gebhart/patrepeval huggingface dataset:
Effects of Vinca Alkaloids on Calmodulin-Dependent Ca2+-Transport ATPase (1981)

SummaryThe Vinca alkaloids vinblastine, vindesine and vincristine were found to be inhibitors of the calmodulin-dependent fraction of red blood cell Ca2+-transport ATPase with IC50-values of 35, 100 and 220 μM, respectively. However, in the concentration range of 1–10 uM all three substances inhibit 10–15 % of the calmodulin-dependent ATPase activity. The concentration of vinblastine for 50 % inhibition of the calmodulin-dependent fraction of the Ca2+transport into inside-out vesicles is very similar to that found for the Ca2+-ATPase. It was shown that the inhibitory potency of vinblastine can be reduced by increasing calmodulin concentrations, suggesting a competitive mechanism. With respect to other ATPases the action of vinblastine on Ca2+-transport ATPase seems to be specific since Mg2+-ATPase and (Na+ + K+)-ATPase are hardly affected up to 300 μM.
A Study on Information Security Management with Personal Data Protection (2011)

In the process of standardization, whether the announcement of a standard represents a cause or an outcome, it is opportunity of the trend of standardization or achievement. The process of standardization is to understand "why" and "how" to explore the detailed outline of a time flow. From a long-term perspective, a standard is the milestone of the standardization process. On May 26th 2010, with the announcement of the Personal Data Protection Act in Taiwan, information security management (ISM) of the Personal Data Protection Act has received much attention from the public. This study is centered on the working items of standards announced by the International Organization for Standardization (ISO) and the ongoing information security management system (ISMS) standards and standardization in order to propose standards which comply with the ISMS of the Personal Data Protection Act and methods which increase implementation control measures.
Interface usage measurements in a user interface management system (1988)

User Interface Management Systems have provided support for most user interface design personnel with the exception of dialogue evaluators. Potential support that a UIMS can provide to evaluators of user interfaces generated by the UIMS are discussed. Metrics for measuring interactive behavior have been implemented as part of a User Interface Management System. It is shown how the external control and separate dialogue description features of UIMSs make possible such measurements. These metrics are automatically mapped back to the responsible portions of the dialogue description. Reports are generated which aid interface evaluators in locating specific problems in a user interface design.
Telomerase mRNA-Transfected Dendritic Cells Stimulate Antigen-Specific CD8+ and CD4+ T Cell Responses in Patients with Metastatic Prostate Cancer (2005)

Telomerase reverse transcriptase (hTERT) represents an attractive target for cancer immunotherapy because hTERT is reactivated in most human tumors. A clinical trial was initiated in which hTERT mRNA-transfected dendritic cells (DC) were administered to 20 patients with metastatic prostate cancer. Nine of these subjects received DC transfected with mRNA encoding a chimeric lysosome-associated membrane protein-1 (LAMP) hTERT protein, allowing for concomitant induction of hTERT-specific CD8+ and CD4+ T cell responses. Treatment was well tolerated. Intense infiltrates of hTERT-specific T cells were noted at intradermal injection sites after repeated vaccination. In 19 of 20 subjects, expansion of hTERT-specific CD8+ T cells was measured in the peripheral blood of study subjects, with 0.9-1.8% of CD8+ T cells exhibiting Ag specificity. Patients immunized with the chimeric LAMP hTERT vaccine developed significantly higher frequencies of hTERT-specific CD4+ T cells than subjects receiving DC transfected with the unmodified hTERT template. Moreover, CTL-mediated killing of hTERT targets was enhanced in the LAMP hTERT group, suggesting that an improved CD4+ response could augment a CTL response. Vaccination was further associated with a reduction of prostate-specific Ag velocity and molecular clearance of circulating micrometastases. Our findings provide a rationale for further development of hTERT-transfected DC vaccines in the treatment of prostate and other cancers.
Data-Driven Prediction and Design of bZIP Coiled-Coil Interactions (2015)

