gebhart/patrepeval huggingface dataset:
Non-Classical monocytes display inflammatory features: Validation in Sepsis and Systemic Lupus Erythematous (2015)

Given the importance of monocytes in pathogenesis of infectious and other inflammatory disorders, delineating functional and phenotypic characterization of monocyte subsets has emerged as a critical requirement. Although human monocytes have been subdivided into three different populations based on surface expression of CD14 and CD16, published reports suffer from contradictions with respect to subset phenotypes and function. This has been attributed to discrepancies in reliable gating strategies for flow cytometric characterization and purification protocols contributing to significant changes in receptor expression. By using a combination of multicolour flow cytometry and a high-dimensional automated clustering algorithm to confirm robustness of gating strategy and analysis of ex-vivo activation of whole blood with LPS we demonstrate the following: a. 'Classical' monocytes are phagocytic with no inflammatory attributes, b. 'Non-classical' subtype display 'inflammatory' characteristics on activation and display properties for antigen presentation and c. 'Intermediate' subtype that constitutes a very small percentage in circulation (under physiological conditions) appear to be transitional monocytes that display both phagocytic and inflammatory function. Analysis of blood from patients with Sepsis, a pathogen driven acute inflammatory disease and Systemic Lupus Erythmatosus (SLE), a chronic inflammatory disorder validated the broad conclusions drawn in the study.
Development of a New Inhibitor of Glucosylceramide Synthase (2000)

Analogs of the potent inhibitor of glucosylceramide (GlcCer) synthase, D-threo-1-phenyl-2-palmitoylamino-3-pyrrolidino-1-propanol (P4), based on substitutions in the palmitoyl group were made by means of a stereo-selective synthetic method in order to elucidate the role of the hydrophobic portion in both the inhibitory action toward the enzyme and the biological effects. While P4 strongly inhibited GlcCer synthase with an IC(50) of 0.5 microM in vitro, it also inhibited cell growth by 50% at the concentration of 7 microM. The shorter N-acyl chain analogs including decanoyl, octanoyl, and hexanoyl groups showed similar IC(50) values for GlcCer synthase (around 2 microM) but the hexanoyl analog exhibited only a slight inhibitory effect on cell growth, showing the dissociation between GlcCer depletion and cell growth. Several compounds which exhibit similar hydrophobicity to the hexanoyl analog of P4 were subsequently designed. We found that D-threo-1-phenyl-2-benzyloxycarbonylamino-3-pyrrolidino-1-pr opanol (PBPP) was a most potent inhibitor, showing an IC50 of 0.3 microM. In cultured cells, PBPP was able to deplete glycosphingolipids without affecting cell growth or the ceramide level.
Expression of the gene encoding growth hormone in the human mammary gland. (1995)

Progestins cause a syndrome of growth hormone (GH) excess and enhanced mammary tumorigenesis in the dog. This has been regarded as being specific for the dog. Recently we reported that progestin-induced GH excess originates from foci of hyperplastic ductular epithelium of the mammary gland in the dog. In the present report we demonstrate by reverse-transcriptase PCR and immunohistochemistry that a main factor involved in tissue growth, i.e. GH, is also expressed in normal and neoplastic human mammary glands. The gene expressed in the human mammary gland proved to be identical to the gene encoding GH in the pituitary gland. The role of progesterone in the GH expression of the human mammary gland needs, however, to be proven. It is hypothesized that this locally produced hGH may play a pathogenetic role in breast cancer.
Part-of-speech tagging with neural networks (1994)

Text corpora which are tagged with part-of-speech information are useful in many areas of linguistic research. In this paper, a new part-of-speech tagging method based on neural networks (Net-Tagger) is presented and its performance is compared to that of a HMM-tagger (Cutting et al., 1992) and a trigram-based tagger (Kempe, 1993). It is shown that the Net-Tagger performs as well as the trigram-based tagger and better than the HMM-tagger.
A multicenter double‐blind placebo‐controlled trial of pergolide as an adjunct to sinemet® in Parkinson's disease (1994)

