gebhart/patrepeval huggingface dataset:
Flexible models with evolving structure (2003)

A flexible model in the form of an artificial neural network (NN) with evolving structure (eNN) is represented in the paper in the form of the evolving fuzzy Takagi-Sugeno model. It falls into the same category of models as the recently introduced evolving rule-based (eR) models. The learning algorithm is incremental, unsupervised and is based on the on-line identification of Takagi-Sugeno type quasilinear models. Both eR and eNN differ from the other model schemes by their gradually evolving structure as opposed to the fixed structure models, in which only parameters are subject to optimization or adaptation. Essentially, it represents a Takagi-Sugeno model with gradually evolving set of rules, determined on-line. This approach has potential in both modeling and control using indirect learning mechanisms. Its computational efficiency is based on the non-iterative and recursive procedure, which combines a Kalman filter with proper initializations, and online unsupervised clustering. eNN has been tested with data from a real air-conditioning installation. Applications to real-time adaptive non-linear control, fault detection and diagnostics, performance analysis, time-series forecasting, knowledge extraction and accumulation, etc. are possible directions of their use in the future research.
Intravenous calcium as a pressor in a swine model of hypoxic pseudo-pulseless electrical mechanical activity—a preliminary report (2020)

Administration of intravenous calcium may be associated with a pressor-like response in refractory hypotension after resuscitation from pseudo-PEA. Relative ionized hypocalcemia may cause hypotension after resuscitation from pseudo-PEA. Therapy with intravenous calcium should be further investigated in this setting.
X-ray photoelectron spectrum in surface interfacing of gold nanoparticles with polymer molecules in a hybrid nanocomposite structure (2009)

In situ Au3+--> reaction and dispersion of the resulting gold in the form of nanoparticles (NPs) in a reactive polymer medium, such as poly(vinyl alcohol) (PVA) molecules in hot water, are explored to devise a composite Au-PVA structure of self-standing films. The Au-NPs (0-2 wt%) tailor a violet to purple to a yellowish color of films from a colorless base polymer. A distinct surface interface (of thickness 2-5 nm) from the core (20-30 nm diameter) is resolved in transmission electron microscope images. The x-ray photoelectron spectrum (XPS) in the 81-91 eV range accounts for the effect which causes asymmetric shapes of the 4f(7/2) and 4f(5/2) Au bands. In a model structure, the asymmetry arises in the contribution of the surface Au atoms, which extend a chemical bridging with surface O atoms from the PVA molecules in a surface layer. A similar asymmetry also arises in C 1s and O 1s bands in the counterpart PVA molecules at 287.79 and 532.35 eV, respectively. At Au content as large as 2 wt%, no separate XPS band arises on a negligibly small fraction of surface Au atoms when Au-NPs have been grown in thin laminates (or cuboids and prisms).
Adhesion of Screen-Printed Silver Metallization to Crystalline Silicon Solar Cells (2016)

Adhesion strength between screen-printed silver busbar lines and the underlying crystalline silicon wafer in photovoltaic solar cells is critically important to the interconnection of cells during stringing operations in module production. Ninety-degree peel tests were carried out to characterize the adhesion of silver busbars to crystalline silicon solar cells. The mechanical properties of the silver busbar were estimated using nanoindentation techniques. These materials properties and the experimental peel test geometry were used to create a finite-element model of the peel test in the commercially available software ABAQUS, augmented by cohesive elements to model adhesion. Peel test simulations, calibrated and validated by experimental results, were used to study the role of different materials parameters, such as the yield stress and intrinsic adhesion strength of the silver metallization, in controlling macroscopically observed peel force. The simulation results indicate that ~90% of the measured energy needed to peel a busbar from the underlying silicon substrate in a standard solar cell consists of plastic dissipation in the various busbar and ribbon layers, with the largest contributor being plastic dissipation in the copper ribbon layer. The simulation results also show that the peel force increases monotonically with modeled work of adhesion, and that it is maximized for intermediate values of silver yield strength.
Structural basis for functional mimicry of long-variable-arm tRNA by transfer-messenger RNA (2007)