Selective dimerization of the basic-region leucine-zipper (bZIP) transcription factors presents a vivid example of how a high degree of interaction specificity can be achieved within a family of structurally similar proteins. The coiled-coil motif that mediates homo- or hetero-dimerization of the bZIP proteins has been intensively studied, and a variety of methods have been proposed to predict these interactions from sequence data. In this work, we used a large quantitative set of 4,549 bZIP coiled-coil interactions to develop a predictive model that exploits knowledge of structurally conserved residue-residue interactions in the coiled-coil motif. Our model, which expresses interaction energies as a sum of interpretable residue-pair and triplet terms, achieves a correlation with experimental binding free energies of R = 0.68 and significantly out-performs other scoring functions. To use our model in protein design applications, we devised a strategy in which synthetic peptides are built by assembling 7-residue native-protein heptad modules into new combinations. An integer linear program was used to find the optimal combination of heptads to bind selectively to a target human bZIP coiled coil, but not to target paralogs. Using this approach, we designed peptides to interact with the bZIP domains from human JUN, XBP1, ATF4 and ATF5. Testing more than 132 candidate protein complexes using a fluorescence resonance energy transfer assay confirmed the formation of tight and selective heterodimers between the designed peptides and their targets. This approach can be used to make inhibitors of native proteins, or to develop novel peptides for applications in synthetic biology or nanotechnology.
Carotid bifurcation atherosclerosis. Quantitative correlation of plaque localization with flow velocity profiles and wall shear stress. (1983)

The distribution of nonstenosing, asymptomatic intimal plaques in 12 adult human carotid bifurcations obtained at autopsy was compared with the distribution of flow streamline patterns, flow velocity profiles, and shear stresses in corresponding scale models. The postmortem specimens were fixed while distended to restore normal in vivo length, diameter, and configuration. Angiograms were used to measure branch angles and diameters, and transverse histological sections were studied at five standard sampling levels. Intimal thickness was determined at 15 degrees intervals around the circumference of the vessel sections from contour tracings of images projected onto a digitizing plate. In the models, laser-Doppler anemometry was used to determine flow velocity profiles and shear stresses at levels corresponding to the standard specimen sampling sites under conditions of steady flow at Reynolds numbers of 400, 800, and 1200, and flow patterns were visualized by hydrogen bubble and dye-washout techniques. Intimal thickening was greatest and consistently eccentric in the carotid sinus. With the center of the flow divider as the 0 degree index point, mid-sinus sections showed minimum intimal thickness (0.05 +/- 0.02 mm) within 15 degrees of the index point, while maximum thickness (0.9 +/- 0.1 mm) occurred at 161 +/- 16 degrees, i.e., on the outer wall opposite the flow divider. Where the intima was thinnest, along the inner wall, flow streamlines in the model remain axially aligned and unidirectional, with velocity maxima shifted toward the flow divider apex. Wall shear stress along the inner wall ranged from 31 to 600 dynes/cm2 depending on the Reynolds number. Where the intima was thickest, along the outer wall opposite the flow divider apex, the pattern of flow was complex and included a region of separation and reversal of axial flow as well as the development of counter-rotating helical trajectories. Wall shear stress along the outer wall ranged from 0 to -6 dynes/cm2. Intimal thickening at the common carotid and distal internal carotid levels of section was minimal and was distributed uniformly about the circumference. We conclude that in the human carotid bifurcation, regions of moderate to high shear stress, where flow remains unidirectional and axially aligned, are relatively spared of intimal thickening. Intimal thickening and atherosclerosis develop largely in regions of relatively low wall shear stress, flow separation, and departure from axially aligned, unidirectional flow. Similar quantitative evaluations of other atherosclerosis-prone locations and corresponding flow profile studies in geometrically accurate models may reveal which of these hemodynamic conditions are most consistently associated with the development of intimal disease.
Application of blind method to phase-shifting lithography (1992)

A blind mask and a simplified-blind (S-blind) mask proposed for phase shifting lithography are discussed. They both have very simple structures. Both the blind and S-blind methods are very effective in solving the bridging problem in single-layer-shifter phase-shifting lithography. These phase-shifting methods are suitable for 0.3- mu m lithography for the manufacture of 64-Mb DRAMs.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Synthesis and Preclinical Evaluation of a Highly Improved Anticancer Prodrug Activated by Histone Deacetylases and Cathepsin L (2016)

