16.
HARVARD THEOLOGICAL REVIEW

DURING the latter part of the second century Irenaeus of Lyons, at the beginning of his treatise " Against All Heresies," did not hesitate to state with great emphasis that Christianity had fully succeeded in keeping intact the original Christian faith, in safeguarding the unbroken continuity of the apostolic tradition, and in maintaining the unity of belief and of sacramental practice throughout all the churches scattered in the Roman Empire. One might easily remark that the very treatise which Irenaeus had set himself to write offered clear evidence that the Christian unity so emphatically affirmed by him did not really exist. Far from being united, Christianity was rent by serious doctrinal and disciplinary conflicts. Evidently Irenaeus was speaking of the oneness of the Christian faith without taking into account the divergent beliefs and practices of those groups which had been cut off from the communion of the Great Church. So understood his assumption was true: by the end; of the second century the KO0OXIKT) hcKKqala did possess unity \ of essential belief and even a certain degree of uniformity in its I organization and practice. How such a unity had been achieved' 1 Adv. Haer. , i. 10, 2.
Source reduction method using wavelets for the source separation problem

The blind source separation problem is to estimate the number of the unknown source signals and to separate the original source signals from the several observed signals, which are assumed to be linear superpositions of the sources. The coefficients of the superposition are also unknown. In this paper, in order to overcome a difficulty in previously proposed methods, a new approach to solve the problem, named source reduction method, using continuous wavelet transform is proposed.
Small Molecule Therapeutics Combinatorial Therapy Using Dovitinib and ICI 182 . 780 ( Fulvestrant ) Blocks Tumoral Activity of Endometrial Cancer Cells

Mutations in fibroblast growth factor receptor 2 (FGFR2) have been recently described as a molecularspecific feature in endometrial carcinomas and the presence of activated FGFR2 mutations is associated with poor prognosis. For that reason, inhibition of FGFR2 could be a therapeutic target in the treatment of endometriod carcinomas. In this work, we investigated the antitumoral activity of dovitinib (amultiple kinase inhibitor) in human endometrial cancer cell (ECC) lines.We found that dovitinib caused cell growth arrest, loss of clonogenic growth, and cell-cycle arrest in FGFR2-mutated ECCs in in vitro and in vivo experiments.Next,we investigated themechanistic basis of dovitinib effects. We could determine that dovitinib modified expression levels of well-known key cell-cycle regulatory proteins that induce cellular senescence. To further investigate the role of dovitinib, we analyzed its effect on estrogen receptor a (ER-a) expression. Surprisingly, we discovered that dovitinib enhances ER-a expression in FGFR2-mutant ECCs. Because blocking one signaling pathway is often not sufficient to cause total tumor regression and the effectiveness of individual inhibitors is often short-lived,we examined the impact of targeting FGFR2withdovitinib in combinationwith a selectiveER antagonist, fulvestrant (ICI182.780). Combination of dovitinib plus ICI182.780 resulted in a significantly higher inhibition of cell growth than dovitinib treatment alone. These findings suggest that combinatory therapies using dovitinib plus ICI182.780 treatment can be truly effective in patients with endometrial carcinomas carrying FGFR2 mutations. Mol Cancer Ther; 13(4); 776–87. 2014 AACR.
GPU-accelerated voxelwise hepatic perfusion quantification

Voxelwise quantification of hepatic perfusion parameters from dynamic contrast enhanced (DCE) imaging greatly contributes to assessment of liver function in response to radiation therapy. However, the efficiency of the estimation of hepatic perfusion parameters voxel-by-voxel in the whole liver using a dual-input single-compartment model requires substantial improvement for routine clinical applications. In this paper, we utilize the parallel computation power of a graphics processing unit (GPU) to accelerate the computation, while maintaining the same accuracy as the conventional method. Using compute unified device architecture-GPU, the hepatic perfusion computations over multiple voxels are run across the GPU blocks concurrently but independently. At each voxel, nonlinear least-squares fitting the time series of the liver DCE data to the compartmental model is distributed to multiple threads in a block, and the computations of different time points are performed simultaneously and synchronically. An efficient fast Fourier transform in a block is also developed for the convolution computation in the model. The GPU computations of the voxel-by-voxel hepatic perfusion images are compared with ones by the CPU using the simulated DCE data and the experimental DCE MR images from patients. The computation speed is improved by 30 times using a NVIDIA Tesla C2050 GPU compared to a 2.67 GHz Intel Xeon CPU processor. To obtain liver perfusion maps with 626 400 voxels in a patient's liver, it takes 0.9 min with the GPU-accelerated voxelwise computation, compared to 110 min with the CPU, while both methods result in perfusion parameters differences less than 10−6. The method will be useful for generating liver perfusion images in clinical settings.
Fitting stratified proportional odds models by amalgamating conditional likelihoods

