gebhart/patrepeval huggingface dataset:
Generation of Structural MR Images from Amyloid PET: Application to MR-Less Quantification (2017)

Structural MR images concomitantly acquired with PET images can provide crucial anatomic information for precise quantitative analysis. However, in the clinical setting, not all the subjects have corresponding MR images. Here, we developed a model to generate structural MR images from amyloid PET using deep generative networks. We applied our model to quantification of cortical amyloid load without structural MR. <b>Methods:</b> We used florbetapir PET and structural MR data from the Alzheimer Disease Neuroimaging Initiative database. The generative network was trained to generate realistic structural MR images from florbetapir PET images. After the training, the model was applied to the quantification of cortical amyloid load. PET images were spatially normalized to the template space using the generated MR, and then SUV ratio (SUVR) of the target regions was measured by predefined regions of interest. A real MR-based quantification was used as the gold standard to measure the accuracy of our approach. Other MR-less methods-a normal PET template-based, a multiatlas PET template-based, and a PET segmentation-based normalization/quantification-were also tested. We compared the performance of quantification methods using generated MR with that of MR-based and MR-less quantification methods. <b>Results:</b> Generated MR images from florbetapir PET showed signal patterns that were visually similar to the real MR. The structural similarity index between real and generated MR was 0.91 ± 0.04. The mean absolute error of SUVR of cortical composite regions estimated by the generated MR-based method was 0.04 ± 0.03, which was significantly smaller than other MR-less methods (0.29 ± 0.12 for the normal PET template, 0.12 ± 0.07 for the multiatlas PET template, and 0.08 ± 0.06 for the PET segmentation-based methods). Bland-Altman plots revealed that the generated MR-based SUVR quantification was the closest to the SUVRs estimated by the real MR-based method. <b>Conclusion:</b> Structural MR images were successfully generated from amyloid PET images using deep generative networks. Generated MR images could be used as templates for accurate and precise amyloid quantification. This generative method might be used to generate multimodal images of various organs for further quantitative analyses.
Rapid detection and purification of sequence specific DNA binding proteins using magnetic separation (2006)

In this paper, a method for the rapid identification and purification of sequence specific DNA binding proteins based on magnetic separation is presented. This method was applied to confirm the binding of the human recombinant USF1 protein to its putative binding site (E-box) within the human SOX3 protomer. It has been shown that biotinylated DNA attached to streptavidin magnetic particles specifically binds the USF1 protein in the presence of competitor DNA. It has also been demonstrated that the protein could be successfully eluted from the beads, in high yield and with restored DNA binding activity. The advantage of these procedures is that they could be applied for the identification and purification of any high-affinity sequence-specific DNA binding protein with only minor modifications.
A low temperature thermal switch (1973)

A very simple and efficient thermal switch is described which isolates a sample chamber from a 25 K refrigerator during sample heating up to 400 K. The device is merely a single crystal of sapphire.
Behavioral fault modeling in a VHDL synthesis environment (2003)

This paper proposes new fault models for VHDL behavioral descriptions of combinational logic circuits. The models are developed via abstraction of industry standard single-stuck-line (SSL) faults into the behavioral domain. A functional analysis technique is used to evaluate the effects of SSL faults on gate level implementations. Generalized functional faults are then abstracted into the behavioral domain by examining their relationship with the higher level language construct. Test vectors derived from the new behavioral fault models are applied to synthesized gate level realizations of an example arithmetic logic unit. Resulting gate level fault coverage is determined and used as a measure of effectiveness for the new fault models. Because the behavioral faults are derived from a functional analysis of low level faults, they provide improved fault coverage over previous fault models.
Efficient Configurable Decoder Architecture for Nonbinary Quasi-Cyclic LDPC Codes (2011)