Lack of absolute selectivity against cancer cells is a major limitation for current cancer therapies. In the previous study, we developed a prodrug strategy for selective cancer therapy using a masked cytotoxic agent puromycin [Boc-Lys(Ac)-Puromycin], which can be sequentially activated by histone deacetylases (HDACs) and cathepsin L (CTSL) to kill cancer cells expressing high levels of both enzymes. Despite the promise as a selective cancer therapy, its requirement of relatively high dosage could be a potential issue in the clinical setting. To address this issue, we aimed to further improve the overall efficacy of our prodrug strategy. Since the proteolytic cleavage by CTSL is the rate-limiting step for the drug activation, we sought to improve the substrate structure for CTSL activity by modifying the α-amino protecting group of lysine. Here we show that protection with Fmoc [Fmoc-Lys(Ac)-Puromycin] exhibits a marked improvement in overall anticancer efficacy compared to the original Boc-Lys(Ac)-Puromycin and this is mainly due to the highly efficient cellular uptake besides its improved substrate structure. Furthermore, to address a concern that the improved drug efficacy might direct high toxicity to the normal cells, we confirmed that Fmoc-Lys(Ac)-Puromycin still retains excellent cancer selectivity in vitro and no obvious systemic off-target toxicity in vivo. Thus our preclinical evaluation data presented here demonstrate that the Fmoc-Lys(Ac)-Puromycin exhibits substantially improved anticancer efficacy, further supporting our approach for the selective cancer therapy.
Risk of Cardiovascular Events Associated With Selective COX-2 Inhibitors (2001)

Atherosclerosis is a process with inflammatory features and selective cyclooxygenase 2 (COX-2) inhibitors may potentially have antiatherogenic effects by virtue of inhibiting inflammation. However, by decreasing vasodilatory and antiaggregatory prostacyclin production, COX-2 antagonists may lead to increased prothrombotic activity. To define the cardiovascular effects of COX-2 inhibitors when used for arthritis and musculoskeletal pain in patients without coronary artery disease, we performed a MEDLINE search to identify all English-language articles on use of COX-2 inhibitors published between 1998 and February 2001. We also reviewed relevant submissions to the US Food and Drug Administration by pharmaceutical companies. Our search yielded 2 major randomized trials, the Vioxx Gastrointestinal Outcomes Research Study (VIGOR; 8076 patients) and the Celecoxib Long-term Arthritis Safety Study (CLASS; 8059 patients), as well as 2 smaller trials with approximately 1000 patients each. The results from VIGOR showed that the relative risk of developing a confirmed adjudicated thrombotic cardiovascular event (myocardial infarction, unstable angina, cardiac thrombus, resuscitated cardiac arrest, sudden or unexplained death, ischemic stroke, and transient ischemic attacks) with rofecoxib treatment compared with naproxen was 2.38 (95% confidence interval, 1.39-4.00; P =.002). There was no significant difference in cardiovascular event (myocardial infarction, stroke, and death) rates between celecoxib and nonsteroidal anti-inflammatory agents in CLASS. The annualized myocardial infarction rates for COX-2 inhibitors in both VIGOR and CLASS were significantly higher than that in the placebo group of a recent meta-analysis of 23 407 patients in primary prevention trials (0.52%): 0.74% with rofecoxib (P =.04 compared with the placebo group of the meta-analysis) and 0.80% with celecoxib (P =.02 compared with the placebo group of the meta-analysis). The available data raise a cautionary flag about the risk of cardiovascular events with COX-2 inhibitors. Further prospective trial evaluation may characterize and determine the magnitude of the risk.
Clinical Applications of Circulating Tumor Cells in Lung Cancer Patients by CellSearch System (2014)