Three hundred and seventy-six subjects with advanced Parkinson's disease participated in a prospective, double-blind placebo-controlled study of the dopamine agonist pergolide mesylate as an adjunct to Sinemet. At 6 months, patients randomized to pergolide had a statistically significant improvement in total Parkinson's score, scores of activities of daily living, motor function, number of "off" hours, Hoehn and Yahr stage, and numerous parameters of parkinsonian function including bradykinesia, rigidity, gait, and dexterity. This benefit was obtained with the addition of a mean dose of 2.94 mg of pergolide, which permitted a 24.7% reduction in dose of levodopa. Adverse reactions were, for the most part, mild, reversible, and not of major clinical significance. No significant cardiac or electrocardiographic abnormalities were detected. This study demonstrates that pergolide mesylate, as an adjunct to levodopa, is an effective antiparkinsonian agent that provides clinical improvement while permitting a reduction in levodopa dose.
General Strategy for Decoration of Enveloped Viruses with Functionally Active Lipid-Modified Cytokines (2007)

Viral particles preferentially incorporate extra- and intracellular constituents of host cell lipid rafts, a phenomenon central to pseudotyping. Based on this mechanism, we have developed a system for the predictable decoration of enveloped viruses with functionally active cytokines that circumvents the need to modify viral proteins themselves. Human interleukin-2 (hIL-2), hIL-4, human granulocyte-macrophage colony-stimulating factor (hGM-CSF), and murine IL-2 (mIL-2) were used as model cytokines and fused at their C terminus to the glycosylphosphatidylinositol (GPI) acceptor sequence of human Fcgamma receptor III (CD16b). We show here that genetically modified cytokines are all well expressed on 293 producer cells. However, only molecules equipped with GPI anchors but not those linked to transmembrane/intracellular regions of type I membrane proteins are efficiently targeted to lipid rafts and consequently to virus-like particles (VLP) induced by Moloney murine leukemia virus Gag-Pol. hIL-4::GPI and hGM-CSF::GPI coexpressed on VLP were found to differentiate monocytes towards dendritic cells. Apart from myeloid-committed cell types, VLP-bound cytokines also act efficiently on lymphocytes. hIL-2::GPI strongly costimulated T-cell receptor (TCR)/CD3 dependent T-cell activation in vitro and mIL-2::GPI-coactivated antigen-specific T cells in vivo. On a molar basis, the functional activity of VLP-bound hIL-2::GPI was found to be comparable to that of soluble hIL-2. VLP decorated with hIL-2::GPI and coexpressing a TCR/CD3 ligand have an IL-2-specific activity of 5 x 10(4) units/mg protein. Virus particles decorated with lipid-modified cytokines might help to improve viral strains for vaccination purposes, the propagation of factor-dependent cell types, as well as gene transfer by viral systems in the future.
Artificial Sweeteners — Enhancing Glycosylation to Treat Muscular Dystrophies (2004)

Several congenital forms of muscular dystrophy are caused by mutations of glycosyltransferase genes. A recent study shows that overexpression of a specific glycosyltransferase compensates for the deficits produced by other mutant glycosyltransferases, raising the hope that a single therapy could be used to treat different forms of the disorder.
Screening for breast cancer (1990)

Dr MacDonald's concern is well known, but it was not one which was shared by his colleagues at the time of the working group's report. Our recommendations for single-view mammography for the basic screen and an interval for screening of 3 years were based on the facts then available.
Synthesis of Alumina Nanofibers and Composites (2010)

Alumina, Al 2 O 3 , is a ceramic metal oxide of great importance as building material, refractory material, electrical and heat insulator, attributed to its high strength, corrosion resistance, chemical stability, low thermal conductivity, and good electrical insulation. One phase of alumina, the -phase is widely used as catalyst, catalyst support and adsorbent because its high porosity and surface area. It is conventionally prepared by heating the hydrated trihydroxides, gibbsite and bayerite, to temperature of > 1000 o C to obtain the -alumina, corundum, a material with great hardness and low surface area. The trihydroxides, gibbsite, bayerite, both are Al(OH) 3. nH 2 O and the monohydroxyl oxide, boehmite, AlO(OH)H 2 O, have the monoclinic crystal structure with similar lattice parameters (a=0.866 nm, b=0.506 nm, c=0.983 nm, =9434 in boehmite, a=0.868 nm, b=0.507 nm, c=0.972 nm, =9434 in gibbsite, and a=0.867 nm, b=0.506 nm, c=0.942 nm, =9026 in bayerite [1, 2]. In the process of heat treatment, the trihydroxide undergoes a series of transformations. It loses the water of hydration, then dehydroxalate at < 300 o C to form the monohydroxyl oxide boehmite, AlO(OH), which on further heating to increasingly higher temperatures, changes to the transition aluminas, including the -, -, -, and -phases, which then transform finally to the -form. These transition aluminas are crystalline solids with high porosity and surface areas as well as acidic and basic properties, which make them suitable as adsorbents, catalyst, catalyst support and fabricated into filtration membranes as well as used as fillers or components in polymer/ inorganic composite materials with enhanced mechanical properties. The conventional alumina as obtained are usually powder of particulates. These could be fabricated into alumina fibers by various method, through melt growth techniques including the internal crystallization method and extrusion, electrospraying [3] and electrospinning The high surface areas of transition aluminas are due to the presence of pores. These pores are irregular in sizes and size distributions, and are mainly micropores of diameter less than 2 nm. Since the synthesis of mesoporous materials was first reported in the late 1980s , a number of methods for the synthesis of mesoporous alumina have been reported More recently, interest in nano-materials and nanotechnology has spurred a fury of investigations
A COMPARATIVE STUDY OF GASES GENERATED FROM SIMULANT THERMAL DEGRADATION OF AUTOTROPHIC AND HETEROTROPHIC Chlorella (1992)