Nonbinary LDPC codes are effective in combating burst errors. This paper presents an efficient architecture for implementing nonbinary LDPC decoders. The Galois field power representation is used to organize the a priori, a posteriori, and extrinsic messages involved in decoding. The power representation in conjunction with the barrel shifter and multithreaded pipelining yields an efficient implementation. The proposed decoder is configurable, in the sense that a single decoder can be used to decode any code of a given field size. The decoder supports both regular and irregular nonbinary QC-LDPC codes. Using a practical metric of throughput per unit area, the proposed implementation outperforms the best implementations published in research literature to date.
TATA is a modular component of synthetic promoters (2010)

The expression of most genes is regulated by multiple transcription factors. The interactions between transcription factors produce complex patterns of gene expression that are not always obvious from the arrangement of cis-regulatory elements in a promoter. One critical element of promoters is the TATA box, the docking site for the RNA polymerase holoenzyme. Using a synthetic promoter system coupled to a thermodynamic model of combinatorial regulation, we analyze the effects of different strength TATA boxes on various aspects of combinatorial cis-regulation. The thermodynamic model explains 75% of the variance in gene expression in synthetic promoter libraries with different strength TATA boxes, suggesting that many of the salient aspects of cis-regulation are captured by the model. Our results demonstrate that the effect of changing the TATA box on gene expression is the same for all synthetic promoters regardless of the arrangement of cis-regulatory sites we studied. Our analysis also showed that in our synthetic system the strength of the RNA polymerase-TATA interaction does not alter the combinatorial interactions between transcription factors, or between transcription factors and RNA polymerase. Finally, we show that although stronger TATA boxes increase expression in a predictable fashion, stronger TATA boxes have very little effect on noise in our synthetic promoters, regardless of the arrangement of cis-regulatory sites. Our results support a modular model of promoter function, where cis-regulatory elements can be mixed and matched (programmed) with outcomes on expression that are predictable based on the rules of simple protein-protein and protein-DNA interactions.
Identification of Arsenic Direct-Binding Proteins in Acute Promyelocytic Leukaemia Cells (2015)

The identification of arsenic direct-binding proteins is essential for determining the mechanism by which arsenic trioxide achieves its chemotherapeutic effects. At least two cysteines close together in the amino acid sequence are crucial to the binding of arsenic and essential to the identification of arsenic-binding proteins. In the present study, arsenic binding proteins were pulled down with streptavidin and identified using a liquid chromatograph-mass spectrometer (LC-MS/MS). More than 40 arsenic-binding proteins were separated, and redox-related proteins, glutathione S-transferase P1 (GSTP1), heat shock 70 kDa protein 9 (HSPA9) and pyruvate kinase M2 (PKM2), were further studied using binding assays in vitro. Notably, PKM2 has a high affinity for arsenic. In contrast to PKM2, GSTP1and HSPA9 did not combine with arsenic directly in vitro. These observations suggest that arsenic-mediated acute promyelocytic leukaemia (APL) suppressive effects involve PKM2. In summary, we identified several arsenic binding proteins in APL cells and investigated the therapeutic mechanisms of arsenic trioxide for APL. Further investigation into specific signal pathways by which PKM2 mediates APL developments may lead to a better understanding of arsenic effects on APL.
Real-Time Centimeter-Accuracy GPS: Initializing While in Motion (Warm Start Versus Cold START) (1993)

The initialization of real-time centimeter-accuracy GPS (i.e., based on carrier phases) can be performed while in motion. Although included results are postprocessed, the algorithms are currently being implemented for real-time navigation, and the results will be essentially the same. The goal of the initialization procedure is to determine the double-difference carrier phase integer ambiguities. This paper reports the benefit to the initialization procedure of additional knowledge or constraints. As an example, it shows the speedup (meaning fewer epochs, not computational speed) of the initialization procedure and increased reliability using a priori knowledge of the average ellipsoidal height of the antenna phase center on a marine platform. As another example, it shows the benefit of prior knowledge of one or two double-difference integer biases, either alone or coupled with a priori knowledge of the ellipsoidal height of the antenna phase center.
Differential Binding of <i>Escherichia coli</i> O157:H7 to Alfalfa, Human Epithelial Cells, and Plastic Is Mediated by a Variety of Surface Structures (2005)

