gebhart/patrepeval huggingface dataset:
Cyclic Adenosine Monophosphate Receptor: Loss of cAMP-Dependent DNA Binding Activity after Proteolysis in the Presence of Cyclic Adenosine Monophosphate (1973)

The cAMP receptor requires cAMP for DNA binding at pH 8.0 but shows cAMP-independent DNA binding at pH 6.0. Incubation of the cAMP receptor with proteolytic enzymes in the presence of cAMP results in loss of DNA-binding ability at pH 8, while it is still able to bind cAMP and DNA at pH 6. Incubation with proteolytic enzyme in the absence of cAMP does not affect the DNA-binding properties of the cAMP receptor. After proteolysis in the presence of cAMP, analysis by sodium dodecyl sulfateacrylamide-gel electrophoresis shows that the 22,500-dalton subunit characteristic of the untreated protein has been completely replaced by a 12,500-dalton fragment.
Performance analysis of subspace based methods (plane wave direction of arrival estimation) (2003)

The authors analyze the performance of two subspace based methods, ESPRIT, and the Toeplitz Approximation Method (TAM), for estimating the direction of arrival (DOA) of plane waves in white noise. In the case of a linear equispaced sensor array, it is shown that ESPRIT, like TAM, can be treated via a state space formulation leading to interesting insights. The state transition matrix estimated by ESPRIT is shown to be related to that obtained by TAM by a diagonal similarity transformation. The performance of these methods is also analyzed. In particular, asymptotic results for the mean squared error in the estimates of the direction of arrival are derived for each of the above mentioned methods. Simple closed form expressions for the one source case are derived, and compared with the corresponding expressions for the Minimum-Norm method and MUSIC. Computer simulations are provided to substantiate the analysis.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Real-Time Manufacturing Machine and System Performance Monitoring Using Internet of Things (2018)

This paper introduces a framework to assess the performance of manufacturing systems using hybrid simulation in real time. Continuous and discrete variables of different machines are monitored to analyze performance using a virtual environment running synchronous to plant floor equipment as a reference. Data are extracted from machines using industrial Internet of Things solutions. Productivity and reliability of a physical system are compared in real time with data from a hybrid simulation. The simulation uses discrete-event systems to estimate performance metrics at a system level, and continuous dynamics at a machine level to monitor input and output variables. Simulation outputs are used as a reference to detect abnormal conditions based on deviations of real outputs in different stages of the process. This monitoring method is implemented in a fully automated manufacturing system testbed with robots and CNC machines. Machines are integrated on an Ethernet/IP control network using a programmable logic controller to coordinate actions and transfer data. Results demonstrated the capacity to perform real-time monitoring and capture performance errors within confidence intervals. Note to Practitioners-Estimating expected performance of a manufacturing system processing different parts across multiple machines is a complex problem due to the lack of closed-form equations. Existing solutions focus on monitoring stochastic variables such as production or failure rate, or machine dynamics in separate environments often running asynchronous to the real system. This paper addresses the problem of monitoring and assessing the performance of complex manufacturing systems in real time. The proposed framework uses a real-time hybrid simulation of manufacturing at a machine and system level. The hybrid approach is based on a discrete and continuous model of manufacturing equipment integrated to run synchronously with the real plant floor operation. Data from both the virtual and real environments are merged to assess performance. Deviations from expected values represent an error that can trigger a warning signal to production, maintenance, and/or manufacturing personnel at the plant regarding health and productivity of plant operations.
Quantum-state distributions for the HD product of the direct reaction of H(D)/Cu(111) with D(H) incident from the gas phase (1996)