Circulating tumor cells (CTCs) are cells spread from the primary tumor into the bloodstream that might represent an important biomarker in lung cancer. The prognosis of patients diagnosed with lung cancer is generally poor mainly due to late diagnosis. Recent evidences have reported that tumor aggressiveness is associated with the presence of CTCs in the blood stream; therefore, several studies have focused their attention on CTC isolation, characterization, and clinical significance. So far, the CellSearch(®) system is the only approach approved by FDA for metastatic breast, prostate, and colorectal cancer intended to detect CTCs of epithelial origin in whole blood and to assess prognosis. To date, no specific biomarkers have been validated in lung cancer and the identification of novel tumor markers such as CTCs might highly contribute to lung cancer prognosis and management. In the present review, the significance of CTC detection in lung cancer is examined through the analysis of the published studies in both non-small cell and small cell lung cancers; additionally the prognostic and the clinical role of CTC enumeration in treatment monitoring will be reported and discussed.
Comprehensive identification of arginine methylation in primary T cells reveals regulatory roles in cell signalling (2015)

The impact of protein arginine methylation on the regulation of immune functions is virtually unknown. Here, we apply a novel method—isomethionine methyl-SILAC—coupled with antibody-mediated arginine-methylated peptide enrichment to identify methylated peptides in human T cells by mass spectrometry. This approach allowed the identification of 2,502 arginine methylation sites from 1,257 tissue-specific and housekeeping proteins. We find that components of T cell antigen receptor signal machinery and several key transcription factors that regulate T cell fate determination are methylated on arginine. Moreover, we demonstrate changes in arginine methylation stoichiometry during cellular stimulation in a subset of proteins critical to T cell differentiation. Our data suggest that protein arginine methyltransferases exert key regulatory roles in T cell activation and differentiation, opening a new field of investigation in T cell biology.
Generation and Characterization of Rat Monoclonal Antibodies Against Human Serum Amyloid A (1997)

Monoclonal antibodies against human serum amyloid A (SAA) were generated in rat (which seems not to have mature SAA proteins) by immunizing intact human SAA. Thirteen clones selected by initial screening were analysed based on reactivity with synthetic peptides of SAA and with carboxyl-terminal truncated recombinant SAA. Antibodies were divided into four types, i.e. those recognizing the area around residue 18, 30, 90, and 100, respectively, of SAA. The antibody to the carboxyl terminus (around residue 100) of SAA, when subjected to immunohistochemistry for amyloid deposits in specimens from patients with reactive amyloidosis, always yielded negative reactivity, supporting the general concept that the carboxyl terminus of SAA is absent from human AA deposits.
Impact of Matching Network on Bandwidth of Compact Antenna Arrays (2006)

We analyze the impact of the matching network on compact multiple-input multiple-output systems. Existing studies have found that the matching network has a significant influence on the performance of multiple antenna systems when the antennas are in close proximity. However, none has examined the wide-band case. In this paper, we investigate the wide-band performance of four different matching networks for multiple dipole antennas. The performance of the matching networks is given in terms of the bandwidths of correlation and matching efficiency, which are extensions of the single-antenna concept of bandwidth to multiple antenna systems. We also investigate the impact of the propagation conditions on the matching and bandwidth. For a uniform two-dimensional (2-D) angular power spectrum, we find that while individual-port matching can achieve in excess of 3% fractional correlation bandwidth for envelope correlation of 0.5 at an antenna separation of 0.01lambda, multiport matching is required for efficiency bandwidth to exist for a return loss of -6 dB. Moreover, even with multiport matching, both correlation and efficiency bandwidths decrease drastically at small antenna separations. At 0.01lambda, the correlation and efficiency bandwidths are 0.4% and 0.2%, respectively. Similar evaluations were performed for measured outdoor-to-indoor channels with moderate to small 2-D angular spreads. We find that the efficiency advantage of multiport matching over individual-port matching diminishes with decreasing angular spread
Clusters of Asphaltene Nanoaggregates Observed in Oilfield Reservoirs (2012)