Escherichia coli O157:H7 carried on plant surfaces, including alfalfa sprouts, has been implicated in food poisoning and outbreaks of disease in the United States. Adhesion to cell surfaces is a key component for bacterial establishment and colonization on many types of surfaces. Several E. coli O157:H7 surface proteins are thought to be important for adhesion and/or biofilm formation. Therefore, we examined whether mutations in several genes encoding potential adhesins and regulators of adherence have an effect on bacterial binding to plants and also examined the role of these genes during adhesion to Caco-2 cells and during biofilm formation on plastic in vitro. The genes tested included those encoding adhesins (cah, aidA1, and ompA) and mediators of hyperadherence (tdcA, yidE, waaI, and cadA) and those associated with fimbria formation (csgA, csgD, and lpfD2). The introduction of some of these genes (cah, aidA1, and csg loci) into an E. coli K-12 strain markedly increased its ability to bind to alfalfa sprouts and seed coats. The addition of more than one of these genes did not show an additive effect. In contrast, deletion of one or more of these genes in a strain of E. coli O157:H7 did not affect its ability to bind to alfalfa. Only the absence of the ompA gene had a significant effect on binding, and the plant-bacterium interaction was markedly reduced in a tdcA ompA double mutant. In contrast, the E. coli O157:H7 ompA and tdcA ompA mutant strains were only slightly affected in adhesion to Caco-2 cells and during biofilm formation. These findings suggest that some adhesins alone are sufficient to promote binding to alfalfa and that they may exist in E. coli O157:H7 as redundant systems, allowing it to compensate for the loss of one or more of these systems. Binding to the three types of surfaces appeared to be mediated by overlapping but distinct sets of genes. The only gene which appeared to be irreplaceable for binding to plant surfaces was ompA.
Implementation of Accelerometer Sensor Module and Fall Detection Monitoring System based on Wireless Sensor Network (2007)

This research implements wireless accelerometer sensor module and algorithm to determine wearer's posture, activity and fall. Wireless accelerometer sensor module uses ADXL202, 2-axis accelerometer sensor (Analog Device). And using wireless RF module, this module measures accelerometer signal and shows the signal at ;Acceloger' viewer program in PC. ADL algorithm determines posture, activity and fall that activity is determined by AC component of accelerometer signal and posture is determined by DC component of accelerometer signal. Those activity and posture include standing, sitting, lying, walking, running, etc. By the experiment for 30 subjects, the performance of implemented algorithm was assessed, and detection rate for postures, motions and subjects was calculated. Lastly, using wireless sensor network in experimental space, subject's postures, motions and fall monitoring system was implemented. By the simulation experiment for 30 subjects, 4 kinds of activity, 3 times, fall detection rate was calculated. In conclusion, this system can be application to patients and elders for activity monitoring and fall detection and also sports athletes' exercise measurement and pattern analysis. And it can be expected to common person's exercise training and just plaything for entertainment.
Character and psychological criticism (1988)

No critical approach has led to more disagreement and aroused more animosity than has the analysis of the character of Othello and, to a lesser degree, Iago. The language of some critics in attacking those whose views they do not share has been at times personal and vituperative — no advertisement for a humane discipline. For some students this can distract the reader from matters of moment that such a critic might also be raising. Although such antagonisms are not peculiar to the study of Othello, that play seems to have attracted a disproportionate share of such abuse. It might be of interest to try to tease out in a general study of twentieth-century criticism what it is in this play that strikes such chilling responses by one critic to another.
Quantitation of acridinium esters using electrogenerated chemiluminescence and flow injection (1992)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTQuantitation of acridinium esters using electrogenerated chemiluminescence and flow injectionJanet S. Littig and Timothy A. NiemanCite this: Anal. Chem. 1992, 64, 10, 1140–1144Publication Date (Print):May 15, 1992Publication History Published online1 May 2002Published inissue 15 May 1992https://doi.org/10.1021/ac00034a012RIGHTS & PERMISSIONSArticle Views218Altmetric-Citations37LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (627 KB) Get e-Alertsclose Get e-Alerts
Timed power line data communication (2005)