Classical methods for fitting a varying intercept logistic regression model to stratified data are based on the conditional likelihood principle to eliminate the stratum‐specific nuisance parameters. When the outcome variable has multiple ordered categories, a natural choice for the outcome model is a stratified proportional odds or cumulative logit model. However, classical conditioning techniques do not apply to the general K‐category cumulative logit model (K>2) with varying stratum‐specific intercepts as there is no reduction due to sufficiency; the nuisance parameters remain in the conditional likelihood. We propose a methodology to fit stratified proportional odds model by amalgamating conditional likelihoods obtained from all possible binary collapsings of the ordinal scale. The method allows for categorical and continuous covariates in a general regression framework. We provide a robust sandwich estimate of the variance of the proposed estimator. For binary exposures, we show equivalence of our approach to the estimators already proposed in the literature. The proposed recipe can be implemented very easily in standard software. We illustrate the methods via three real data examples related to biomedical research. Simulation results comparing the proposed method with a random effects model on the stratification parameters are also furnished. Copyright © 2008 John Wiley & Sons, Ltd.
Hybrid silicon photonic circuits and transceiver for 56Gb/s NRZ 2.2km transmission over single mode fiber

Using hybrid integration of electronics and silicon photonics integrated circuits, we demonstrate the generation and detection of up to 56Gb/s NRZ optical signals over 2km standard single mode fiber at 1310nm wavelength. The link operates error free at 40Gb/s and under KR4 FEC threshold at 56Gb/s.
Catastrophic fat embolism following augmentation of pedicle screws with bone cement : a case report.

The treatment of spinal fractures in patients with osteoporosis can be challenging. Osteoporotic bone weakens the purchase of internal fixation devices, which may be required for stabilization. There have been few reports on the use of polymethylmethacrylate for the structural augmentation of pedicle-screw fixation1,2. Theoretical complications of screw augmentation include leakage of cement causing nerve root or spinal cord compression, infection, and osteolysis due to particulate wear debris leading to screw loosening and hardware failure. The fat-embolism syndrome is a well-described complication of long-bone fractures and orthopaedic procedures involving reaming of long bones; however, it has rarely been described in association with spinal procedures. We are aware of only three cases of fat embolism syndrome following spinal arthrodesis and are aware of no such no cases following screw augmentation3-5. We present the case of a patient with intraoperative fatal fat-embolism syndrome following augmentation of screw fixation during a revision posterior spinal arthrodesis. A sixty-one-year-old woman with diabetes presented with a several-week history of left-sided weakness, back pain, and night sweats. Radiographic evaluation revealed progressive collapse of the eighth thoracic vertebra. Magnetic resonance imaging revealed decreased signal intensity on T1-weighted images and increased signal intensity on T2-weighted images. Blood cultures were positive for Streptococcus viridans . A diagnosis of vertebral osteomyelitis was made. The patient underwent corpectomy of the seventh and eighth thoracic vertebrae and anterior spinal arthrodesis with placement of a titanium cage filled with rib autograft, followed by a posterior arthrodesis from the sixth to the ninth thoracic vertebrae ( Fig. 1 ). The patient tolerated both of the procedures well, and no early postoperative complications occurred. Fig. 1: Initial radiograph made after corpectomy of the …
ROI and TCO analysis of the first production level installation of adsorption chillers in a data center

Since mechanical chillers account for a large fraction of electricity spent on cooling, data centers are looking for ways to reduce their usage. In High Performance Computing, a popular approach is to use readily available high temperature direct liquid cooling (HT-DLC) that allows for mechanical chiller free cooling of compute components. Additionally, it provides a means to re-use their waste heat. A potential application is to use the waste heat to produce still needed cold water via adsorption refrigeration. This paper analyses the first production level installation of adsorption technology in a data center in terms of energy flows, Return of Investment (ROI), and Total Cost of Ownership (TCO).
Monitoring Cole-Cole Parameters During Haemodialysis (HD)

The investigation of the hydration process during the haemodialysis treatment sessions is very important for the development of methods for predicting the unbalanced fluid shifts and hypotension crisis hence improving the quality of the haemodialysis procedure. Bioimpedance measurements can give valuable information about the tissue under measurement, therefore characterizing the tissue.In this work we propose a non-invasive method based on local multifrequency bioimpedance measurements that allow us to determine the fluid distribution and variations during haemodialysis. Clinical measurements were done using 10 HD patients during 60 HD sessions. Bioimpedance data, ultrafiltration volume, blood volume and blood heamatocrit variations were recorded continuously during the HD sessions. Bioimpedance of the local tissue was measured with a 4-elctrode impedance system using surface electrodes with sampling rate of 1 meas. /4 min. at 6 different frequencies. The measured impedances were fitted into Cole-Cole model and the Cole-Cole parameters were continuously determined for each measurement point during the HD session. The 4 Cole-Cole parameters (RinfinR0Fcalpha) and their variations were evaluated. Impedance values at infinite and zero (RinfinR0) frequencies were extrapolated from Cole-Cole mathematical model. These values are assumed to represent the impedance of total tissue fluid and the impedance of the extracellular space respectively.
Preparation of Gold Nanoparticles Using Tea: A Green Chemistry Experiment

