gebhart/patrepeval huggingface dataset:
Immunoelectron microscopy of low density lipoproteins yields a ribbon and bow model for the conformation of apolipoprotein B on the lipoprotein surface. (1995)

In the present study, the relative positions of 11 anti-apolipoprotein B monoclonal antibodies have been mapped onto the surface of human low density lipoproteins by electron microscopy. As the epitopes recognized by these antibodies have been previously located on the primary sequence of apoB, these data provide a map of the configuration of the protein on the surface of the LDL. The first 89% of apoB-100 may be modeled as a thick ribbon that wraps once around the LDL, completing the encirclement by about amino acid residue 4050. The thickness of the ribbon is sufficient to penetrate the monolayer, so that it makes contact with the core. There is a kink in the ribbon beginning almost halfway along its length at approximately apoB-48. The C-terminal 11% of apoB constitutes the "bow," an elongated structure of about 480 residues, beginning at 4050 and stretching back into one hemisphere and then crossing the ribbon into the other hemisphere between residues 3000 to 3500, thus bringing sequences in the C-terminal portion of apoB-100 near to the suggested binding site for the LDL receptor. The C-terminal sequences may act as a negative regulator of LDL receptor binding, in agreement with Parhofer et al, 1992. J. Clin. Invest. 89: 1931-1937, who reported the enhanced clearance from plasma of apoB-89-containing lipoproteins. It is proposed that in VLDL the bow could function to inhibit binding to the receptor; during lipolysis to form LDL, it is suggested that these C-terminal inhibitory sequences forming the bow would move sufficiently to allow interaction with the LDL-receptor.
Relaxation of the second excited singlet states of aromatic thiones: the role of specific solute-solvent interactions (1985)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTRelaxation of the second excited singlet states of aromatic thiones: the role of specific solute-solvent interactionsA. Maciejewski, D. R. Demmer, D. R. James, A. Safarzadeh-Amiri, R. E. Verrall, and R. P. SteerCite this: J. Am. Chem. Soc. 1985, 107, 10, 2831–2837Publication Date (Print):May 1, 1985Publication History Published online1 May 2002Published inissue 1 May 1985https://pubs.acs.org/doi/10.1021/ja00296a001https://doi.org/10.1021/ja00296a001research-articleACS PublicationsRequest reuse permissionsArticle Views217Altmetric-Citations86LEARN 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
Lerna: an active storage framework for flexible data access and management (2005)

In the present paper, we examine the problem of supporting application-specific computation within a network file server. Our objectives are (i) to introduce an easy to use yet powerful architecture for executing both custom-developed and legacy applications close to the stored data, (ii) to investigate the performance improvement that we get from data proximity in I/O-intensive processing, and (in) to exploit the I/O-traffic information available within the file server for more effective resource management. One main difference from previous active storage research is our emphasis on the expressive power and usability of the network server interface. We describe an extensible active storage framework that we built in order to demonstrate the feasibility of the proposed system design. We show that accessing large datasets over a wide-area network through a regular file system can penalize the system performance, unless application computation is moved close to the stored data. Our conclusions are substantiated through experimentation with a popular multilayer map warehouse application.
Web channels in e-commerce (2001)

article Share on Web channels in e-commerce Authors: Abhijit Chaudhury Bryant College, Smithfield, RI Bryant College, Smithfield, RIView Profile , Debasish Mallick Univ. of Minnesota, Minneapolis Univ. of Minnesota, MinneapolisView Profile , H. Raghav Rao State Univ. of New York, Buffalo State Univ. of New York, BuffaloView Profile Authors Info & Claims Communications of the ACMVolume 44Issue 1Jan. 2001 pp 99–104https://doi.org/10.1145/357489.357515Online:01 January 2001Publication History 37citation2,090DownloadsMetricsTotal Citations37Total Downloads2,090Last 12 Months73Last 6 weeks6 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my Alerts New Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteGet Access
Thermal magnetization noise in submicrometer spin valve sensors (2003)

With decreasing device dimensions thermal fluctuations may ultimately limit the performance of spin valve sensors. Using finite element micromagnetic simulations, we investigate thermal magnetization noise in submicrometer soft magnetic sensor elements within the framework of Langevin simulations. Local random thermal fluctuations lead to a collective motion of the magnetization. The magnetization precesses in the end domains leading to an oscillation of the total magnetization parallel to the long axes with an amplitude in the order of 0.1 Ms at 350 K. The noise power increases linearly with temperature. Irrespective of the bias field, the time averaged total magnetization parallel to the long axes decays approximately by 0.01 Ms as the temperature is raised by 100 K.
Citrulline reduces glyceroneogenesis and induces fatty acid release in visceral adipose tissue from overweight rats (2014)