tmRNA and small protein B (SmpB) are essential trans-translation system components. In the present study, we determined the crystal structure of SmpB in complex with the entire tRNA domain of the tmRNA from Thermus thermophilus. Overall, the ribonucleoprotein complex (tRNP) mimics a long-variable-arm tRNA (class II tRNA) in the canonical L-shaped tertiary structure. The tmRNA terminus corresponds to the acceptor and T arms, or the upper part, of tRNA. On the other hand, the SmpB protein simulates the lower part, the anticodon and D stems, of tRNA. Intriguingly, several amino acid residues collaborate with tmRNA bases to reproduce the canonical tRNA core layers. The linker helix of tmRNA had been considered to correspond to the anticodon stem, but the complex structure unambiguously shows that it corresponds to the tRNA variable arm. The tmRNA linker helix, as well as the long variable arm of class II tRNA, may occupy the gap between the large and small ribosomal subunits. This suggested how the tRNA domain is connected to the mRNA domain entering the mRNA channel. A loop of SmpB in the tRNP is likely to participate in the interaction with alanyl-tRNA synthetase, which may be the mechanism for the promotion of tmRNA alanylation by the SmpB protein. Therefore, the tRNP may simulate a tRNA, both structurally and functionally, with respect to aminoacylation and ribosome entry.
Effect of Co‐Solvents on the Crystallization and Phase Distribution of Mixed‐Dimensional Perovskites (Adv. Energy Mater. 42/2021) (2021)

Quasi-2D Perovskites The interaction between the co-solvents and the perovskite precursors dictates which quasi-2D perovskite phases are formed during spin coating or thermal annealing. In the cover artwork representing article number 2102144 by René A. J. Janssen and co-workers, methylammonium iodide is depicted in a bubble while interacting with PbI2 and N-methyl-2-pyrrolidone, whereas butylammonium iodide is more available to react and to form a quasi-2D perovskite with n = 2.
Microgalvanic Current Mapping of Magnesium/Aluminum Galvanic Couple by Scanning Vibrating Electrode Technique (SVET) (2009)

Abstract Many magnesium alloys exhibit microgalvanic corrosion due to anodic and cathodic reactions that occur at discrete phases. We used the scanning vibrating electrode technique (SVET) to map the local corrosion current distribution profile of specially designed magnesium and aluminum galvanic couples. We studied the effect of anode (Mg) to cathode (Al) area ratio (A/C = 1:9, 3:7 and 1:1) and the effect of electrolyte concentration (sodium chloride solutions, 10, 30, and 280 mM). The galvanic current density is mapped for different immersion time intervals (t= 0 and 1 hour). The SVET response clearly showed that anodic and cathodic current densities on the magnesium and aluminum (Mg-Al) galvanic couple, respectively. The current density decreased with increasing anode to cathode surface area ratio, and at a given ratio, increased with increasing concentration of the sodium chloride solution. Our results showed that SVET can provide finite current/potential details of the microgalvanic activities within magnesium alloys, which are not possible with conventional electrochemical measurements, and it is an excellent measurement tool for understanding microgalvanic corrosion of magnesium alloys.
Index to Reviews, Symposia Volumes and Monographs in Organic Chemistry for the Period 1963-1964. (1967)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTIndex to Reviews, Symposia Volumes and Monographs in Organic Chemistry for the Period 1963-1964.David W. BoykinCite this: J. Med. Chem. 1967, 10, 5, 990Publication Date (Print):September 1, 1967Publication History Published online1 May 2002Published inissue 1 September 1967https://pubs.acs.org/doi/10.1021/jm00317a084https://doi.org/10.1021/jm00317a084research-articleACS PublicationsRequest reuse permissionsArticle Views29Altmetric-Citations1LEARN 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
Structures of Cancer Antigen Mesothelin and Its Complexes with Therapeutic Antibodies (2023)

The structures of full-length mesothelin and its complexes with antibodies reported here are the first to be determined experimentally, providing atomic models for structural organization of this protein and its interactions with antibodies. It offers insights into the function of mesothelin and guidance for further development of therapeutic antibodies.
Multistable and multistep dynamics in neutrophil differentiation (2006)