Assimilating green chemistry principles in nanotechnology is a developing area of nanoscience research nowadays. Thus, there is a growing demand to develop environmentally friendly and sustainable methods for the synthesis of nanoparticles that utilize nontoxic chemicals, environmentally benign solvents, and renewable materials to avoid their adverse effects. A simple, economic, and environmentally benign experimental route to synthesize gold nanoparticles using tea leaves in an aqueous media at room temperature is described with a goal to introduce chemistry students to the concept of green chemistry as well as nanotechnology. The single-step method circumvents the use of surfactant, capping agent, or template and follows several principles of green chemistry. The experiment can be conducted in a typical laboratory session and is suitable for incorporation into the undergraduate introductory chemistry laboratory curriculum and constitutes an influential example of green chemistry in action.
On uplink OFDMA resource allocation with ergodic sum-rate maximization

Uplink ergodic sum-rate maximization in OFDMA systems is considered. The general problem is formulated as a convex optimization problem and a dual solution is presented. The problem formulation is generalized to the case of utility maximization where the utility can be any function of rate. A suboptimal scheduling algorithm with low complexity is proposed and shown to achieve close performance to the optimal solution.
Draft Genome Sequence of a Hexachlorocyclohexane-Degrading Bacterium, Sphingobium baderi Strain LL03T

ABSTRACT Sphingobium baderi strain LL03T was isolated from hexachlorocyclohexane (HCH)-contaminated soil from Spolana, Czech Republic. Strain LL03T is a mutant that is deficient in linB and linC (genes that encode hexachlorocyclohexane haloalkane dehalogenase and dehydrogenase, respectively). The draft genome sequence of LL03T (~4.85 Mb) consists of 92 contigs and 4,914 coding sequences, with a G+C content of 63.5%.
Evaluating new surgical procedures

Surgery has been slow to take up the challenge of British epidemiologist Archie Cochrane: to prevent the introduction of new therapeutic procedures until randomised trials have shown them to be more effective than existing treatments.1 For example, laparoscopic cholecystectomy was first performed in 1987 and became the standard treatment for symptomatic gall stones within about seven years. During this period no more than 10 trials comparing laparoscopic with conventional forms of cholecystectomy were published worldwide. Of three peer reviewed randomised trials comparing laparoscopic and minilaparotomy cholecystectomy published in Britain since 1992,2 3 4 only one randomised more than 100 patients,5 justified this with a calculation of sample size, and analysed the results by intention to treat.6 Many potential problems have been cited to explain the shortage of rigorous surgical trials.7 Some are practical--for example, recruiting patients may be difficult. This problem can be resolved …
A Preliminary Experimental Investigation of Emotion Dysregulation and Impulsivity in Risky Behaviours

This prospective experimental study sought to examine the unique effects of emotion dysregulation and impulsivity on risky behaviours over time. To this end, 20 African American women enrolled in a historically Black university in the southern United States were randomly assigned to receive one of two brief empirically supported skills training modules (i.e., emotion modulation [EM] or impulsivity reduction [IR]). Participants completed measures of emotion dysregulation, impulsivity, and past-week risky behaviours before (pre-) and one week after (post-) the experimental manipulation. Participants assigned to the EM condition reported significant improvements from pre- to post-manipulation in overall emotion dysregulation (as well as all specific dimensions of emotion dysregulation other than lack of emotional awareness), as well as two dimensions of impulsivity: negative and positive urgency. Participants assigned to the IR condition reported a significant decrease in one dimension of impulsivity (lack of premeditation) from pre- to post-manipulation. Findings also revealed a significant effect of time on risky behaviours, with participants reporting significantly fewer past-week risky behaviours at the post- (vs. pre-) manipulation assessment. Finally, changes in emotion dysregulation from pre- to post-manipulation accounted for the observed reduction in risky behaviours over time (above and beyond changes in impulsivity dimensions). Results highlight the relevance of emotion dysregulation to risky behaviours and suggest that treatments targeting emotion dysregulation may be useful in reducing risky behaviours.
Task Modeling Infrastructure for Analyzing Smart Phone Usage

We present a task modeling infrastructure for smart phone applications. The infrastructure consists of a generic task model (TM) and software tool-TM Designer-which allow a modeler to create task models that support tracking smart phone users and analyzing their use of smart phone applications. The syntax of the TM include smart phones applications, goals of applications, screens included in each application, and the possible transitions from any goal or screen to another goals and screens. In addition, the TM includes physical representations of the TM components for aligning and matching the logic TM with the physical smart phone while tracking the phone usage. Since the TM aims at modeling various smart phone applications for different mobile devices, a specific inheritance mechanism was developed to enable the reuse of TM components. Based on the tracked usage data, the service provider will be able to learn about the efficiency of the smart phone usage, predict the intentions of the users while operating the device, and provide appropriate help. In addition, the gathered usage information will enable discovering patterns of use of various applications, and predict users' interests in existing and new smart phone services and applications.