gebhart/patrepeval huggingface dataset:
Layered Double Hydroxides as Anion- and Cation-Exchanging Materials (2007)

Layered double hydroxides (LDH) have been principally known as anion-exchanging, clay-like materials for several decades, and continues to be the main driving force for current and future research. The chemical interactions of LDH, with transition metallocyanides, have been a popular topic of investigation for many years, partly due to the use of powder x-ray diffraction and infrared spectroscopy as the main characterization tools. Each transition metallocyanide has a characteristic infrared stretching frequency that can be easily observed, and their respective sizes can be observed while intercalated within the interlayer of the LDH. The ability of LDH to incorporate metal cations or any ions/molecules/complexes, that have a postive charge, have not been previously investigated, mainly due to the chemical and physical nature of LDH. The possibility of cationic incorporation with LDH would most likely occur by surface adsorption, lattice metal replacement, or by intercalation into the LDH interlayers. Although infrared spectroscopy finds it main use through the identification of the anions incorporated with LDH, it can also be used to study and identify the various active and inactive bending and stretching modes that the metal hydroxide layers have.
Force-Displacement Model of the FlexSuRe™ Spinal Implant (2010)

This paper presents modeling of a novel compliant spinal implant designed to reduce back pain and restore function to degenerate spinal disc tissues as well as provide a mechanical environment conducive to healing of the tissues. Modeling was done through the use of the pseudo-rigid-body model. The pseudo-rigid-body model is a 3 DOF mechanism for flexion-extension (forward-backward bending) and a 5 DOF mechanism for lateral bending (side-to-side). These models were analyzed using the principle of virtual work to obtain the force-deflection response of the device. The model showed good correlation to finite element analysis and experimental results. The implant may be particularly useful in the early phases of implant design and when designing for particular biological parameters.
Formation Mechanism and Reduction Technology of Mining-Induced Fissures in Shallow Thick Coal Seam Mining (2017)

Surface mining-induced fissures formed in shallow coal seam mining have serious impact on safety mining and water resources protection. This paper proposes a novel approach to study the formation mechanism and dynamic development of surface mining-induced fissures in shallow coal seam mining. This approach combines field tests, theoretical analysis, and numerical simulations based on the geological condition of shallow coal seam mining in Chuancao Gedan Coal Mine. Two typical surface mining-induced fissures, step-type fissures and collapse-type fissures, are generated in shallow coal seam mining. The fissures with large vertical throw or horizontal opening severely impact water resource protection and surface ecological environment. Surface mining-induced fissures are generated periodically and changed dynamically with the advancing of working face. The vertical throw and horizontal opening of surface fissures are changed dynamically with the movement of loading key strata. The movement forms of loading key strata determine the morphological development of surface fissures. Downward sliding movement of broken rocks causes step-type fissures, while downward rotation movement leads to collapse-type fissures. The degree of the downward sliding and rotation of broken rocks determines the vertical throw and horizontal opening of surface fissures. This paper proposes mining technologies to reduce damaging ground fissures in shallow coal seam mining and analyzes their control effects.
YEAF1/RYBP and YAF-2 Are Functionally Distinct Members of a Cofactor Family for the YY1 and E4TF1/hGABP Transcription Factors (2002)

The transcription factor hGABP/E4TF1 is a heterotetrameric complex composed of two DNA-binding subunits (hGABP alpha/E4TF1-60) and two transactivating subunits (hGABP beta/E4TF1-53). In order to understand the molecular mechanism of transcriptional regulation by hGABP, we searched for proteins that interact with the non-DNA-binding subunit, hGABP beta, using yeast two-hybrid screening. We identified a human cDNA encoding a protein related to YAF-2 (YY1-associated factor 2), which was previously isolated as an interacting partner of the Ying-Yang-1 (YY1) transcription factor. Reflecting this similarity, both YAF-2 and this novel protein (named YEAF1 for YY1- and E4TF1/hGABP-associated factor-1) interacted with hGABP beta and YY1 in vitro and in vivo, indicating that YEAF1 and YAF-2 constitute a cofactor family for these two structurally distinct transcription factors. By using yeast three-hybrid assay, we demonstrated that hGABP beta and YY1 formed a complex only in the presence of YEAF1, indicating that YEAF1 is a bridging factor of these two transcription factors. These cofactors are functionally different in that YAF-2 positively regulates the transcriptional activity of hGABP but YEAF1 negatively regulates this activity. Also, YAF-2 mRNA is highly expressed in skeletal muscle, whereas YEAF1 mRNA is highly expressed in placenta. We speculate that the transcriptional activity of hGABP is in part regulated by the expression levels of these tissue-specific cofactors. These results provide a novel mechanism of transcriptional regulation by functionally distinct cofactor family members.
Consistency Properties of Nearest Neighbor Density Function Estimators (1977)