These results demonstrate direct lipolytic and antiglyceroneogenic effects of CIT on CD and HFD AT. The selective CIT-mediated NEFA release from HFD AT was probably the consequence of the drastic decrease in glyceroneogenesis and nitric oxide was a mediator of CIT effects. These results provide evidence for a direct action of CIT on AT to reduce overweight.
Prions of Yeast Are Genes Made of Protein: Amyloids and Enzymes (2004)

In 1994 we described two infectious proteins (prions)of Saccharomyces cerevisiae, showing that the nonchromosomal genes [URE3] and [PSI] are inactive, self-propagating forms of Ure2p and Sup35p, respectively (Wickner 1994). Since then, [Het-s], a prion of Podosporaanserina (Coustou et al. 1997), and [PIN+], another S.cerevisiae prion (Derkatch et al. 1997, 2001; Sondheimerand Lindquist 2000), have been found. All of the aboveprions are based on self-propagating amyloids. Recently,we described another prion, called [β], which is based onthe trans self-activation by the yeast vacuolar protease B(Roberts and Wickner 2003). Evidence has appeared suggesting that C, the non-Mendelian gene of Podosporaanserina determining Crippled Growth, is also a self-activating prion of a MAP kinase kinase kinase (Kicka andSilar 2004). Study of these yeast and fungal phenomenahas established that proteins can be genes and infectiousentities and has revealed many details of what makes aprotein infectious...
The Semantic Web takes Wing: Programming Ontologies with Tawny-OWL (2013)

The Tawny-OWL library provides a fully-programmatic environment for ontology building; it enables the use of a rich set of tools for ontology development, by recasting development as a form of programming. It is built in Clojure - a modern Lisp dialect, and is backed by the OWL API. Used simply, it has a similar syntax to OWL Manchester syntax, but it provides arbitrary extensibility and abstraction. It builds on existing facilities for Clojure, which provides a rich and modern programming tool chain, for versioning, distributed development, build, testing and continuous integration. In this paper, we describe the library, this environment and the its potential implications for the ontology development process.
Narrowband generation of ultrafast acoustic and thermal transients in thin films for enhanced detectability (2002)

A technique for the narrowband generation of ultrafast acoustic and thermal transients in thin films is demonstrated; this technique allows for enhanced detectability of these transients. The approach pursued uses a reduced-bandwidth, optical pulse train for excitation that is constructed from a series of time-delayed pulses derived from a single-laser pulse. The underlying physical limitations of this approach are considered in order to assess conditions under which successful bandwidth reduction can be realized. Results in an aluminum thin film on a tungsten-carbide substrate show successful generation and detection of a narrowband acoustic signal centered at 32.34 GHz.
Storage, Expression and Function of Fas Ligand, the Key Death Factor of Immune Cells (2008)

The TNF family member Fas ligand (FasL) induces apoptosis in Fas-expressing cells and serves as a key death factor in the immune system. It is involved in the termination of immune responses by activation-induced cell death, the selection of thymocytes and T and NK cell-mediated cytotoxicity. FasL also participates in the establishment of immune privilege and contributes to tumor cell survival. Besides its death-inducing capacity, FasL has been implicated in retrograde signal transduction into FasL expressing cells by so-called "reverse signalling". In this context, FasL may also act as an accessory/costimulatory molecule. Dysregulation within the Fas/FasL-system manifests in a severe impairment of the functional integrity and maintenance of immune homeostasis. As its receptor Fas is abundantly expressed in several tissues, the expression of FasL has to be tightly regulated to prevent unwanted damage. At the post-transcriptional level, this is achieved by several independent mechanisms, for example the safe intracellular storage, an activation-dependent mobilization, the association with lipid rafts and the shedding by metalloproteases. Of interest, the intracellular portion of FasL contains a unique proline-rich domain, which plays a major role in the control of FasL transport and expression due to interactions with proteins containing SH3 or WW interaction domains. The detailed analysis of FasL-interacting proteins and their functional characterization provided novel insights into the complex processes regulating FasL expression and signal transduction. This knowledge should allow to improve Fas/FasL-based therapeutical approaches that are currently under development.
A 600 MHz IA-32 microprocessor with enhanced data streaming for graphics and video (2003)

This Intel architecture microprocessor (Pentium III) implements 70 additional instructions to further accelerate the performance of data-streaming applications including 3D graphics and video encode/decode. This processor is enhanced by addition of these instructions along with circuit improvements for higher clock frequency. The 10.17/spl times/12.10 mm/sup 2/ die contains 9.5 M transistors and is in a CMOS 5-layer metal 0.25 /spl mu/ process in an OLGA package with C4 interconnect technology. It has an operating range of 1.4 V to 2.2 V and is currently running up to 60O MHz.
Profile of Circulating Vasoactive Substances in Hemorrhagic Shock and Their Pharmacologic Manipulation (1974)