Both autotrophically growing Chlorella cells with chlorophyll and heterotrophically growing Chlorella cells without chlorophyll have been obtained by cell culture through controlling the supply of or- ganic and inorganic carbon and nitrogen.The content of protein in the cells of autotrophic algae is 5 times as high as that in the cells of heterotrophic algae.On the contrary,the content of crude lipid in the latter is 4.4 times as high as that in the former.The gas productive rate of autotrophic algal cells is a little bit higher than that of heterotrophic algal cells,and the gases mainly contain CO_2,while the heterotrophic algal cells produce hydrocarbon gas at a much higher rate.With the rise of temperature, both kinds of cells display the rapid drop in the acid/alkane ratio of the gas components.Their ratios of normal and isomeric alkanes are all above 1.The ratio of ethane to ethyleme increases regularly with the rising temperature.Therefore,it may be taken as one of the indexes for identifying the maturity of such natural gases.In particular,the comparative study has revealed that the actual potential of microplanktonic algae in producing oil and natural gas should be much greater than what people have recognized before.
Investigation of Aging Processes of Ti-6Al-4 V Powder Material in Laser Melting (2012)

Laser melting of titanium material, e.g. Ti-6Al-4 V, offers great potential in manufacturing automotive components, lightweight structures and medical implants. In order to achieve required mechanical properties of laser melted components quality of powder materials is essential. Unmelted powder is recycled and reused in a subsequent process. Due to repeated recycling it is suggested that powder material changes. In this paper aging processes of Ti-6Al-4 V powder are studied. It was observed that powder particles coarsen and flowability increases. Comparing examined powder characteristics to bulk material properties it was noticed that there are significant effects of aged powder on laser melted components.
The Kinetic Mechanism of the Human Bifunctional Enzyme ATIC (5-Amino-4-imidazolecarboxamide Ribonucleotide Transformylase/Inosine 5′-Monophosphate Cyclohydrolase) (2002)

5-Amino-4-imidazolecarboxamide ribonucleotide transformylase/IMP cyclohydrolase (ATIC) is a bifunctional protein possessing two enzymatic activities that sequentially catalyze the last two steps in the pathway for de novo synthesis of inosine 5'-monophosphate. This bifunctional enzyme is of particular interest because of its potential as a chemotherapeutic target. Furthermore, these two catalytic activities reside on the same protein throughout all of nature, raising the question of whether there is some kinetic advantage to the bifunctionality. Rapid chemical quench, stopped-flow absorbance, and steady-state kinetic techniques were used to elucidate the complete kinetic mechanism of human ATIC. The kinetic simulation program KINSIM was used to model the kinetic data obtained in this study. The detailed kinetic analysis, in combination with kinetic simulations, provided the following key features of the enzyme reaction pathway. 1) The rate-limiting step in the overall reaction (2.9 +/- 0.4 s(-1)) is likely the release of tetrahydrofolate from the formyltransferase active site or a conformational change associated with tetrahydrofolate release. 2) The rate of the reverse transformylase reaction (6.7 s(-1)) is approximately 2-3-fold faster than the forward rate (2.9 s(-1)), whereas the cyclohydrolase reaction is essentially unidirectional in the forward sense. The cyclohydrolase reaction thus draws the overall bifunctional reaction toward the production of inosine monophosphate. 3) There was no kinetic evidence of substrate channeling of the intermediate, the formylaminoimidazole carboxamide ribonucleotide, between the formyltransferase and the cyclohydrolase active sites.
Crystal structure of human cytomegalovirus IL-10 bound to soluble human IL-10R1 (2002)

