gebhart/patrepeval huggingface dataset:
A Novel Protein That Interacts with the Death Domain of Fas/APO1 Contains a Sequence Motif Related to the Death Domain (1995)

Signaling for cell death by Fas/APO1 occurs via a distinct region in its intracellular domain. This region contains a conserved sequence motif, the death domain motif, that is also found in the intracellular domains of the p55 tumor necrosis factor receptor and the low affinity nerve growth factor receptor, as well as in the regulatory domain of the ankyrins. A novel protein that specifically binds to the death domain of Fas/APO1 but not to Fas/APO1 molecules with a loss of function point mutation occurring in lprcg mice was cloned by a two-hybrid screen of a HeLa cells' cDNA library. The cloned protein itself contains a death domain motif, and this region binds to the death domain of Fas/APO1, while the region upstream to the death domain prompts self-association of the protein. Induced expression of the protein results in ligand-independent triggering of cytotoxicity, suggesting that it is involved in cell death induction by Fas/APO1.
Random Mutagenesis of the M3 Muscarinic Acetylcholine Receptor Expressed in Yeast (2004)

The M(3) muscarinic receptor is a prototypical member of the class A family of G protein-coupled receptors (GPCRs). To gain insight into the structural mechanisms governing agonist-mediated M(3) receptor activation, we recently developed a genetically modified yeast strain (Saccharomyces cerevisiae) which allows the efficient screening of large libraries of mutant M(3) receptors to identify mutant receptors with altered/novel functional properties. Class A GPCRs contain a highly conserved Asp residue located in transmembrane domain II (TM II; corresponding to Asp-113 in the rat M(3) muscarinic receptor) which is of fundamental importance for receptor activation. As observed previously with other GPCRs analyzed in mammalian expression systems, the D113N point mutation abolished agonist-induced receptor/G protein coupling in yeast. We then subjected the D113N mutant M(3) receptor to PCR-based random mutagenesis followed by a yeast genetic screen to recover point mutations that can restore G protein coupling to the D113N mutant receptor. A large scale screening effort led to the identification of three such second-site suppressor mutations, R165W, R165M, and Y250D. When expressed in the wild-type receptor background, these three point mutations did not lead to an increase in basal activity and reduced the efficiency of receptor/G protein coupling. Similar results were obtained when the various mutant receptors were expressed and analyzed in transfected mammalian cells (COS-7 cells). Interestingly, like Asp-113, Arg-165 and Tyr-250, which are located at the cytoplasmic ends of TM III and TM V, respectively, are also highly conserved among class A GPCRs. Our data suggest a conformational link between the highly conserved Asp-113, Arg-165, and Tyr-250 residues which is critical for receptor activation.
Effect of Damping Constant on Magnetic Switching in Spin Torque Driven Perpendicular MRAM (2007)

In this paper, we present a spin torque included dynamic micromagnetic modeling investigation on the perpendicular magnetoresistive random access memory design. A small inject current always generates a steady magnetization precession of the composite storage layer around perpendicular axis. For a given current density, the precession frequency is lower when the Gilbert damping constant of the perpendicular layer is higher. It is found that magnetization reversal of the perpendicular storage layer occurs when the lateral precession frequency reaches the ferromagnetic resonance condition. To reach the required precession frequency, a higher current density is required for a great value of damping constant of the perpendicular layer
Formation of Tantalum “Tuck-in” Complexes by Activation of Methyl C−H Bonds in Pentamethylcyclopentadiene Groups by Carbazole Ligation (1999)

The reaction of [Cp*TaCl4] with the potassium salt of carbazole (cbK, >3 equiv) in hydrocarbon solvents leads to the species [(C5Me4CH2)Ta(cb)2Cl] (1), in which one of the ring methyl C−H bonds of the Cp* ligand has been cleaved along with free cbH. Spectroscopic and structural studies of 1 show a lack of a plane of symmetry through the molecule with nonequivalent cb ligands. A minor component of the reaction mixture is believed to be the substitutional isomer 2, in which both carbazole ligands are equivalent. Alkylation of 1 with LiCH2SiMe3 or PhCH2MgCl generates the corresponding monoalkyl derivatives [(C5Me4CH2)Ta(cb)2(R)] (7 or 8, respectively). Structural studies of 1, 7, and 8 support an η1:η5-CH2C5Me4 (σ:η5-CH2C5Me4) description for the metalated ligands, with significant slippage toward an η1:η3-CH2C5Me4 resonance form. To compare the extent of π-bonding between cb and dialkylamido ligands, the complex [(cb)2Ta(NMe2)3] (9) was synthesized and structurally characterized. The molecular structure of 9 consists of a tbp arrangement of nitrogen atoms with trans, axial cb ligands. The Ta−cb distances are 0.2 Å longer than the Ta−NMe2 distances. An improved (safer) procedure for the synthesis of [Ta(NMe2)5] is presented.
A Controlled Study of the Argon Beam Coagulator for Partial Nephrectomy (1990)