(a) Hemorrhage in dogs (to 45-50 mm Hg) was associated with a 10-fold increase in plasma renin activity (PRA) which remained elevated throughout the time-course of shock including the irreversible (decompensation) stage. The presence of angiotensin II (AII) in arterial blood was demonstrated by the bloodbathed organ technique and confirmed by blockade with specific AII antagonists (cysteine(8)-AII or isoleucine(8)-AII). The contribution of AII to systemic peripheral resistance during hemorrhage shock in dogs was established by administering AII antagonists which immediately cause a further fall in blood pressure.(b) Plasma catecholamines (CA) steadily increased during hemorrhage and peaked during compensation (a 100-fold increase). The CA decreased progressively during decompensation.(c) Prostaglandin (PG) E-like material was observed in arterial blood for 15-60 min (after hemorrhage); the peak arterial concentration was 2.6 ng/ml blood. Indomethacin (i.v., before 80% of maximum bleedout): (i) confirmed the presence of PGE, (ii) increased blood pressure, and (iii) increased blood loss.(d) Thus: peripheral resistance during hemorrhagic shock seems temporally correlated with blood CA levels (and not PRA), and the renin-AII system contributes to the maintenance of vascular resistance and may markedly decrease perfusion of organs, such as kidney; the administration of the proper combination of specific antagonists of vasoconstrictor humoral substances may radically improve organ perfusion and could contribute to ultimate recovery from hemorrhagic shock.
The LMS algorithm with momentum updating (2003)

Several modifications of the well-known least-mean-square (LMS) algorithm have been proposed for improved operation. The authors analyze one such recent innovation that corresponds to the ordinary LMS algorithm with an additional momentum term, parameterized by the factor alpha . The analysis of convergence in the mean yields some novel behavior insofar that it leads to complex eigenvalues of the transition matrix for the mean weight vector. The convergence in the mean-square analysis demonstrates that instability will occur as alpha tends closer to 1, a result not predicted by the analysis of convergence in the mean.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Mechanisms of Evolution in <i>Rickettsia conorii</i> and <i>R. prowazekii</i> (2001)

Rickettsia conorii is an obligate intracellular bacterium that causes Mediterranean spotted fever in humans. We determined the 1,268,755-nucleotide complete genome sequence of R. conorii, containing 1374 open reading frames. This genome exhibits 804 of the 834 genes of the previously determined R. prowazekii genome plus 552 supplementary open reading frames and a 10-fold increase in the number of repetitive elements. Despite these differences, the two genomes exhibit a nearly perfect colinearity that allowed the clear identification of different stages of gene alterations with gene remnants and 37 genes split in 105 fragments, of which 59 are transcribed. A 38-kilobase sequence inversion was dated shortly after the divergence of the genus.
UPs and downs in bacterial transcription initiation: the role of the alpha subunit of RNA polymerase in promoter recognition (2000)

In recent years, it has become clear that promoter recognition by bacterial RNA polymerase involves interactions not only between core promoter elements and the sigma subunit, but also between a DNA element upstream of the core promoter and the alpha subunit. DNA binding by alpha can increase transcription dramatically. Here we review the current state of our understanding of the alpha interaction with DNA during basal transcription initiation (i.e. in the absence of proteins other than RNA polymerase) and activated transcription initiation (i.e. when stimulated by transcription factors).
3α, 17α, 21‐Trihydroxy‐5α‐pregnan‐20‐on und Subst. TR 1018. Über Bestandteile der Nebennierenrinde und verwandte Stoffe, 101. Mitteilung (1962)

Abstract Die Synthese von 3α, 17, 21‐Trihydroxy‐5α‐pregnan‐20‐on wird beschrieben. Der Stoff war nicht identisch mit der aus Nebennieren‐Extrakten isolierten Substanz Nr. 1018.
Transcript Profiling in the<i>chl1-5</i>Mutant of Arabidopsis Reveals a Role of the Nitrate Transporter NRT1.1 in the Regulation of Another Nitrate Transporter, NRT2.1[W] (2004)