With the ever increasing demand for data communication methods, power line communication has become an interesting alternative method for data communication. Power line communication falls into two categories: one for data transmission between sites in the power grid and the other for home or office networking. When considering home or office networking, existing methods are either too slow for tasks other than simple automation, or are very fast with a higher cost than necessary for the desired function. The objective in this work is to develop a lower cost communication system with an intermediate data transmission rate. At first glance, power line communication looks like a good option because of the availability of power outlets in every room of a building. However, the power conductors were installed solely for the purpose of distributing 60 Hz mains power and, for data signals, they exhibit very high attenuation, variable impedance and there is radio frequency shielding. Furthermore, many of the 60 Hz loads produce radio frequency interference that impedes data communication. Previous research has shown that much of the noise is time synchronous with the 60 Hz mains frequency and that the majority of data errors occur during these periods of high noise. This work develops a power line communication protocol that coordinates transmissions and uses only the predictable times of lower noise. Using a central control strategy, the power line 60 Hz mains signal is divided into 16 timeslots and each timeslot is monitored for errors. The central controller periodically polls all stations to learn which timeslots have low noise and it then controls all transmissions to make the best use of these good timeslots. The periodic polling allows the system to adapt to changes in electrical loading and noise. This control strategy has been achieved with modest complexity and laboratory measurements have shown throughput approaching 70% of the modem bit rate.
Application of superconductivity to medical diagnostics (1981)

This communication discusses a development in medical diagnostics, made possible by the application of a SQUID magnetic susceptometer to in vivo measurement of the iron stored in human tissue. Some new results are reported which indicate that a carefully designed susceptometer can provide the clinician with a useful non-invasive measure of excess iron in the human liver. Extension of this technique to other important iron storage problems is discussed.
AAD: Adaptive Anomaly Detection System for Cloud Computing Infrastructures (2012)

Cloud computing has become increasingly popular by obviating the need for users to own and maintain complex computing infrastructure. However, due to their inherent complexity and large scale, production cloud computing systems are prone to various runtime problems caused by hardware and software failures. Autonomic failure detection is a crucial technique for understanding emergent, cloudwide phenomena and self-managing cloud resources for system-level dependability assurance. To detect failures, we need to monitor the cloud execution and collect runtime performance data. These data are usually unlabeled, and thus a prior failure history is not always available in production clouds, especially for newly managed or deployed systems. In this paper, we present an Adaptive Anomaly Detection (AAD) framework for cloud dependability assurance. It employs data description using hypersphere for adaptive failure detection. Based on the cloud performance data, AAD detects possible failures, which are verified by the cloud operators. They are confirmed as either true failures with failure types or normal states. The algorithm adapts itself by recursively learning from these newly verified detection results to refine future detections. Meanwhile, it exploits the observed but undetected failure records reported by the cloud operators to identify new types of failures. We have implemented a prototype of the algorithm and conducted experiments in an on-campus cloud computing environment. Our experimental results show that AAD can achieve more efficient and accurate failure detection than other existing scheme.
Ferroelectric control of magnetism in<mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" display="inline"><mml:mrow><mml:mi mathvariant="normal">Ba</mml:mi><mml:mi mathvariant="normal">Ti</mml:mi><mml:msub><mml:mi mathvariant="normal">O</mml:mi><mml:mn>3</mml:mn></mml:msub><mml:mo>∕</mml:mo><mml:mi mathvariant="normal">Fe</mml:mi></mml:mrow></mml:math>heterostructures via interface strain coupling (2007)