Human IL-10 (hIL-10) modulates critical immune and inflammatory responses by way of interactions with its high- (IL-10R1) and low-affinity (IL-10R2) cell surface receptors. Human cytomegalovirus exploits the IL-10 signaling pathway by expressing a functional viral IL-10 homolog (cmvIL-10), which shares only 27% sequence identity with hIL-10 yet signals through IL-10R1 and IL-10R2. To define the molecular basis of this virus-host interaction, we determined the 2.7-A crystal structure of cmvIL-10 bound to the extracellular fragment of IL-10R1 (sIL-10R1). The structure reveals cmvIL-10 forms a disulfide-linked homodimer that binds two sIL-10R1 molecules. Although cmvIL-10 and hIL-10 share similar intertwined topologies and sIL-10R1 binding sites, their respective interdomain angles differ by approximately 40 degrees. This difference results in a striking re-organization of the IL-10R1s in the putative cell surface complex. Solution binding studies show cmvIL-10 and hIL-10 share essentially identical affinities for sIL-10R1 whereas the Epstein-Barr virus IL-10 homolog (ebvIL-10), whose structure is highly similar to hIL-10, exhibits a approximately 20-fold reduction in sIL-10R1 affinity. Our results suggest cmvIL-10 and ebvIL-10 have evolved different molecular mechanisms to engage the IL-10 receptors that ultimately enhance the respective ability of their virus to escape immune detection.
Combinations of recombinant colony-stimulating factors are required for optimal hematopoietic differentiation in serum-deprived culture (1989)

Previous in vitro investigations on enriched human hematopoietic progenitors have led to the conclusion that the purified recombinant multipoietins, interleukin 3 (IL-3) and granulocyte-macrophage colony- stimulating factor (GM-CSF) can alone induce the formation of colonies from a variety of multipotent and lineage committed progenitors. Since fetal calf serum was included in these cultures and itself might contain growth factors or other cofactors, we re-examined the actions of the CSFs in serum-deprived conditions. Results show that both the multipoietins are inadequate stimuli of colony formation. At maximal concentrations IL-3 alone induces only 25% of the granulocyte and macrophage colony-forming units (CFU-G and CFU-M) produced by a T-cell conditioned medium that contains a mixture of CSFs. When IL-3 was added at the initiation of the cultures and erythropoietin (ep), G-CSF, or M- CSF added on day 3, almost full recovery of erythroid, granulocytic, and monocytic colonies, respectively, was obtained. Similar results were obtained with GM-CSF except that fewer erythroid colonies were recovered at high concentrations, and almost maximal CFU-M proliferation could be induced. These results show that in serum- deprived conditions, the multipoietins must be combined with lineage specific CSFs for full progenitor expression.
RNA Virus Evolution via a Fitness-Space Model (1996)

We present a mean-field theory for the evolution of RNA virus populations. The theory operates with a distribution of the population in a one-dimensional fitness space, and is valid for sufficiently smooth fitness landscapes. Our approach explains naturally the recent experimental observation [I. S. Novella et al., Proc. Natl. Acad. Sci. U.S.A. 92, 5841--5844 (1995)] of two distinct stages in the growth of virus fitness.
High Variety of Different Simian T-Cell Leukemia Virus Type 1 Strains in Chimpanzees (Pan troglodytes verus) of the Tai National Park, Cote d'Ivoire (2004)

We found human T-cell leukemia virus type 1- and simian T-cell leukemia virus type 1 (STLV-1)-related infections in 5 of 10 chimpanzees originating from three groups of wild chimpanzees. The new virus isolates showed a surprising heterogeneity not only in comparison to STLV-1 described previously in other primate species but also between the different chimpanzee groups, within a group, or even between strains isolated from an individual animal. The interdisciplinary combination of virology, molecular epidemiology, and long-term behavioral studies suggests that the primary route of infection might be interspecies transmission from other primates, such as red colobus monkeys, that are hunted and consumed by chimpanzees.
Runtime and language support for compiling adaptive irregular programs on distributed‐memory machines (1995)