Let $X_1, X_2,\cdots$ be $R^p$-valued random variables having unknown density function $f$. If $K$ is a density on the unit sphere in $R^p, \{k(n)\}$ a sequence of positive integers such that $k(n) \rightarrow \infty$ and $k(n) = o(n)$, and $R(k, z)$ is the distance from a point $z$ to the $k(n)$th nearest of $X_1,\cdots, X_n$, then $f_n(z) = (nR(k, z)^p)^{-1} \sum K((z - X_i)/R(k, z))$ is a nearest neighbor estimator of $f(z).$ When $K$ is the uniform kernel, $f_n$ is an estimator proposed by Loftsgaarden and Quesenberry. The estimator $f_n$ is analogous to the well-known class of Parzen-Rosenblatt bandwidth estimators of $f(z)$. It is shown that, roughly stated, any consistency theorem true for the bandwidth estimator using kernel $K$ and also true for the uniform kernel bandwidth estimator remains true for $f_n$. In this manner results on weak and strong consistency, pointwise and uniform, are obtained for nearest neighbor density function estimators.
Interaction between MYC2 and ETHYLENE INSENSITIVE3 Modulates Antagonism between Jasmonate and Ethylene Signaling in<i>Arabidopsis</i>    (2014)

Plants have evolved sophisticated mechanisms for integration of endogenous and exogenous signals to adapt to the changing environment. Both the phytohormones jasmonate (JA) and ethylene (ET) regulate plant growth, development, and defense. In addition to synergistic regulation of root hair development and resistance to necrotrophic fungi, JA and ET act antagonistically to regulate gene expression, apical hook curvature, and plant defense against insect attack. However, the molecular mechanism for such antagonism between JA and ET signaling remains unclear. Here, we demonstrate that interaction between the JA-activated transcription factor MYC2 and the ET-stabilized transcription factor ETHYLENE-INSENSITIVE3 (EIN3) modulates JA and ET signaling antagonism in Arabidopsis thaliana. MYC2 interacts with EIN3 to attenuate the transcriptional activity of EIN3 and repress ET-enhanced apical hook curvature. Conversely, EIN3 interacts with and represses MYC2 to inhibit JA-induced expression of wound-responsive genes and herbivory-inducible genes and to attenuate JA-regulated plant defense against generalist herbivores. Coordinated regulation of plant responses in both antagonistic and synergistic manners would help plants adapt to fluctuating environments.
Effect of epinephrine on the oxidative desaturation of fatty acids in the rat (1976)

The effect of epinephrine on the oxidative desaturation of fatty acids by liver microsomal preparations of rats has been studied. Administration of epinephrine (1 mg/kg body weight) produced a significant decrease in desaturation of [l-14C]=linoleic acid to gamma-linolenic acid and of [L-14C]alpha-linolenic acid to actadeca-6,9,12,15-tetraenoic acid 12 hr after the infection. Lower doses produced a lesser effect on the delta6-desaturation activity. Epinephrine administration modified the V max of linoleic acid desaturation but not the K m. There was also a slight increase in palmityl desaturation activity. The effect of epinephrine on delta6-desaturation activity was postulated to be mediated through an enhancement of the intracellular cyclic AMP levels that lead to an increase of a glucose metabolite. This metabolite would inhibit delta6-desaturation activity.
C-Flash: An Ultra-Low Power Single Poly Logic NVM (2008)

