gebhart/patrepeval huggingface dataset:
Novel Sulfonanilide Analogs Decrease Aromatase Activity in Breast Cancer Cells: Synthesis, Biological Evaluation, and Ligand-Based Pharmacophore Identification (2008)

Aromatase converts androgens to estrogens and is a particularly attractive target in the treatment of estrogen receptor positive breast cancer. Previously, the COX-2 selective inhibitor nimesulide and analogs decreased aromatase expression and enzyme activity independent of COX-2 inhibition. In this manuscript, a combinatorial approach was used to generate diversely substituted novel sulfonanilides by parallel synthesis. Their pharmacological evaluation as agents for suppression of aromatase activity in SK-BR-3 breast cancer cells was extensively explored. A ligand-based pharmacophore model was elaborated for selective aromatase modulation (SAM) using the Catalyst HipHop algorithms. The best qualitative model consisted of four features: one aromatic ring, two hydrogen bond acceptors, and one hydrophobic function. Several lead compounds have also been tested in aromatase transfected MCF-7 cells, and they significantly suppressed cellular aromatase activity. The results suggest that both genomic and nongenomic mechanisms of these compounds are involved within the aromatase suppression effect.
Current Status of Tests for Periodontal Disease (1993)

The methods applied to the diagnosis of periodontal disease are changing. Historically, static clinical and radiographic parameters have formed the basis of the periodontal evaluation. As the limitations of these traditional procedures became clear, several new techniques have been proposed as diagnostic tests for periodontal disease. These tests are based on improved understanding of the pathogenesis of periodontal disease, and can be considered in three categories: assessment of physical changes in the periodontium, the bacterial infection, and the host response to the infection. Several technical questions must be addressed before these tests can be widely utilized. These specific concerns include such matters as the information available from the tests (e.g., Does the test provide a measure of disease severity or identify the site, region, or patient experiencing active disease?), the most appropriate test configurations, the statistical analysis of data from trials examining the accuracy of the tests, and selection of patients who would benefit from these procedures. Last, several important practical issues must be examined before these tests can be expected to gain widespread acceptance. These include familiarization of dental practitioners with the use of diagnostic tests and the medical laboratory, the role of regulatory agencies in determining the claims made by these tests, and the medical/dental insurance benefits provided for these services.
Hot Spot Cooling and Harvesting Central Processing Unit Waste Heat Using Thermoelectric Modules (2015)

The increasing integration of high performance processors and dense circuits in current computing devices has produced high heat flux in localized areas (hot spots), which limits their performance and reliability. To control the hot spots on a central processing unit (CPU), many researchers have focused on active cooling methods such as thermoelectric coolers (TECs) to avoid thermal emergencies. This paper presents optimized thermoelectric modules on top of the CPU combined with a conventional air-cooling device to reduce the core temperature and at the same time harvest waste heat energy generated by the CPU. To control the temperature of the cores, we attach small-sized TECs to the CPU and use thermoelectric generators (TEGs) placed on the rest of the CPU to convert waste heat energy into electricity. This study investigates design alternatives with an analytical model considering the nonuniform temperature distribution based on two-node thermal networks. The results indicate that we are able to attain more energy from the TEGs than energy consumption for running the TECs. In other words, we can allow the harvested heat energy to be reused to power other components and reduce cores temperature simultaneously. Overall, the idea of simultaneous core cooling and waste heat harvesting using thermoelectric modules on a CPU is a promising method to control the problem of heat generation and to reduce energy consumption in a computing device.
Ion-Exchange in Glass-Ceramics (2016)