Abstract In many scientific applications, arrays containing data are indirectly indexed through indirection arrays. Such scientific applications are called irregular programs and are a distinct class of applications that require special techniques for parallelization. This paper presents a library called CHAOS, which helps users implement irregular programs on distributed‐memory message‐passing machines, such as the Paragon, Delta, CM‐5 and SP‐1. The CHAOS library provides efficient runtime primitives for distributing data and computation over processors; it supports efficient index translation mechanisms and provides users high‐level mechanisms for optimizing communication. CHAOS subsumes the previous PARTI library and supports a larger class of applications. In particular, it provides efficient support for parallelization of adaptive irregular programs where indirection arrays are modified during the course of computation. To demonstrate the efficacy of CHAOS, two challenging real‐life adaptive applications were parallelized using CHAOS primitives: a molecular dynamics code, CHARMM, and a particle‐in‐cell code, DSMC. Besides providing runtime support to users, CHAOS can also be used by compilers to automatically parallelize irregular applications. This paper demonstrates how CHAOS can be effectively used in such a framework. By embedding CHAOS primitives in the Syracuse Fortran 90D/HPF compiler, kernels taken from the CHARMM and DSMC codes have been automatically parallelized.
Substance P antagonist inhibits immediate and delayed type cutaneous hypersensitivity reactions (1991)

The role of substance P (SP) in allergic reactions of the skin was investigated. Spantide, a competitive inhibitor of SP, was injected intracutaneously into the volar aspect of the forearm prior to the following challenges: benzalkonium chloride (irritant delayed reaction), tuberculin (immunological delayed reaction), UVB irradiation, benzoic acid (non-immunological contact urticaria), different food allergens and latex (in patients with immunological contact urticaria). Only the immunological reactions of contact urticaria and the reaction to tuberculin were suppressed by the SP antagonist, indicating that SP is involved in their pathogenesis.
Structure of the Ribonucleoprotein of Influenza Virus (1972)

The ribonucleoprotein (RNP) internal components of influenza virus were separated into distinct size classes by sedimentation in glycerol gradients and examined by electron microscopy by using positive staining with uranyl acetate. The large RNP have a peak in length distribution at 90 to 110 nm, the medium, at 60 to 90 nm, and the small, at 30 to 50 nm. These lengths can be correlated with the estimated molecular weights of the ribonucleic acids contained in the various RNP size classes. The RNP structure appears to consist of a strand which is folded back on itself and coiled in a regular double-helical arrangement.
Clinical Application of Fibrin Glue in Cardiovascular Surgery (1982)

Since 1978, fibrin glue has been applied in 268 patients. The indications were: (1) sealing of woven Dacron, (2) sealing of knitted Dacron, (3) control of various bleeding sites. The "blood preclotting" and "fibrin sealing" methods were compared in 32 patients with an aortoventriculoplasty operation using Dacron patches. In the fibrin glue group there was a significant reduction in postoperative blood loss as well as a shortening of the operation time (period of protamin administration to skin closure). From the data it can be concluded that sealing woven Dacron prostheses with fibrin glue is superior to conventional blood preclotting.
Determination of the protective epitopes on the glycoproteins of Venezuelan equine encephalomyelitis virus by passive transfer of monoclonal antibodies. (1982)

We have previously characterized seven unique antigenic epitopes on the two envelope glycoproteins of the Venezuelan equine encephalomyelitis (VEE) virus vaccine strain, TC-83, by using monoclonal antibodies. The in vitro function of virus neutralization was primarily associated with one epitope on the gp56 (gp56c). To determine which epitopes were important in protecting animals from VEE infection, purified monoclonal antibodies were inoculated i.v. into 3-wk-old Swiss mice. Twenty-four hours later these animals were challenged i.p. with 100 IPLD50 of virulent VEE virus (Trinidad donkey). High-avidity anti-gp56c, anti-gp50b, anti-gp50c, and anti-gp50d monoclonal antibodies protected animals from virus challenge. Rabbit antisera to the gp56 and the gp50 glycoproteins were also effective in protecting mice from challenge with virulent VEE virus. Less antibody was needed to protect animals if the antibody was directed against the critical neutralization site. Less avid antibodies to the gp56c and gp50b epitopes demonstrated little or no protection in vivo. Protection, therefore, appeared to be a function of the passive antibody's specificity, avidity, and ability to bind to virion antigenic determinants topologically proximal to the critical neutralization site.