We have determined the internal-state distribution for the HD product of the reaction of gas-phase D atoms with H atoms chemisorbed on Cu(111) and for the corresponding reaction of H atoms with chemisorbed D atoms. In the case of D-on-H, the populations of the vibrational states v=0, 1, 2, and 3 are comparable, while that for v=4 is considerably smaller, giving a mean vibrational energy of ∼0.7 eV. The vibrational state distribution for H-on-D is similar, but in this case there is a clear peak at v=1, even less population in v=4, and a somewhat smaller mean vibrational energy of ∼0.6 eV. The mean rotational energy falls with increasing v in both cases, ∼0.5 eV for v=0 to &amp;lt;0.2 eV for v=4, with an overall mean rotational energy of ∼0.4 eV. The rotational distributions are distinctly narrower for H-on-D than for D-on-H. The maximum internal energy observed is ∼2.3 eV, consistent with the total energy available to the product. Results are consistent with recent calculations.
Pros and cons of causative association between periodontitis and rheumatoid arthritis (2022)

Research in recent decades has brought significant advancements in understanding of the molecular basis of the etiology of autoimmune diseases, including rheumatoid arthritis, a common systemic disease in which an inappropriate or inadequate immune response to environmental challenges leads to joint destruction. Recent studies have indicated that the classical viewpoint of the immunological processes underpinning the pathobiology of rheumatoid arthritis is restricted and needs to be expanded to include a more holistic and interdisciplinary approach incorporating bacteria-induced inflammatory reactions as an important pathway in rheumatoid arthritis etiology. Here, we discuss in detail data showing the clinical and molecular association of rheumatoid arthritis development with periodontal diseases. We also describe the unique role of periopathogens, which have been proposed to be crucial in the initiation and progression of this autoimmune pathological disorder.
A Dual Haptic Interface Investigation for Improved Human-Computer Interaction (2002)

Abstract : This study involved designing haptic interfaces with the assistance of genetic algorithms. Five subjects were initially run in a pilot study and from these preliminary data, a model was developed to predict the response of all subjects to 65,536 possible experimental conditions. A multiobjective performance function was developed and the genetic algorithm methodology was utilized to search for the optimum experimental design conditions through a MATLAB/SIMULINK simulation. In a post hoc study, seven subjects were then evaluated with the optimum condition as well as alternative conditions over the range of the possible independent variables of interest. The subjects demonstrated that both their performance and situational awareness measures were significantly improved at the optimum design condition in the post hoc study as compared to the pilot study. The overall effort emphasized the concept of experimental design parsimony. What this means is that a few experimental conditions are initially run with a few subjects and that a computer model then generalizes the pilot data to predict the results in a more general setting. The post-hoc study then validates the initial assumptions and modeling incorporated in this effort.
Optimal Resampling of OFDM Signals for Multiscale–Multilag Underwater Acoustic Channels (2011)

Underwater acoustic channels (UACs) have a large fractional bandwidth and are well modeled by a multiscale–multilag model, which is a generalization of the commonly employed single time-scale model. The path-dependent time scaling introduces significant channel variation, destroying carrier orthogonality and yielding intercarrier interference (ICI) in an orthogonal frequency division multiplexing (OFDM) system. Typical front-end processing at the receiver for a channel with common time scaling on every path involves resampling the received signal to compensate for this scaling. This work examines the choice of resampling parameter for the multiscale scenario. Bounds are derived for the performance and hard and soft data detection schemes using the Hammersley–Chapman–Robbins bound (HCRB) and the Cramér–Rao bound (CRB), respectively, which when optimized yield the optimal resampling parameter. It is shown that resampling is equivalent to matched filtering the incoming signal with an approximated channel having a common time scale on each path. A second criterion for optimizing the resampling parameter then minimizes the aggregate error between the multiscale channel and its single-scale approximation. Analysis of special cases suggests that the optimal resampling parameter is close to the time-scaling parameter of the dominant path. The scenarios under which using the time-scaling factor on the dominant path for resampling are suboptimal are also investigated. Blind and pilot-aided estimators for the optimal resampling parameter, which are a generalization of the estimators for the common time-scale model, are derived building on the channel approximation model for resampling. Numerical simulations show the advantages of the derived estimators over a classical packet-length-based time-scale estimator.
Perioperative Serum Levels of CXCL9 and CD44 Predict the Risk of Acute Cellular Rejection in Liver Graft Recipients. (2014)