These findings indicate that differentiation of human HL60 cells into neutrophils does not result from a simple state transition of a bistable switch as traditionally modeled. Instead, mammalian differentiation appears to be a multi-step process in a high-dimensional system, a result which is consistent with the high connectivity of the cells' complex underlying gene regulatory network.
Dynamics of Inserts and Simple Attachments in DNA Polymers. (1991)

All life subsisting processes like RNA transcription, growth and reproduction are related to melting (separation of) the DNA helix. In this thesis we study the hydrogen bond stretch of the DNA polymers for various inserts and simple attachments. We find a dramatic change in the hydrogen bond stretch as a function of inserts, attachment position and the resonant frequency of the attachment. Our results depends on the input parameters of the force constants, amplitudes, resonant frequencies and long range interactions. Most of these parameters are extracted from experimental data. The resonant frequency of the enzymes are used as a free parameter to study their effect. The Green's function technique is used to study the dynamics of (TATA)$\sb2$ promoter inserts inside of DNA and the dynamics of simple enzyme-like attachments to DNA. The inserts show that there is a greater thermal hydrogen bond motion near these (TATA)$\sb2$ promoter boxes. The amount that the open base pair probability (i.e. thermal hydrogen bond stretch) changes is dependent on the base pair sequence outside the promoter insert. A rigid simple attachment destabilized the DNA helix by increasing the thermal hydrogen bond stretch. When the rigid attachment was allowed to extend over 70 base pairs the helix almost melted. The simple attachments were given resonant frequencies and the effects of such frequencies on the stability of the DNA was probed. Some frequencies destabilized the helix near the attachment sites and showed effects associated with enzyme enhancers. Some frequencies stabilized the helix near the attachment and behaved like enzyme repressors. Finally the attachments were allowed to bond to the Watson-Crick hydrogen atoms. The hydrogen bonds force constants for the Watson-Crick hydrogen bond atoms were therefore lowered. This produced a state of destabilization that increased as the Watson-Crick hydrogen bond force constant decreased. These effects were also resonant frequency dependent.
Auto-BI: Automatically Build BI-Models Leveraging Local Join Prediction and Global Schema Graph (2023)

Business Intelligence (BI) is crucial in modern enterprises and billion-dollar business. Traditionally, technical experts like database administrators would manually prepare BI-models (e.g., in star or snowflake schemas) that join tables in data warehouses, before less-technical business users can run analytics using end-user dashboarding tools. However, the popularity of self-service BI (e.g., Tableau and Power-BI) in recent years creates a strong demand for less technical end-users to build BI-models themselves. We develop an Auto-BI system that can accurately predict BI models given a set of input tables, using a principled graph-based optimization problem we propose called \textit{k-Min-Cost-Arborescence} (k-MCA), which holistically considers both local join prediction and global schema-graph structures, leveraging a graph-theoretical structure called \textit{arborescence}. While we prove k-MCA is intractable and inapproximate in general, we develop novel algorithms that can solve k-MCA optimally, which is shown to be efficient in practice with sub-second latency and can scale to the largest BI-models we encounter (with close to 100 tables). Auto-BI is rigorously evaluated on a unique dataset with over 100K real BI models we harvested, as well as on 4 popular TPC benchmarks. It is shown to be both efficient and accurate, achieving over 0.9 F1-score on both real and synthetic benchmarks.
Plasminogen Activator Inhibitor 2: Regulation of Gene Transcription during Phorbol Ester-Mediated Differentiation of U-937 Human Histiocytic Lymphoma Cells (1987)

We have isolated and sequenced two cDNA clones coding for plasminogen activator inhibitor 2 (PAI-2). The cDNA was used to study the regulation of PAI-2 gene transcription by the tumor-promoting phorbol ester phorbol 12-myristate 13-acetate in the human histiocytic lymphoma cell line U-937. The tumor promoter caused a transient, 50-fold increase of PAI-2 gene transcription.
Robust and Risk-Sensitive Output Feedback Control for Finite State Machines and Hidden Markov Models (1994)