An ultra-low power logic NVM has currents <10 nA/cell in all operating regimes, high programming/erase speeds, excellent endurance/retention and allows strong Vdd fluctuations. The memory uses CMOS inverter read-out principle (C-Flash) and F-N injection for programming and erase with voltages below +5 V. The memory is intended for RFID and advanced mobile applications requiring small/middle sized embedded memory modules.
Subunit structure of the fatty acid reductase complex from Photobacterium phosphoreum (1986)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSubunit structure of the fatty acid reductase complex from Photobacterium phosphoreumLee Wall and Edward A. MeighenCite this: Biochemistry 1986, 25, 15, 4315–4321Publication Date (Print):July 1, 1986Publication History Published online1 May 2002Published inissue 1 July 1986https://pubs.acs.org/doi/10.1021/bi00363a021https://doi.org/10.1021/bi00363a021research-articleACS PublicationsRequest reuse permissionsArticle Views234Altmetric-Citations16LEARN 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
Analysis of the contribution of an amphiphilic alpha-helix to the structure and to the function of ricin A chain. (1994)

The A chain of ricin is a cytotoxic RNA N-glycosidase that inactivates eukaryotic ribosomes. The contribution of the amphiphilic helix D, which is distant from the active site, to the catalysis of the depurination of the adenosine at position 4324 in 28S rRNA has been examined by systematic deletion of amino acids. Two sets of consecutive two- or three-amino acid deletions of the 12 residues in helix D, a total of 20 mutants, were constructed. All 12 of the amino acids could be deleted in one mutant or another without loss of activity; however, mutations that disrupted the amphiphilicity of the helix led to inactivation of the enzyme. Thus, the minimum contribution of helix D to the structure of the ricin A chain is to provide hydrophobic and hydrophilic surfaces to shield helix E, which has the active-site residues; moreover, no amino acid side chain in helix D makes a specific contribution to the recognition of the RNA substrate or to catalysis; and, finally, phasing of the amino acid deletions can be important to the phenotype of mutants.
Frontiers in Bioscience 9, 1611-1625, May 1, 2004 (2004)

Pyrimidine nucleotides represent one of the most fundamental of cellular components. They are the building blocks for the direct synthesis of DNA and RNA that function in information storage and retrieval within the cell, but they also participate in the metabolism of a large number of other cellular components from sugar interconversion to cellular polysaccharides to glycoproteins and phospholipids. Thus, the metabolism of pyrimidine nucleotides and their intracellular pool sizes influence vast areas of normal cellular metabolism. The first pyrimidine, UMP, is synthesized by a de novo pathway that appears to be mechanistically invariant in all organisms. UMP is then further modified to form other pyrimidines. Breakdown of deoxyribo- and ribonucleic acids, the main sink for pyrimidine nucleotides, allows pyrimidines to be reutilized for resynthesis of these important cellular components. Pyrimidines are salvaged by converting the modified components into the free base, uracil for reutilization. Finally, pyrimidines are degraded into simple cellular metabolites permitting reutilization of nitrogen and carbon from pyrimidine ring systems into cellular metabolic pools. The regulation of pyrimidine metabolism is tightly controlled in plants. Additionally, plants produce toxic secondary metabolites derived from pyrimidines for use as defense compounds.
Expression, purification, cocrystallization and preliminary crystallographic analysis of sucrose octasulfate/human complement regulator factor H SCRs 6–8 (2007)

Human plasma protein complement factor H (FH) is an inhibitor of the spontaneously activated alternative complement pathway. An allotypic variant of FH, 402His, has been associated with age-related macular degeneration, the leading cause of blindness in the elderly. Crystals of FH domains 6-8 (FH678) containing 402His have been grown in the presence of a polyanionic sucrose octasulfate ligand (an analogue of the natural glycosaminoglycan ligands of FH) using both native and selenomethionine-derivatized protein. Native data sets diffracting to 2.3 A and SeMet data sets of up to 2.8 A resolution have been collected. An anomalous difference Patterson map reveals self- and cross-peaks from two incorporated Se atoms. The corresponding selenium substructure has been solved.
A reference monitor for workflow systems with constrained task execution (2005)