In the past few years ion-exchange in glasses has found a renewed interest with a lot of new development and research in industrial and academic labs and the commercialization of materials with outstanding mechanical properties. These glasses are now widely used in many electronic devices including hand-held displays and tablets. The exchange is generally conducted in a bath of molten salt below the transition temperature of the glass. The exchange at the surface of an alkali ion by a bigger one brings compressive stress at the surface. The mechanical properties are dependent on the stress level at the surface and the depth of penetration of the bigger ion. As compared to glasses, glass-ceramics have the interest to display a wide range of aspects (transparent to opaque) and different mechanical properties (especially higher modulus and toughness). There has been little research on ion-exchange in glass-ceramics. In these materials the mechanisms are much more complex than in glasses because of their polyphasic nature: ion-exchange generally takes place mostly in one phase (crystalline phase or residual glass). The mechanism can be similar to what is observed in glasses with the replacement of an ion by another in the structure. But in some cases this ion-exchange leads to microstructural modifications (for example amorphisation or phase change). This article reviews these ion-exchange mechanisms using several transparent and opaque alumino-silicate glass-ceramics as examples. The effect of the ion exchange in the various glass-ceramics will be described, with particular emphasis on flexural strength.
NS2: networked searchable store with correctness (2007)

In an outsourced data framework, we introduce and demonstrate mechanisms for securely storing a set of data items (documents) on an un-trusted server, while allowing for subsequent conjunctive keyword searches for matching documents. The protocols provide full computational privacy, query correctness assurances and no leaks: the server either correctly executes client queries or (if it behaves maliciously) is immediately detected. The client is then provided with strong assurances proving the authenticity and completeness of results. This is different from existing secure keyword search research efforts where a cooperating, non-malicious server behavior is assumed. Additionally, not only does the oblivious search protocol conceal the outsourced data (from the un-trusted server) but it also does not leak client access patterns, the queries themselves, the association between different queries or between newly added documents and their corresponding keywords (not even in encrypted form). These assurances come at the expense of additional computation costs which we analyze in the context of today's hardware.
Intracellular pH Sensors Based on Surface-Enhanced Raman Scattering (2004)

We present the development of nanoscale pH sensors based on functionalized silver nanoparticles and surface-enhanced Raman scattering (SERS). The SERS spectrum from individual silver nanoparticle (50-80 nm in diameter) clusters functionalized with 4-mercaptobenzoic acid shows a characteristic response to the pH of the surrounding solution and is sensitive to pH changes in the range of 6-8. Measurements from nanoparticles incorporated in living Chinese hamster ovary cells demonstrate that the nanoparticle sensors retain their robust signal and sensitivity to pH when incorporated into a cell.
Automatic identification of lung abnormalities in chest spiral CT scans (2003)

Our aim is to develop a fully automatic computer-assisted diagnosis (CAD) system for lung cancer screening using chest spiral CT scans. A screening program on 1000 subjects aims at quantification of the effectiveness of low dose spiral CT scans for early diagnosis of lung cancer, and evaluation of its possible impact on improving the mortality rate of cancer patients. The paper presents an image analysis system for 3D reconstruction of the lungs and trachea, detection of lung abnormalities, identification/classification of these abnormalities with respect to specific diagnosis, and distributed visualization of the results over computer networks. We present two novel approaches for segmentation of the lung tissues from the surrounding structures in the chest cavity, and detection of abnormalities in the lungs. The segmentation algorithm is hierarchical, first isolating the background from the chest cavity, then isolating the lungs from surrounding structures (e.g., ribs, liver, and other organs). Abnormalities in the lungs are detected by analyzing the segmented lung tissues and extracting the isolated lumps that appear in various connected regions. 3D reconstructions are also generated for these abnormalities, to be used for subsequent identification/classification steps. Results on 50 subjects are shown, and have been evaluated against radiologists. Our image analysis approach has provided comparable results with respect to the experts. The approach is quite fast, and lends itself to distributed visualization over computer networks.
Locomotion Induced by Spinal Cord Stimulation in the Neonate Rat In Vitro (1991)

The present studies employed the neonate rat brain stem-spinal cord preparation to determine whether electrical stimulation of the lumbosacral enlargement (LE) of the spinal cord itself can be used to elicit locomotion, and whether or not such stimulation persists in inducing locomotion following midthoracic spinal cord transection or hindlimb deafferentation. Results suggest that (1) stimulation of the dorsal columns or ventral funiculus of the LE is effective in inducing airstepping in the neonatal rat brain stem-spinal cord limb-attached preparation; (2) central disconnection by midthoracic spinal cord transection does not alter LE-stimulation-induced airstepping and may lead to an increase in stepping frequency if suprathreshold stimulation is used; and (3) dorsal root section also leads to an increase in the frequency of suprathreshold LE-stimulation-induced locomotion, but there is not further increase in frequency if a spinal cord transection is performed in addition to dorsal rhizotomy.
GRACE: building next generation event correlation services (2002)