An argon beam coagulator was evaluated in 25 canine partial nephrectomies to determine its hemostatic capabilities, safety and degree of thermal injury to renal parenchyma. Comparison was made with a control group of seven partial nephrectomies performed by standard technique. In both groups the procedure was performed without renal cooling or clamping of the renal artery. The argon beam coagulator was operated with a power output of 130 watts. Mean operative time for partial nephrectomy was 22 minutes in the control group versus 10 minutes when the argon coagulator was used (p less than 0.001). Mean blood loss was 276 cc by standard technique but only 135 cc with the argon coagulator (p less than 0.001). A regular eschar with a mean depth of tissue necrosis of 2.4 mm. was observed with the argon coagulator.
Release of Drugs from Polymeric Hydrogels (1998)

Hydrogels were prepared from 2-hydroxyethyl methacrylate and ethylene glycol dimethacrylate as cross-linking agent. Two different polymerization techniques were followed, namely bulk polymerization initiated by dibenzoyl peroxide and solution polymerization, in water, using a redox initiator system. Differences in the water desorption from swollen samples between the two types of the above products were recorded and attributed to the fact that those hydrogels were obtained in glassy or rubbery state, according to the polymerization technique. Also, the delivery of salicylic acid from samples of the above types was studied, and a faster release with higher ultimate delivery was displayed by the solution polymerization hydrogels.
Genetic Signatures in the Envelope Glycoproteins of HIV-1 that Associate with Broadly Neutralizing Antibodies (2010)

A steady increase in knowledge of the molecular and antigenic structure of the gp120 and gp41 HIV-1 envelope glycoproteins (Env) is yielding important new insights for vaccine design, but it has been difficult to translate this information to an immunogen that elicits broadly neutralizing antibodies. To help bridge this gap, we used phylogenetically corrected statistical methods to identify amino acid signature patterns in Envs derived from people who have made potently neutralizing antibodies, with the hypothesis that these Envs may share common features that would be useful for incorporation in a vaccine immunogen. Before attempting this, essentially as a control, we explored the utility of our computational methods for defining signatures of complex neutralization phenotypes by analyzing Env sequences from 251 clonal viruses that were differentially sensitive to neutralization by the well-characterized gp120-specific monoclonal antibody, b12. We identified ten b12-neutralization signatures, including seven either in the b12-binding surface of gp120 or in the V2 region of gp120 that have been previously shown to impact b12 sensitivity. A simple algorithm based on the b12 signature pattern was predictive of b12 sensitivity/resistance in an additional blinded panel of 57 viruses. Upon obtaining these reassuring outcomes, we went on to apply these same computational methods to define signature patterns in Env from HIV-1 infected individuals who had potent, broadly neutralizing responses. We analyzed a checkerboard-style neutralization dataset with sera from 69 HIV-1-infected individuals tested against a panel of 25 different Envs. Distinct clusters of sera with high and low neutralization potencies were identified. Six signature positions in Env sequences obtained from the 69 samples were found to be strongly associated with either the high or low potency responses. Five sites were in the CD4-induced coreceptor binding site of gp120, suggesting an important role for this region in the elicitation of broadly neutralizing antibody responses against HIV-1.
Smart cars on smart roads: problems of control (1993)

Key features of one automated intelligent vehicle/highway system (IVHS) are outlined, it is shown how core driver decisions are improved, a basic IVHS control system architecture is proposed, and a design of some control subsystems is offered. Some experimental work is summarized. A system that promises a threefold increase in capacity is outlined, and a four-layer hierarchical control architecture that decomposes this problem into more manageable units is proposed.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Concepts in Imaging and Microscopy Imaging Membrane Potential With Voltage-Sensitive Dyes (2000)

Membrane potential can be measured optically using a variety of molecular probes. These measurements can be useful in studying function at the level of an indi- vidual cell, for determining how groups of neurons generate a behavior, and for studying the correlated behavior of populations of neurons. Examples of the three kinds of measurements are presented. The signals obtained from these measurements are generally small. Methodological considerations necessary to optimize the resulting signal-to- noise ratio are discussed.
American College of Rheumatology 2008 recommendations for the use of nonbiologic and biologic disease‐modifying antirheumatic drugs in rheumatoid arthritis (2008)

Guidelines and recommendations developed and/or endorsed by the American College of Rheumatology (ACR) are intended to provide guidance for particular patterns of practice and not to dictate the care of a particular patient. The ACR considers adherence to these guidelines and recommendations to be voluntary, with the ultimate determination regarding their application to be made by the physician in light of each patient’s individual circumstances. Guidelines and recommendations are intended to promote beneficial or desirable outcomes but cannot guarantee any specific outcome. Guidelines and recommendations developed or endorsed by the ACR are subject to periodic revision as warranted by the evolution of medical knowledge, technology, and practice.
A Highly Divergent Picornavirus in a Marine Mammal (2007)