The purpose of this paper is to develop a framework for designing controllers for #nite state systems which are robust with respect to uncertainties. A deterministic model for uncertainties is introduced, leading to a dynamic game formulation of the robust control problem. This problem is solved using an appropriate information state. A risk-sensitive stochastic control problem is formulated and solved for Hidden Markov Models, corresponding to situations where the model for the uncertainties is stochastic. The two problems are related using small noise limits. Key words: Robust control, output feedback dynamic games, #nite state machines, output feedback risk-sensitive stochastic optimal control, hidden Markov models. AMS#MOS# subject classi#cations #1991#: 93B36, 93C41, 49K35, 93E20. 1 Introduction A #nite state machine #FSM# is a discrete#time system de#ned by the model 8 # # # : x k+1 = f#x k ;u k #; y k+1 = g#x k #; k =0; 1;:::;M; #1.1# # Martin Marietta Chair in Systems Engine...
ChemInform Abstract: Synthetic Studies on the A83586C and Bryostatin Antitumor Macrolides and the Monamycin Antibiotics (2001)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
A modeling study of acoustic propagation through moving shallow-water solitary wave packets (1999)

Propagation of 400-Hz sound through continental-shelf internal solitary wave packets is shown by numerical simulation to be strongly influenced by coupling of normal modes. Coupling in a packet is controlled by the mode coefficients at the point where sound enters the packet, the dimensions of the waves and packet, and the ambient depth structures of temperature and salinity. In the case of a moving packet, changes of phases of the incident modes with respect to each other dominate over the other factors, altering the coupling over time and thus inducing signal fluctuations. The phasing within a moving packet varies with time scales of minutes, causing coupling and signal fluctuations with comparable time scales. The directionality of energy flux between high-order acoustic modes and (less attenuated) low-order modes determines a gain factor for long-range propagation. A significant finding is that energy flux toward low-order modes through the effect of a packet near a source favoring high-order modes will give net amplification at distant ranges. Conversely, a packet far from a source sends energy into otherwise quiet higher modes. The intermittency of the coupling and of high-mode attenuation via bottom interaction means that signal energy fluctuations and modal diversity fluctuations at a distant receiver are complementary, with energy fluctuations suggesting a source-region packet and mode fluctuations suggesting a receiver-region packet. Simulations entailing 33-km propagation are used in the analyses, imitating the SWARM experiment geometry, allowing comparison with observations.
Seabed property estimation from ambient-noise recordings: Part I — Compliance and Scholte wave phase-velocity measurements (2007)

Abstract The ability to derive a near-surface shear-velocity profile from ambient-noise records is useful for seismic applications such as shear-wave statics estimation and geohazard prediction. Measurements of seafloor compliance and Scholte wave velocity and amplitude are all related to the near-surface shear-velocity profile. I analyzed a data set of 33minutes of continuous noise records recorded by an ocean bottom cable deployed in 273-m deep water for seafloor compliance and Scholte waves. I failed to observe seafloor compliance because of limitations in the record length. I have detected Scholte waves on the inline and vertical component geophones and Love waves on the crossline component using f-k spectra. Both the Scholte and Love wave phase-velocities can be explained by a simple 1D isotropic near-surface model. The Scholte waves may have been excited by acoustic energy from the recording vessel, while no satisfactory excitation mechanism has been found for the Love waves.
Species-Specific and Inhibitor-Dependent Conformations of LpxC: Implications for Antibiotic Design (2020)

LpxC is an essential enzyme in the lipid A biosynthetic pathway in Gram-negative bacteria. Several promising antimicrobial lead compounds targeting LpxC have been reported, though they typically display a large variation in potency against different Gram-negative pathogens. We report that inhibitors with a diacetylene scaffold effectively overcome the resistance caused by sequence variation in the LpxC substrate-binding passage. Compound binding is captured in complex with representative LpxC orthologs, and structural analysis reveals large conformational differences that mostly reflect inherent molecular features of distinct LpxC orthologs, whereas ligand-induced structural adaptations occur at a smaller scale. These observations highlight the need for a molecular understanding of inherent structural features and conformational plasticity of LpxC enzymes for optimizing LpxC inhibitors as broad-spectrum antibiotics against Gram-negative infections.
Challenges in single-polarization fibers (Invited Paper) (2005)