Event correlation is a widely accepted technology for managing the complexity of modern telecommunication and data networks. This paper outlines the directions for future advancement of the technology and practice of event correlation systems. It shows that event correlation solutions are an integral part of the next generation of network management systems, which will be based on distributed service (component) architecture. We present this architecture, and discuss the importance of the unification of data and knowledge presentation formalisms, and the use of advanced technologies such as CORBA, Java, and XML. Finally, we demonstrate how these technological solutions have been implemented in the distributed event correlation system called GRACE /spl lambda/obal Real-Time Advanced Correlation Environment.
Dual roles of modulatory calcineurin-interacting protein 1 in cardiac hypertrophy (2003)

The calcium/calmodulin-dependent protein phosphatase calcineurin stimulates cardiac hypertrophy in response to numerous stimuli. Calcineurin activity is suppressed by association with modulatory calcineurin-interacting protein (MCIP)1DSCR1, which is up-regulated by calcineurin signaling and has been proposed to function in a negative feedback loop to modulate calcineurin activity. To investigate the involvement of MCIP1 in cardiac hypertrophy in vivo, we generated MCIP1 null mice and subjected them to a variety of stress stimuli that induce cardiac hypertrophy. In the absence of stress, MCIP1(-/-) animals exhibited no overt phenotype. However, the lack of MCIP1 exacerbated the hypertrophic response to activated calcineurin expressed from a muscle-specific transgene, consistent with a role of MCIP1 as a negative regulator of calcineurin signaling. Paradoxically, however, cardiac hypertrophy in response to pressure overload or chronic adrenergic stimulation was blunted in MCIP1(-/-) mice. These findings suggest that MCIP1 can facilitate or suppress cardiac calcineurin signaling depending on the nature of the hypertrophic stimulus. These opposing roles of MCIP have important implications for therapeutic strategies to regulate cardiac hypertrophy through modulation of calcineurin-MCIP activity.
Novel n-3 Immunoresolvents: Structures and Actions (2013)

Resolution of inflammation is now held to be an active process where autacoids promote homeostasis. Using functional-metabololipidomics and in vivo systems, herein we report that endogenous n-3 docosapentaenoic (DPA) acid is converted during inflammation-resolution in mice and by human leukocytes to novel n-3 products congenerous to D-series resolvins (Rv), protectins (PD) and maresins (MaR), termed specialized pro-resolving mediators (SPM). The new n-3 DPA structures include 7,8,17-trihydroxy-9,11,13,15E,19Z-docosapentaenoic acid (RvD1(n-3 DPA)), 7,14-dihydroxy-8,10,12,16Z,19Z-docosapentaenoic acid (MaR1(n-3 DPA)) and related bioactive products. Each n-3 DPA-SPM displayed protective actions from second organ injury and reduced systemic inflammation in ischemia-reperfusion. The n-3 DPA-SPM, including RvD1(n-3 DPA) and MaR1(n-3 DPA), each exerted potent leukocyte directed actions in vivo. With human leukocytes each n-3 DPA-SPM reduced neutrophil chemotaxis, adhesion and enhanced macrophage phagocytosis. Together, these findings demonstrate that n-3 DPA is converted to novel immunoresolvents with actions comparable to resolvins and are likely produced in humans when n-3 DPA is elevated.
A quantitative measure for preventive maintenance in software (2012)

Several techniques have been developed to identify and fix defects in software before its deployment. However, the challenge is to quantify how well these techniques prevent defects from occurring in the field from a holistic perspective. Therefore, we propose a novel software quality metric called "The Preventability Metric" that measures the preventability of defects in software. The metric is derived from a composite quantitative evaluation of the efficiency and effectiveness of the individual preventive techniques employed on software before its deployment. It provides a confidence on how well prevention of defects is handled before deployment.
Field current signature analysis for fault detection in synchronous motors (2015)