Many studies have indicated that asphaltenes have two hierarchical nanocolloidal species, the nanoaggregate and the cluster of nanoaggregates. These two species, along with the dominant molecular architecture of asphaltenes comprise the Yen–Mullins model of asphaltenes. Delineating different nanocolloidal species is a challenge, and moreover, elucidating their corresponding practical importance is a necessity in this applied science. Moreover, it is necessary to continue testing this asphaltene nanoscience model especially for crude oils, as opposed to simply asphaltene solutions in laboratory solvents. Both the validity and applicability of this model are addressed by observing gravitational gradients of asphaltenes in black oil and mobile heavy oil columns in oilfield reservoirs. In this paper, we examine stacked oil reservoirs in an oilfield in Saudi Arabia using simple predictions from the Flory–Huggins–Zuo equation of state (FHZ EoS), with its foundation in the Yen–Mullins model. The extraordinary finding is that, for two mobile heavy oil columns in this oilfield, the asphaltene clusters alone account for very large asphaltene concentration gradients of a factor of 6 over a circumference of many tens of kilometers of the oil field. In certain local sections of the field, the predictions match exactly. Saturates, aromatics, resins, and asphaltenes (SARA) analyses of the crude oils are consistent with the simple model employed. The large gravitation gradients produced by asphaltene clusters dwarf corresponding predictions for nanoaggregates, confirming the existence and size of clusters per the Yen–Mullins model. Moreover, these results confirm the utility of reservoir analysis through application of the FHZ EoS. In addition, several wells were analyzed that penetrated the tar mat at the base of the oil column. Analysis of this tar mat is again consistent with the gravitation accumulation of asphaltenes and reinforces the FHZ EoS analysis of the oil column.
Illumination with solid state lighting technology (2002)

High-power light-emitting diodes (LEDs) have begun to differentiate themselves from their more common cousins the indicator LED. Today these LEDs are designed to generate 10-100 lm per LED with efficiencies that surpass incandescent and halogen bulbs. After a summary of the motivation for the development of the high-power LED and a look at the future markets, we describe the current state of high-power LED technology and the challenges that lay ahead for development of a true "solid state lamp." We demonstrate record performance and reliability for high-power colored and white LEDs and show results from the worlds first 100-plus lumen white LED lamp, the solid state equivalent of Thomas Edison's 20-W incandescent lightbulb approximately one century later.
Convergent Functional Genomics of Oligodendrocyte Differentiation Identifies Multiple Autoinhibitory Signaling Circuits (2009)

Inadequate remyelination of brain white matter lesions has been associated with a failure of oligodendrocyte precursors to differentiate into mature, myelin-producing cells. In order to better understand which genes play a critical role in oligodendrocyte differentiation, we performed time-dependent, genome-wide gene expression studies of mouse Oli-neu cells as they differentiate into process-forming and myelin basic protein-producing cells, following treatment with three different agents. Our data indicate that different inducers activate distinct pathways that ultimately converge into the completely differentiated state, where regulated gene sets overlap maximally. In order to also gain insight into the functional role of genes that are regulated in this process, we silenced 88 of these genes using small interfering RNA and identified multiple repressors of spontaneous differentiation of Oli-neu, most of which were confirmed in rat primary oligodendrocyte precursors cells. Among these repressors were CNP, a well-known myelin constituent, and three phosphatases, each known to negatively control mitogen-activated protein kinase cascades. We show that a novel inhibitor for one of the identified genes, dual-specificity phosphatase DUSP10/MKP5, was also capable of inducing oligodendrocyte differentiation in primary oligodendrocyte precursors. Oligodendrocytic differentiation feedback loops may therefore yield pharmacological targets to treat disease related to dysfunctional myelin deposition.
An Atypical Variant of Fabry's Disease in Men with Left Ventricular Hypertrophy (1995)

Seven unrelated patients with atypical variants of hemizygous Fabry's disease were found among 230 men with left ventricular hypertrophy (3 percent). Fabry's disease should be considered as a cause of unexplained left ventricular hypertrophy.
Coupled superconducting flux qubits (2007)

This thesis presents results of theoretical and experimental work on superconducting persistent-current quantum bits. These qubits offer an attractive route towards scalable solid-state quantum computing. The focus of this work is on the gradiometer flux qubit which has a special geometric design, that both provides a stable phase bias and improved immunity to global flux noise, and which enables the implementation of qubit registers. The realization of the simplest quantum register consisting for two such qubits, allowed for the experimental execution of the complete set of four controlled-NOT quantum gates.