Nucleic acids from an unidentified virus from ringed seals (Phoca hispida) were amplified using sequence-independent PCR, subcloned, and then sequenced. The full genome of a novel RNA virus was derived, identifying the first sequence-confirmed picornavirus in a marine mammal. The phylogenetic position of the tentatively named seal picornavirus 1 (SePV-1) as an outlier to the grouping of parechoviruses was found consistently in alignable regions of the genome. A mean protein sequence identity of only 19.3 to 30.0% was found between the 3D polymerase gene sequence of SePV-1 and those of other picornaviruses. The predicted secondary structure of the short 506-base 5'-untranslated region showed some attributes of a type IVB internal ribosome entry site, and the polyprotein lacked an apparent L peptide, both properties associated with the Parechovirus genus. The presence of two SePV-1 2A genes and of the canonical sequence required for cotranslational cleavage resembled the genetic organization of Ljungan virus. Minor genetic variants were detected in culture supernatants derived from 8 of 108 (7.4%) seals collected in 2000 to 2002, indicating a high prevalence of SePV-1 in this hunted seal population. The high level of genetic divergence of SePV-1 compared to other picornaviruses and its mix of characteristics relative to its closest relatives support the provisional classification of SePV-1 as the prototype for a new genus in the family Picornaviridae.
Lateral force on a rigid sphere in large-inertia laminar pipe flow (2009)

We present a prediction of the lateral force exerted on a rigid neutrally buoyant sphere in circular cross-section Poiseuille flow. The force is calculated with the method of matched asymptotic expansions. We investigate the influence of the pipe Reynolds number in the range 1–2000 on the equilibrium position and the magnitude of the lateral force. We show that the predicted lift force in a circular geometry is qualitatively similar to, but quantitatively different from, that in a plane channel. The predicted force in the pipe is significantly smaller than the channel result, and the zero of the force which determines the equilibrium radial position of a suspended particle lies closer to the centreline in the pipe.
Sequences required for coordinate induction of adeno-associated virus p19 and p40 promoters by Rep protein (1991)

A series of contiguous 30-bp deletions were introduced into the regions upstream of the p19 and p40 promoters of adeno-associated virus (AAV), and the effects of these deletions on induction of AAV transcription by the rep gene products was evaluated. A novel complementation system was devised for supplying wild-type Rep protein when mutations disrupted the trans activation activity of the Rep protein. Transcription from the p40 promoter was eliminated upon deletion of the TATA sequence located between -4 and -33 from the cap site. Deletions which removed sequences from -34 to -123 bp from the p40 mRNA start site substantially reduced Rep induction of p40 transcription. p19 transcription was also undetectable when the p19 TATA sequence between -4 and -33 was deleted. In contrast to the p40 region, two types of cis-active sequences were found associated with the p19 promoter. Sequences between -4 and -63 bp relative to the p19 cap site were essential for Rep induction only from the p19 promoter. Deletions between -94 and -153 bp relative to the p19 cap site reduced Rep induction of both the p19 and p40 promoters coordinately. These two noncontiguous regions were separated by a 30-bp sequence that was not essential for transcription control. Further deletion analysis delineated a second cis-active element, associated with the p5 promoter (AAV nucleotides 191 to 320), which was also necessary for coordinate Rep activation of both the p19 and p40 promoters. Finally, the dependence of p40 transcription on the Rep-responsive elements within the p5 and p19 regions could be overcome by the presence of the AAV terminal repeats, suggesting that the terminal repeats contained redundant Rep-responsive elements. These results implied an interdependence in cis between the three AAV promoters and suggested a novel mechanism for coordinate regulation of gene expression in response to the trans-activating Rep protein. Coordinate induction appeared to be the result of a simultaneous interaction between the Rep protein and sequence elements associated with two or all three of the AAV promoters.
Bedside Procalcitonin and C-Reactive Protein Tests in Children With Fever Without Localizing Signs of Infection Seen in a Referral Center (2003)

PCT and CRP performed better than IL-6, WBC, and/or band count in predicting the occurrence of SBI. PCT and CRP bedside tests may be useful tools for emergency and private practice doctors and should be considered in the initial work-up of children with fever without source.
Cardiac and Skeletal Muscle Defects in a Mouse Model of Human Barth Syndrome (2010)