Often encountered driving critical applications, synchronous machines (SM) require reliable condition monitoring systems. In this paper, the advantages of using the field winding current of a synchronous motor as an early indicator of machine faults are demonstrated. Analysis is carried out, both through simulation, via the use of finite element methods (FEM), and through experimentation, using a specially-designed synchronous machine which allows various fault conditions to be investigated such as eccentricities and short-circuits. It is established from the comparison of the spectra, between healthy and faulty field current data, that the field winding current is well suited for fault detection as well as discrimination among the common faults in SMs. Further, it is shown that field winding current is quite sensitive to any problem of the stator, permitting the detection of stator short-circuits at a very early stage. Thus, it is concluded that an improved condition monitoring and protection system for SMs may be achieved if the field current is effectively monitored.
Local cellular immune response plays a key role in protecting chickens against hepatitis-hydropericardium syndrome (HHS) by vaccination with a recombinant fowl adenovirus (FAdV) chimeric fiber protein (2022)

Fowl adenovirus (FAdV)-induced diseases hepatitis-hydropericardium syndrome (HHS) and inclusion body hepatitis (IBH) have been affecting the poultry industry with increasing severity in the last two decades. Recently, a subunit vaccine based on a chimeric fiber protein with epitopes from different fowl adenovirus serotypes (named crecFib-4/11) has been shown to confer simultaneous protection against both HHS and IBH. However, the underlying immune mechanisms in chickens are still enigmatic, especially because of frequently absent neutralizing response despite high levels of protection. In this study, we investigated the kinetics of the humoral and cellular immune responses in specific pathogen-free chickens after vaccination with crecFib-4/11 and/or challenge with a HHS-causing strain, on a systemic level, as well as locally in target and lymphoid organs. The humoral response was assessed via enzyme-linked immunosorbent assay (ELISA) and virus neutralization test in serum, while the cellular immune response was determined by phenotyping using flow cytometry. Although vaccination induced serum antibodies, as confirmed by ELISA, such antibodies exhibited no pre-challenge neutralizing activity against FAdV-4. Nevertheless, immunized birds experienced a significant B cell increase in the liver upon challenge, remaining high throughout the experiment. Furthermore, vaccination stimulated the proliferation of cytotoxic T lymphocytes, with earlier circulation in the blood compared to the challenge control and subsequent increase in liver and spleen. Overall, these findings imply that protection of chickens from HHS after crecFib-4/11 vaccination relies on a prominent local immune response in the target organs, instead of circulating neutralizing antibodies.
Radiomic features derived from pre-operative multi-parametric MRI of prostate cancer are associated with Decipher risk score (2019)

Decipher, a genomic test, is used to predict the likelihood of metastasis and prostate cancer (PCa) specific mortality based on expression patterns of 22 RNA markers from radical prostatectomy (RP) specimens. It has been shown to be strongly correlated with metastasis-free prognosis and has been integrated with the National Comprehensive Cancer Network (NCCN) guidelines. However, Decipher is expensive and tissue destructive. Radiomic features refer to the high-throughput computational texture or shape features extracted from radiographic scans. Radiomic features derived from multi-parametric magnetic resonance imaging (mpMRI) of prostate cancer have been shown to be associated with clinically significant PCa. In this study, we sought to evaluate whether radiomic features derived from T2-weighted MRI (T2WI) and apparent diffusion coefficient (ADC) maps of the prostate could distinguish different Decipher risk groups (low, intermediate and high). We also explored correlations between Decipher risk associated radiomic features and features relating to gland morphology on corresponding digitized surgical specimens. A retrospectively acquired, de-identified cohort of 70 PCa patients (N = 74 lesions) who underwent 3T mpMRI prior to RP and Decipher tests after RP were used in this study. The Decipher risk score, ranging from 0 to 1, was used to categorize patients into low/intermediate (<i>D</i><sub>1</sub>) and high (<i>D</i><sub>2</sub>) risk groups. A multivariate logistic regression model was trained (N = 37 lesions) using radiomic features selected via elastic-net regularization to predict the Decipher risk groups. The model was evaluated on a hold-out test set (N = 37 lesions) and resulted in an area under the receiver operating characteristic curve (AUC) = 0:80. Our model outperformed the prediction using PIRADS v2 (AUC = 0:67), but showed comparable performance with Gleason Grade Group (GGG) (AUC = 0:80). We observed that the best discriminating radiomic features were correlated with gland morphology and gland packing on corresponding histopathology (R = 0.43, p < 0.05).
Combinatorial Library of Lipidoids for In Vitro DNA Delivery (2011)