We describe a model, independent of any underlying access control paradigm, for specifying authorization constraints such as separation of duty and cardinality constraints in workflow systems. We present a number of results enabling us to simplify the set of authorization constraints. These results form the theoretical foundation for an algorithm that can be used to determine whether a given constrained workflow can be satisfied: that is, does there exist an assignment of authorized users to workflow tasks that satisfies the authorization constraints? We show that this algorithm can be incorporated into a workflow reference monitor that guarantees that every workflow instance can complete. We derive the computational complexity of our algorithm and compare its performance to comparable work in the literature.
Macrophage colony-stimulating factor and interleukin-1 alpha maintain the survival of osteoclast-like cells. (1995)

When mouse bone marrow cells were co-cultured with a stromal cell line. ST2, numerous osteoclast-like multinucleated cells (MNCs) were formed. To enrich the MNCs which were tartrate-resistant acid phosphatase (TRAP)-positive, we treated the cultures with dispase. Enriched TRAP-positive MNCs adhering to the bottom of the dish were cultured for a further 24h with medium containing 15% fetal calf serum. More than 80% of TRAP-positive MNCs were detached from the dish during the culture. However, when ST2 cells were included during the culture period, survival of TRAP-positive MNCs were significantly increased. Moreover, among various factors examined for the survival of TRAP-positive MNCs, only M-CSF and IL-1 alpha were effective in prolonging viability of TRAP-positive MNCs.
Metadata extraction and organization for intelligent video surveillance system (2010)

The research for metadata extraction originates from the intelligent video surveillance system, which is widely used in outdoor and indoor environment for the aims of traffic monitor, security guard, and intelligent robot. Various features are extracted from the surveillance image sequences such as target detection, target tracking, object's shape and activities. However, the trend of more and more features being used and shared in video surveillance system calls for more attention to bridge the gap between specific analysis algorithms and end-user's expectation. This paper proposes a three-layer object oriented model to extract the surveillance metadata including shape, motion speed, and trajectory of the object emerging in image sequence. Meanwhile, the high-level semantic metadata including entry/exit point, object duration time is organized and stored which are provided for the further end-user queries. The paper also presents the experiment results in different indoor and outdoor surveillance scenarios. At last, a comparative analysis with another traditional method is presented.
Development of a Convenient Competitive ELISA for the Detection of the Free and Protein-Bound Nonhuman Galactosyl-α-(1,3)-Galactose Epitope Based on Highly Specific Chicken Single-Chain Antibody Variable-Region Fragments (2012)

The presence of the nonhuman galactosyl-α-(1,3)-galactose (Gal-α-(1,3)-Gal) carbohydrate epitope on a number of recombinant therapeutic proteins has recently been reported, renewing interest in this immunogenic carbohydrate epitope. It is well-known that this motif is the primary contributing factor in hyperacute rejection of porcine organ xenograft, due to the existence of natural antibodies against this epitope in human serum. Though the number of epitopes on recombinant glycoproteins may be low when compared directly to whole tissue, circulating anti-Gal-α-R immunoglobulins can still induce anaphylaxis. Therefore, there is a need for rapid and convenient methods for detection and monitoring of this epitope in biopharmaceuticals produced in recombinant mammalian systems. To this end, we have generated immune-challenged chicken single-chain antibody variable-region fragment (scFv) libraries targeting the Gal-α-(1,3)-Gal motif and have selected a panel of scFv's that bind the target. We have used one of these antibodies to develop a competitive ELISA for both free and protein-bound Gal-α-(1,3)-Gal and have demonstrated that the ELISA is specific for the target and can be used to determine the loading of the target on glycoproteins. This competitive ELISA will provide a convenient method of detecting and quantifying Gal-α-(1,3)-Gal on therapeutic glycoproteins.
Scientific Perspectives on Drug Transporters and Their Role in Drug Interactions (2006)