Reversible control of magnetism is reported for a Fe thin film in proximity of a $\mathrm{Ba}\mathrm{Ti}{\mathrm{O}}_{3}$ single crystal. Large magnetization changes emerge in response to ferroelectric switching and structural transitions of $\mathrm{Ba}\mathrm{Ti}{\mathrm{O}}_{3}$ controlled by applied electric fields and temperature, respectively. Interface strain coupling is the primary mechanism altering the induced magnetic anisotropy. As a result, coercivity changes up to 120% occur between the various structural states of $\mathrm{Ba}\mathrm{Ti}{\mathrm{O}}_{3}$. Up to 20% coercivity change is achieved via electrical control at room temperature. Our all solid state ferroelectric-ferromagnetic heterostructures open viable possibilities for technological applications.
A Tetracycline-Repressible Transactivator System to Study Essential Genes in Malaria Parasites (2012)

A major obstacle in analyzing gene function in apicomplexan parasites is the absence of a practical regulatable expression system. Here, we identified functional transcriptional activation domains within Apicomplexan AP2 (ApiAP2) family transcription factors. These ApiAP2 transactivation domains were validated in blood-, liver-, and mosquito-stage parasites and used to create a robust conditional expression system for stage-specific, tetracycline-dependent gene regulation in Toxoplasma gondii, Plasmodium berghei, and Plasmodium falciparum. To demonstrate the utility of this system, we created conditional knockdowns of two essential P. berghei genes: profilin (PRF), a protein implicated in parasite invasion, and N-myristoyltransferase (NMT), which catalyzes protein acylation. Tetracycline-induced repression of PRF and NMT expression resulted in a dramatic reduction in parasite viability. This efficient regulatable system will allow for the functional characterization of essential proteins that are found in these important parasites.
Solvent Retention Capacity Values in Relation to Hard Winter Wheat and Flour Properties and Straight‐Dough Breadmaking Quality (2006)

ABSTRACT Solvent retention capacity (SRC) was investigated in assessing the end use quality of hard winter wheat (HWW). The four SRC values of 116 HWW flours were determined using 5% lactic acid, 50% sucrose, 5% sodium carbonate, and distilled water. The SRC values were greatly affected by wheat and flour protein contents, and showed significant linear correlations with 1,000‐kernel weight and single kernel weight, size, and hardness. The 5% lactic acid SRC value showed the highest correlation ( r = 0.83, P < 0.0001) with straight‐dough bread volume, followed by 50% sucrose, and least by distilled water. We found that the 5% lactic acid SRC value differentiated the quality of protein relating to loaf volume. When we selected a set of flours that had a narrow range of protein content of 12–13% ( n = 37) from the 116 flours, flour protein content was not significantly correlated with loaf volume. The 5% lactic acid SRC value, however, showed a significant correlation ( r = 0.84, P < 0.0001) with loaf volume. The 5% lactic acid SRC value was significantly correlated with SDS‐sedimentation volume ( r = 0.83, P < 0.0001). The SDS‐sedimentation test showed a similar capability to 5% lactic acid SRC, correlating significantly with loaf volume for flours with similar protein content ( r = 0.72, P < 0.0001). Prediction models for loaf volume were derived from a series of wheat and flour quality parameters. The inclusion of 5% lactic acid SRC values in the prediction model improved R 2 = 0.778 and root mean square error (RMSE) of 57.2 from R 2 = 0.609 and RMSE = 75.6, respectively, from the prediction model developed with the single kernel characterization system (SKCS) and near‐infrared reflectance (NIR) spectroscopy data. The prediction models were tested with three validation sets with different protein ranges and confirmed that the 5% lactic acid SRC test is valuable in predicting the loaf volume of bread from a HWW flour, especially for flours with similar protein contents.