Purpose: The aim of this study was to investigate the predictive value of CXCL9 and CD44 serum protein levels for the risk of acute cellular rejection (ACR) in liver graft recipients. Methods: After ethical approval and informed consent, serum samples were collected from 94 consecutive adult patients (mean age: 55 ± 10 years; 69 male; 25 female) undergoing liver transplantation in a prospective clinical single-center study. The patients were grouped according to detection of ACR in the first 6 months following transplantation. ACR was diagnosed by histological analysis of biopsy specimen taken during episodes of biochemical graft dysfunction. CXCL9 and CD44 protein levels were analyzed using commercially available ELISA kits. Statistical analysis (student's t-test, Receiver operator characteristic (ROC) curve analysis, and Kaplan-Meyer analysis) was performed using GraphPad prism. Results: Patients in the ACR showed significantly higher levels of CXCL9 and significantly lower levels of CD44 in pre-transplant and first postoperative day serum samples compared to patients without ACR. Areas under the ROC curves were 0.71 and 0.77 for CXCL9 and CD44 at the first postoperative day. CXCL9 and CD44 could differentiate with 60% or 88% sensitivity and 79% or 61% specificity between both groups, respectively. High CXCL9 combined with low CD44 levels were associated with the highest risk of ACR during the first 6 months following liver transplantation in Kaplan-Meyer analysis (p < 0.0001 compared to high CXCL9 or low CD44, or none of the conditions fulfilled). Conclusions: Our data indicate that CXCL9 and CD44 may be useful for perioperative stratification of the risk of ACR in liver graft recipients. However, further studies are necessary to define the therapeutic value of these biomarkers.
Correlation between glass transition temperature and chain structure for randomly crosslinked high polymers (1996)

The empirical form for the dependence, Tg(n) ≅ Tg(∞)·(1 + α/n), of the glass transition temperature Tg on the average number n of repeat units between crosslinks, is generalized for randomly crosslinked high polymers. The new form, Tg(n) ≅ Tg(∞) · [1 + c/(n·Nrot)], is based on a correlation study of data for 77 samples of 10 different sets of resins. The fitting parameter α is resolved into composition-dependent Nrot and composition-independent c terms. Nrot summarizes the average number of rotational degrees of freedom per repeat unit, and is estimated in a straightforward manner from the structure and mol fraction of each repeat unit. The value of c is found from data analysis to be 5 ± 2. The results of this work are consistent with expectations based on the entropy theory of glasses, and provide improved understanding and predictive ability for the properties of crosslinked polymers. © 1996 John Wiley & Sons, Inc.
S-band optical amplification employing silica-based phosphorous/alumina-codoped EDF (2004)

Employing silica-based P/Al-codoped EDF, the gain enhancement of 9 dB compared to Al-codoped EDF has been achieved over the wavelength range from 1491 to 1502 nm in the four-stage configuration EDFA pumped with the power of 400 mW.
Faculty Opinions recommendation of Regulation of gene expression in the mammalian eye and its relevance to eye disease. (2006)

We used expression quantitative trait locus mapping in the laboratory rat (Rattus norvegicus) to gain a broad perspective of gene regulation in the mammalian eye and to identify genetic variation relevant to human eye disease. Of >31,000 gene probes represented on an Affymetrix expression microarray, 18,976 exhibited sufficient signal for reliable analysis and at least 2-fold variation in expression among 120 F(2) rats generated from an SR/JrHsd x SHRSP intercross. Genome-wide linkage analysis with 399 genetic markers revealed significant linkage with at least one marker for 1,300 probes (alpha = 0.001; estimated empirical false discovery rate = 2%). Both contiguous and noncontiguous loci were found to be important in regulating mammalian eye gene expression. We investigated one locus of each type in greater detail and identified putative transcription-altering variations in both cases. We found an inserted cREL binding sequence in the 5' flanking sequence of the Abca4 gene associated with an increased expression level of that gene, and we found a mutation of the gene encoding thyroid hormone receptor beta2 associated with a decreased expression level of the gene encoding short-wavelength sensitive opsin (Opn1sw). In addition to these positional studies, we performed a pairwise analysis of gene expression to identify genes that are regulated in a coordinated manner and used this approach to validate two previously undescribed genes involved in the human disease Bardet-Biedl syndrome. These data and analytical approaches can be used to facilitate the discovery of additional genes and regulatory elements involved in human eye disease. PMID: 16983098
A tumor-suppressive role for trypsin in human cancer progression. (2003)