A combinatorial library of lipidoids was constructed and studied for in vitro gene delivery. The library of lipidoids was synthesized by reacting commercially available amines with lipophilic acrylates, acrylamides, or epoxides. Lipidoids derived from amine 86 (N,N-bis(2-hydroxyethyl)ethylene diamine) and amine 87 (N-(3-aminopropyl)diethaneamine) showed high efficiency in DNA delivery, some with a higher transfection efficiency than Lipofectamine 2000, a commonly used commercial gold standard for in vitro gene delivery. The structure-activity relationship between the lipidoids was further studied with respect to small variations in chemical structures and the resulting efficiency in DNA delivery in vitro. Since these lipidoids are easy to synthesize and do not require a colipid for efficient DNA delivery, they could offer an inexpensive but effective alternative to other commonly used commercial gene delivery carriers.
<i>NDR1</i> , a Pathogen-Induced Component Required for <i>Arabidopsis</i> Disease Resistance (1997)

Plant disease resistance (R) genes confer an ability to resist infection by pathogens expressing specific corresponding avirulence genes. In Arabidopsis thaliana, resistance to both bacterial and fungal pathogens, mediated by several R gene products, requires the NDR1 gene. Positional cloning was used to isolate NDR1, which encodes a 660-base pair open reading frame. The predicted 219-amino acid sequence suggests that NDR1 may be associated with a membrane. NDR1 expression is induced in response to pathogen challenge and may function to integrate various pathogen recognition signals.
Syntheses and biological activities of 13-substituted avermectin aglycons (1989)

The reactions of sulfonate esters of the allylic/homoallylic 13-alcohol of 5-O-(tert-butyldimethylsilyl)-22,23-dihydroavermectin B1a aglycon (1a) were investigated. Nucleophilic substitution gave 13 beta-chloro and 13 beta-iodo derivatives, while solvolytic reaction conditions yielded 13 alpha-methoxy, 13 alpha-fluoro, and 13 alpha-chloro products. A mixture of 13 alpha- and 13 beta-fluorides was obtained upon reaction with DAST. The 13 beta-iodide gave, upon elimination with lutidine, the 8(9),10(11),12(13),14(15)-tetraene. The 13 beta-alcohol and the rearranged 15-ol 13(14)-ene and 15-amino 13(14)-ene derivatives were obtained by substitution via the allylic carbonium ion. MEM ethers 11 and 12 of the two epimeric 13-ols were prepared by alkylation with MEM chloride. In contrast, methylation of 1a with MeI and Ag2O in CH2Cl2 occurred exclusively at the tertiary 7-hydroxy group and not at the secondary 13 alpha-ol. Oxidation of the allylic alcohol 1a proceeded under Swern conditions but not with MnO2 to the 13-oxo aglycon, which was reduced by NaBH4 exclusively to the natural 13 alpha-ol, while reductive amination with NaCNBH3-NH4OAc gave the 13 alpha-amine. The methoxime derivative was obtained in the form of the two geometric isomers. Anthelmintic activities against the sheep nematode Trichostrongylus colubriformis, miticidal activities against the two-spotted spider mite (Tetranychus urticae), and insecticidal activities against the southern armyworm (Spodoptera eridania) as well as the binding constants to a free living nematode (Caenorhabditis elegans) derived receptor assay were obtained and compared to avermectin B1a, 22,23-dihydroavermectin B1a, and the 13-deoxy-22,23-dihydroavermectin B1 aglycon related to the milbemycins. None of the newly prepared derivatives exceeded the potency of the three reference compounds. Lipophilic 13-substituents such as halogen, alkoxy, and methoxime retained high biological activities in all assays, while the more polar substituents hydroxy and amino had weaker activities. Rearranged 15-substituted 13(14)-ene derivatives were completely inactive. The 13-oxo and the 12,13-dehydro analogues were only weakly active in vivo despite having good binding affinity to the receptor, possibly due to instability or poor absorption.