Recently, increased interest in drug transporters and research in this area has revealed that drug transporters play an important role in modulating drug absorption, distribution, and elimination. Acting alone or in concert with drug metabolizing enzymes they can affect the pharmacokinetics and pharmacodynamics of a drug. This commentary will focus on the potential role that drug transporters may play in drug-drug interactions and what information may be needed during drug development and new drug application (NDA) submissions to address potential drug interactions mediated by transporters.
Anti-Ischemic Effects of Ivabradine, a Selective Heart Rate-Reducing Agent, in Exercise-Induced Myocardial Ischemia in Pigs (2003)

The effects of ivabradine, a novel heart rate-reducing agent that inhibits the cardiac pacemaker current If, were compared with those of the beta-adrenergic blocker propranolol, in a model of exercise-induced regional myocardial ischemia in pigs. Five Yucatan micropigs were chronically instrumented to measure hemodynamics, regional myocardial contractility, and local electrograms, and a fixed stenosis of the left anterior descending coronary artery was induced using a clip. Each animal underwent three experiments on different days, each consisting of two treadmill exercise sessions, 4 hours apart. Ivabradine 5 mg/kg, propranolol 5 mg/kg, or vehicle was administered orally 3 hours before the second exercise session. Exercises before treatment and after vehicle produced reproducible hemodynamic changes and regional myocardial ischemia in the area perfused by the stenosed coronary artery, indicated by ST segment shift and regional contractile dysfunction. Ivabradine and propranolol were equipotent in reducing heart rate at rest and limiting tachycardia during exercise. Ivabradine, unlike propranolol, did not reduce left ventricular contractility at rest or during exercise, and did not increase atrio-ventricular conduction time. Both compounds reduced the exercise-induced ST segment shift in the ischemic region by approximately 80%, but ivabradine preserved systolic shortening to a significantly greater degree than propranolol (P < 0.05).
Chaetochromins B, C and D, bis(naphtho-.GAMMA.-pyrone) derivatives from Chaetomium gracile. (1987)

Besides chaetochromin A (1), a known mycotoxin and antitumor agent, three related bis (naphtho-γ-pyrone) derivatives named chaetochromins B (2), C (3), and D (4) were isolated from Chaetomium gracile. The structures were elucidated as the diastereomer, the 3-demethyl derivative, and the 2, 3-dehydro derivative of 1, respectively, chiefly on the basis of nuclear magnetic resonance data.
A query language for biological networks (2005)

The code is available on request from the author.
Dual-energy imaging in full-field digital mammography: a phantom study (2003)

A dual-energy technique which employs the basis decomposition method is being investigated for application to digital mammography. A three-component phantom, made up of plexiglas, polyethylene, and water, was doubly exposed with the full-field digital mammography system manufactured by General Electric. The 'low' and 'high' energy images were recorded with a Mo/Mo anode-filter combination and a Rh/Rh combination, respectively. The total dose was kept within the acceptable levels of conventional mammography. The first hybrid images obtained with the dual-energy algorithm are presented in comparison with a conventional radiograph of the phantom. Image-quality characteristics at contrast cancellation angles between plexiglas and water are discussed. Preliminary results show that a combination of a standard Mo-anode 28 kV radiograph with a Rh-anode 49 kV radiograph provides the best compromise between image-quality and dose in the hybrid image.
Evolution of Ultra-High-Speed CCD Imagers (2007)

This paper reviews the high-speed video cameras developed by the authors. A video camera operating at 4,500 frames per second (fps) was developed in 1991. The partial and parallel readout scheme combined with fully digital memory with overwriting function enabled the world fastest imaging at the time. The basic configuration of the camera later became a de facto standard of high-speed video cameras. A video camera mounting an innovative image sensor achieved 1,000,000 fps in 2001. In-situ storage with more than 100 CCD memory elements is installed in each pixel of the sensor, which is capable of recording image signals in all pixels in parallel. Therefore, the sensor was named ISIS, the in-situ storage image sensor. The ultimate parallel recording operation promises the theoretical maximum frame rate. A sequence of more than one hundred consecutive images reproduces a smoothly moving image at 10 fps for more than 10 seconds. Currently, an image sensor with ultrahigh sensitivity is being developed in addition to the ultra-high frame rate, named PC-ISIS, the photon-counting ISIS, for microscopic biological observation. Some other technologies supporting the ultra-high-speed imaging developed are also presented.