Trypsin is a serine protease family member with a potential role in cancer invasion. We investigated trypsinogen expression at the RNA level in 49 esophageal squamous cell carcinomas (ESCCs) and 72 gastric adenocarcinomas. Almost all primary ESCC tissues (95%) showed reduced expression, and 9 of 13 ESCC cell lines were silenced for trypsinogen expression. Absent expression correlated with promoter hypermethylation of trypsinogen-4 by bisulfite DNA sequence. Moreover, we detected promoter hypermethylation in 50% of primary ESCCs by methylation-specific PCR. A subset of gastric adenocarcinomas (71%) also showed reduced trypsinogen accompanied by reduction in PAR2, a G protein activated by trypsin, and a propensity to penetrate beyond the gastric wall (P = 0.001). Our results support the notion that trypsin plays a tumor-suppressive role in human carcinoma.
Poly[(μ3-hydrogenphosphato)(4H-1,2,4-triazole-κN1)zinc] (2012)

The asymmetric unit of the title compound, [Zn(HPO(4))(C(2)H(3)N(3))](n), contains one Zn(2+) cation, one (HPO(4))(2-) anion and a 1,2,4 triazole ligand. The Zn(2+) cation is coordinated in a quite regular tetra-hedral geometry by O atoms from three phosphate groups and a tertiary N atom from the triazole ring. Each phosphate anion is connected to three Zn(II) cations, leading to a series of corrugated organic-inorganic layers parallel to the ac plane. The overall structure involves stacking of complex hybrid organic-inorganic layers along the b axis. Cohesion in the crystal is ensured by an infinite three-dimensional network of N-H⋯O and O-H⋯O hydrogen bonds between the phosphate groups and the triazole ligands.
De novo generation of short antimicrobial peptides with enhanced stability and cell specificity (2013)

&lt;sec&gt;&lt;st&gt;Objectives&lt;/st&gt; Though antimicrobial peptides (AMPs) show great potential as novel antibiotics, therapeutic applications are hindered by their low stability, toxicity and high manufacturing cost. Various chemical modification strategies are employed to overcome these problems. However, chemical modifications often significantly increase the manufacturing cost of AMPs with only limited pharmacokinetic advantages. Therefore, we developed AMPs with enhanced stability and cell specificity that can be economically produced. &lt;/sec&gt;&lt;sec&gt;&lt;st&gt;Methods&lt;/st&gt; Peptides were designed by systematic amino acid arrangement without the incorporation of both non-natural amino acids and peptidomimetics. Antimicrobial activities were measured against Gram-positive bacteria, Gram-negative bacteria and fungi by MIC evaluation under both standard and physiologically relevant conditions. Cytotoxicity towards human cells was evaluated to verify selective antimicrobial activity. The antibacterial mechanism of the peptides was elucidated by β-galactosidase assay and scanning electron microscopy. &lt;/sec&gt;&lt;sec&gt;&lt;st&gt;Results&lt;/st&gt; Among the designed peptides, GNU6 and GNU7 showed potent antimicrobial activity against bacteria and fungi and maintained their activity in the presence of 150 mM NaCl and 10% serum. These peptides were not digested by exposure to trypsin, chymotrypsin and aureolysin for up to 12 h and showed potent antimicrobial activity against methicillin-resistant &lt;it&gt;Staphylococcus aureus&lt;/it&gt; and vancomycin-resistant enterococci. Moreover, they did not affect the viability of erythrocytes, keratinocytes and fibroblasts up to 128 mg/L. A membrane permeabilization assay and scanning electron microscopy analysis showed that GNU6 and GNU7 compromised membrane integrity and function in microorganisms. &lt;/sec&gt;&lt;sec&gt;&lt;st&gt;Conclusions&lt;/st&gt; This study suggests that GNU6 and GNU7 might overcome serious problems that currently prevent the clinical use of AMPs and be developed as novel antimicrobial agents. &lt;/sec&gt;
ChemInform Abstract: LASER‐INDUCED CHEMILUMINESCENCE‐ VARIATION OF REACTION RATES WITH REAGENT APPROACH GEOMETRY (1978)