We have demonstrated high power, linearly polarized output from an all-fiber laser using an integrated polarizing fiber. In this paper, we will detail the design, fabrication and operation of the single polarization fiber as well as the fiber laser experiments.
Abstract IA25: Targeting tumor neoantigens to drive effective tumor immunity (2019)

Abstract With the recent availability of novel immunologic agents, priority has shifted to understanding the mechanisms of and predicting responses to each treatment. At the heart of cancer and host immune cell interactions is the tumor antigen and host antigen-specific T cell interaction, with the cytotoxic T cell-cognate antigen interaction forming the mechanistic basis for immune-mediated recognition and the killing of malignant cells. While the search for immunogenic tumor antigens has been the subject of decades-long studies, multiple lines of evidence have convincingly demonstrated tumor neoantigens as an important class of immunogenic tumor antigens. Neoantigens arise from amino acid changes encoded by somatic mutations in the tumor cell and have the potential to bind to and be presented by personal HLA molecules. Using next-generation sequencing approaches, we can now systematically identify mutations leading to amino acid changes that can be potentially recognized immunologically through the implementation of neoantigen discovery pipelines. In recent studies, we have demonstrated that neoantigens can be safely and feasibly targeted to generate customized cancer vaccines. We have been undertaking pilot clinical trials to develop personal cancer vaccines in melanoma and glioblastoma that utilize synthetic long peptides as delivery approach for this therapy. Recent results and new directions will be discussed. Citation Format: Catherine J. Wu. Targeting tumor neoantigens to drive effective tumor immunity [abstract]. In: Proceedings of the Fourth CRI-CIMT-EATI-AACR International Cancer Immunotherapy Conference: Translating Science into Survival; Sept 30-Oct 3, 2018; New York, NY. Philadelphia (PA): AACR; Cancer Immunol Res 2019;7(2 Suppl):Abstract nr IA25.
Circadian Changes in Subfoveal Choroidal Thickness and the Relationship with Circulatory Factors in Healthy Subjects (2012)

We investigated the circadian change of choroidal thickness using high-penetration optical coherence tomography in healthy volunteers. The significant diurnal change was found and the choroid was thicker at night and thinner in daytime. Fluctuations in the choroidal thickness may be related to SBP.
Purification of Arachidonic acid from Mortierella single‐cell oil by selective esterification with Burkholderia cepacia lipase (2005)

Abstract Purification of arachidonic acid (AA) from Mortierella alpina single‐cell oil was attempted. The process comprised three steps: (i) preparation of FFA by nonselective hydrolysis of the oil with Alcaligenes sp. lipase; (ii) elimination of long‐chain saturated FA from the resulting FFA by urea adduct fractionation; and (iii) enrichment of AA through lipase‐catalyzed selective esterification with lauryl alcohol (LauOH). In the third step, screening of industrially available lipases indicated that Burkholderia cepacia lipase (Lipase‐PS, Amano Enzyme Inc., Aichi, Japan) acted on AA more weakly than on other FA and was the most effective for enrichment of AA in the FFA fraction. When the FFA obtained by urea adduct fractionation were esterified with 2 molar equivalents of LauOH at 30°C for 16 h in a mixture with 20% water and 20 units (U)/g‐mixture of Lipase‐PS, the esterification reached 39% and the content of AA in the FFA fraction was raised from 61 to 86 wt%. To further increase the content of AA, unesterified FFA were allowed to react again under the same conditions as those in the first selective esterification except for the use of 50 U/g Lipase‐PS. A series of procedures raised the content of AA to 97 wt% with a 49% recovery based on the initial content in the single‐cell oil. These results indicated that the three‐step process for selective esterification with Lipase‐PS was effective for purifying AA from the single‐cell oil.