Barth syndrome is an X-linked genetic disorder caused by mutations in the tafazzin (taz) gene and characterized by dilated cardiomyopathy, exercise intolerance, chronic fatigue, delayed growth, and neutropenia. Tafazzin is a mitochondrial transacylase required for cardiolipin remodeling. Although tafazzin function has been studied in non-mammalian model organisms, mammalian genetic loss of function approaches have not been used. We examined the consequences of tafazzin knockdown on sarcomeric mitochondria and cardiac function in mice. Tafazzin knockdown resulted in a dramatic decrease of tetralinoleoyl cardiolipin in cardiac and skeletal muscles and accumulation of monolysocardiolipins and cardiolipin molecular species with aberrant acyl groups. Electron microscopy revealed pathological changes in mitochondria, myofibrils, and mitochondrion-associated membranes in skeletal and cardiac muscles. Echocardiography and magnetic resonance imaging revealed severe cardiac abnormalities, including left ventricular dilation, left ventricular mass reduction, and depression of fractional shortening and ejection fraction in tafazzin-deficient mice. Tafazzin knockdown mice provide the first mammalian model system for Barth syndrome in which the pathophysiological relationships between altered content of mitochondrial phospholipids, ultrastructural abnormalities, myocardial and mitochondrial dysfunction, and clinical outcome can be completely investigated.
Giant Coercive Field of Nanometer‐ Sized Iron Oxide (2004)

Nanocrystals of iron oxide in a silica matrix exhibiting a giant H c value of 2.0 T at room temperature are reported. The nanocomposite was obtained by combining reverse‐micelle and sol–gel methods. The nanocrystals of iron oxide are composed of the ϵ‐Fe 2 O 3 phase, with rod‐like particles 100–140 nm long and 20–40 nm wide. The Figure shows the hysteresis curve of the nanocrystals.
30-kDa heparin-binding protein of brain (amphoterin) involved in neurite outgrowth. Amino acid sequence and localization in the filopodia of the advancing plasma membrane. (1991)

A cDNA library constructed from mRNA of rat brain was used to clone the cDNA that encodes the 30-kDa heparin-binding protein (amphoterin) that is developmentally regulated in brain and enhances neurite outgrowth in cerebral neurons. cDNA and peptide sequencing identified a dipolar sequence that has been previously found in studies of high mobility group 1 protein: the 184-amino acid cationic region is followed by a cluster of 30 anionic residues. The mRNA encoding amphoterin is also developmentally regulated; it is strongly reduced in quantity after the rapid perinatal growth phase of the rat brain. Anti-synthetic peptide antibodies raised according to the sequence of amphoterin were shown to bind specifically to the protein isolated from brain, and were used to detect amphoterin in subcellular fractions and in immunostaining of cells. Amphoterin was found in the cytoplasm of the cell soma, in the cell processes, and the substrate-attached material. In cells that are at an active stage of spreading and extending their cytoplasmic processes amphoterin was especially associated with plasma membrane filopodia. The distinct localization to the filopodia of the advancing plasma membrane suggests that endogenous amphoterin has a role in the extension of neurite-type cytoplasmic processes in developing cells. This inference is further supported by the finding that both anti-amphoterin and the anti-synthetic peptide antibodies in the culture media strongly inhibit the outgrowth of cytoplasmic processes.
Antenna diversity for mobile telephones (2002)

There have been several studies made on new diversity antennas for the mobile telephones. The main idea has been to have a built-in (planar) antenna working together with the conventional external. The purpose of this paper is to examine the concept of diversity further and to design two different concepts, one with two external antennas and one with an external antenna combined with an in-built. For evaluation a MATLAB program developed by the Center for Personkommunikation, CPK, in Aalborg, Denmark, is used. Given the radiation pattern from each antenna and the incoming field distribution from the environment, this program calculates the diversity performance of the system assuming that selection combining is used to combine the signals.
Remote respiration and heart rate monitoring with millimeter-wave/terahertz radars (2008)

The characteristics of continuous-wave millimeter-wave/terahertz radars make them candidates to remotely sense the physiological parameters of individuals, such as respiration and heart rates. The characteristics of these radars include transmission through the atmosphere and clothing, well-collimated beams, and sensitivity to small displacements. The directional Doppler velocity can be used to measure the movement of a subject's chest wall due to respiration and the more subtle motion of the body due to the cardiopulmonary system. We will present an overview of two systems that have been developed along with representative data from each.
Estimation of effective interresidue contact energies from protein crystal structures: quasi-chemical approximation (1985)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTEstimation of effective interresidue contact energies from protein crystal structures: quasi-chemical approximationSanzo Miyazawa and Robert L. JerniganCite this: Macromolecules 1985, 18, 3, 534–552Publication Date (Print):March 1, 1985Publication History Published online1 May 2002Published inissue 1 March 1985https://pubs.acs.org/doi/10.1021/ma00145a039https://doi.org/10.1021/ma00145a039research-articleACS PublicationsRequest reuse permissionsArticle Views3202Altmetric-Citations1244LEARN 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