Abstract Es wird eine neue Methode zur Erzeugung ausgerichteter Reaktionspartner durch optisches Pumpen beschrieben und auf die Austauschreaktion Aangewendet.
Targeting the Bcl-2 family for cancer therapy (2012)

Strategies to specifically identify and inhibit critical determinants that promote therapy resistance and tumor progression represent viable approaches for developing effective cancer therapies. From a clinical perspective, pretreatment with novel, potent Bcl-2 inhibitors either alone or in combination with conventional therapies hold significant promise for providing beneficial clinical outcomes. Identifying SMIs with broader and higher affinities for inhibiting all of the Bcl-2 pro-survival proteins will facilitate development of superior cancer therapies.
Free-radical carboxylation of peptide- and protein-bound glycine to form peptide- and protein-bound aminomalonic acid (Ama) (1989)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTFree-radical carboxylation of peptide- and protein-bound glycine to form peptide- and protein-bound aminomalonic acid (Ama)Pat Wheelan, Wolff M. Kirsch, and Tad H. KochCite this: J. Org. Chem. 1989, 54, 18, 4360–4364Publication Date (Print):September 1, 1989Publication History Published online1 May 2002Published inissue 1 September 1989https://pubs.acs.org/doi/10.1021/jo00279a025https://doi.org/10.1021/jo00279a025research-articleACS PublicationsRequest reuse permissionsArticle Views289Altmetric-Citations8LEARN 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 InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Characterization of cellular chemical dynamics using combined microfluidic and Raman techniques (2007)

The integration of a range of technologies including microfluidics, surface-enhanced Raman scattering and confocal microspectroscopy has been successfully used to characterize in situ single living CHO (Chinese hamster ovary) cells with a high degree of spatial (in three dimensions) and temporal (1 s per spectrum) resolution. Following the introduction of a continuous flow of ionomycin, the real time spectral response from the cell was monitored during the agonist-evoked Ca(2+) flux process. The methodology described has the potential to be used for the study of the cellular dynamics of a range of signalling processes.
Extended OLED operational lifetime through phosphorescent dopant profile management (2023)

This disclosure relates, at least in part, an organic light emitting device, which in some embodiments comprises an anode; a cathode; a first emissive layer disposed between the anode and the cathode, the first emissive layer comprising an electron transporting compound and a phosphorescent emissive dopant compound; and wherein the phosphorescent emissive dopant compound has a concentration gradient, in the emissive layer, which varies from the cathode side of the first emissive layer to the anode side of the emissive layer.
Induced pluripotent stem cells (iPSCs) and neurological disease modeling: progress and promises (2011)

The systematic generation of neurons from patients with neurological disorders can provide important insights into disease pathology, progression and mechanism. This review will discuss recent progress in modeling neurodegenerative and neurodevelopmental diseases using induced pluripotent stem cells (iPSCs) and highlight some of the current challenges in the field. Combined with other technologies previously used to study brain disease, iPSC modeling has the promise to influence modern medicine on several fronts: early diagnosis, drug development and effective treatment.