Arabidopsis thaliana mutants deficient for the NRT1.1 NO(3)(-) transporter display complex phenotypes, including lowered NO(3)(-) uptake, altered development of nascent organs, and reduced stomatal opening. To obtain further insight at the molecular level on the multiple physiological functions of NRT1.1, we performed large-scale transcript profiling by serial analysis of gene expression in the roots of the chl1-5 deletion mutant of NRT1.1 and of the Columbia wild type. Several hundred genes were differentially expressed between the two genotypes, when plants were grown on NH(4)NO(3) as N source. Among these genes, the N satiety-repressed NRT2.1 gene, encoding a major component of the root high-affinity NO(3)(-) transport system (HATS), was found to be strongly derepressed in the chl1-5 mutant (as well as in other NRT1.1 mutants). This was associated with a marked stimulation of the NO(3)(-) HATS activity in the mutant, suggesting adaptive response to a possible N limitation resulting from NRT1.1 mutation. However, derepression of NRT2.1 in NH(4)NO(3)-fed chl1-5 plants could not be attributed to lowered production of N metabolites. Rather, the results show that normal regulation of NRT2.1 expression is strongly altered in the chl1-5 mutant, where this gene is no more repressible by high N provision to the plant. This indicates that NRT1.1 plays an unexpected but important role in the regulation of both NRT2.1 expression and NO(3)(-) HATS activity. Overexpression of NRT2.1 was also found in wild-type plants supplied with 1 mM NH(4)(+) plus 0.1 mM NO(3)(-), a situation where NRT1.1 is likely to mediate very low NO(3)(-) transport. Thus, we suggest that it is the lack of NRT1.1 activity, rather than the absence of this transporter, that derepresses NRT2.1 expression in the presence of NH(4)(+). Two hypotheses are discussed to explain these results: (1) NRT2.1 is upregulated by a NO(3)(-) demand signaling, indirectly triggered by lack of NRT1.1-mediated uptake, which overrides feedback repression by N metabolites, and (2) NRT1.1 plays a more direct signaling role, and its transport activity generates an unknown signal required for NRT2.1 repression by N metabolites. Both mechanisms would warrant that either NRT1.1 or NRT2.1 ensure significant NO(3)(-) uptake in the presence of NH(4)(+) in the external medium, which is crucial to prevent the detrimental effects of pure NH(4)(+) nutrition.
A Hybrid De-Noising Method on LASCA Images of Blood Vessels (2012)

A de-noising approach is proposed that based on the combination of wiener filtering, nonlinear filtering and wavelet fusion, which de-noise the LASCA (LAser Speckle Contrast Analysis) image of blood vessels in Small Animals. The approach first performs laser spectral contrast analysis on brain blood flow in rats, get their spatial and temporal contrast images. Then, a de-noising filtering method is proposed to deal with noise in LASCA. The image restoration is achieved by applying the proposed admixture filtering, and the subjective estimation and objective estimation are given to the de-noising images. As our experimental results shown, the proposed method provides clearer subjective sense and improved to over 25 db for PSNR.
Photometric Methods for the Measurement of Hemagglutinating Viruses and Antibody: I. Further Experience with a Novel Photometric Method for Measuring Hemagglutinins (1962)

Summary A photometric method for titration of virus using equipment available in this country has been described. The standard deviation of mean titer values found in a series of replicate titrations carried out in one laboratory was 3.5%. The average difference in titer values found in three different laboratories using several strains of virus was 7.87%. Such reproducibility has not previously been achieved and the use of the method may permit development of an international standard for measurement of hemagglutinin.
Analysis of Healing Effect of Alginate Sulfate Hydrogel Dressing Containing Antimicrobial Peptide on Wound Infection Caused by Methicillin-Resistant Staphylococcus aureus (2015)

This study showed that compared to standard drug treatment, treatment with hydrogel containing peptide had substantial antibacterial effects on S. aureus wound infections in mice.
Synthesis and anti‐aggregatory activity of linear retro‐inverso RGD peptides (2000)

Six retro-inverso tri- and tetrapeptide analogues of RGD were prepared and their anti-aggregatory activity was determined by platelet aggregation tests in comparison with the corresponding parent peptides. An efficient method for the introduction of a malonyl-aspartic residue into a peptide chain is described for the first time. A 2-3-fold decrease in potency or total loss of bioactivity was observed with the new peptides; structure-activity relationships are discussed.
Application of laser pulse stretching scheme for efficiently delivering laser energy in photoacoustic imaging (2012)

High-energy and short-duration laser pulses are desirable to improve the photoacoustic image quality when imaging deeply seated lesions. In many clinical applications, the high-energy pulses are coupled to tissue using optical fibers. These pulses can damage fibers if the damage threshold is exceeded. While keeping the total energy under the Food and Drug Administration limit for avoiding tissue damage, it is necessary to reduce the peak intensity and increase the pulse duration for minimizing fiber damage and delivering sufficient light for imaging. We use laser-pulse-stretching to address this problem. An initial 17-ns pulse was stretched to 27 and 37 ns by a ring-cavity laser-pulse-stretching system. The peak power of the 37-ns stretched pulse reduced to 42% of the original, while the fiber damage threshold was increased by 1.5-fold. Three ultrasound transducers centered at 1.3-, 3.5-, and 6-MHz frequencies were simulated, and the results showed that the photoacoustic signal of a 0.5-mm-diameter target obtained with 37-ns pulse was about 98, 91, and 80%, respectively, using the same energy as the 17-ns pulse. Simulations were validated using a broadband hydrophone. Quantitative comparisons of photoacoustic images obtained with three corresponding transducers showed that the image quality was not affected by stretching the pulse.