gebhart/patrepeval huggingface dataset:
Current approaches to identify sections within clinical narratives from electronic health records: a systematic review (2019)

Identification of sections in EHR narratives is gaining popularity for improving clinical extraction projects. This study enabled the community working on clinical NLP to gain a formal analysis of this task, including the most successful ways to perform it.
Novel organic-inorganic chemical hybrid fillers for dental composite materials (1998)

A series of new polymethacrylate–silica chemical hybrid dental fillers has been prepared by the sol–gel reactions of poly[methyl methacrylate-co-3-(trimethoxysilyl) propyl methacrylate] or poly[3-(trimethoxysilyl)propyl methacrylate] with tetraethyl orthosilicate at various compositions. In these hybrid fillers, the polymethacrylate chains are uniformly distributed in and covalently bonded to the silica networks at molecular level without macroscopic organic–inorganic phase separation. The contact angle and surface tension parameters indicate that the hybrid fillers have better wetting properties with the 2,2-bis(p-2-hydroxy-3-methacryloxypropoxyphenyl)propane/triethyleneglycol dimethacrylate resin and stronger interfacial bonding with the polymer matrix than pure silica fillers. The compressive testing results demonstrate that the dental composites prepared with the hybrid fillers tend to have enhanced mechanical properties in comparison to those with the silane-treated fused silica and the pure sol-gel silica fillers at the same silica content. Scanning electron micrographic study reveals that upon compressive tests the dental composites with the hybrid fillers have fewer failures at the filler–matrix interface than those with pure silica fillers. © 1998 John Wiley & Sons, Inc. J Appl Polym Sci 70: 1689–1699, 1998
Characterization of an inductively coupled nitrogen-argon plasma by Langmuir probe combined with optical emission spectroscopy (2011)

The properties of low-pressure inductively coupled nitrogen-argon plasmas were investigated by using a Langmuir probe combined with optical emission spectroscopy (OES) under the conditions of pressures in the range of 1–30 mTorr and applied rf powers of 200–600 W. In the experiments, the argon was introduced as an actinometer and as an adding gas. The effect of the argon content in the gas mixture was examined in the range of 5%–80%. The electron energy probability function (EEPF), the electron density, and the electron temperature were obtained by using an rf-compensated Langmuir probe. The dissociation fractions were obtained from the OES actinometry. The electron temperature was also obtained by OES corona model and compared with that measured by the probe. The second positive and first negative systems of spectral bands from nitrogen molecules were analyzed to estimate the vibrational and rotational temperatures. The effects of the control parameters on the plasma parameters and dissociation fraction were investigated. While the calculated nitrogen atom density increased with power, it exhibited a maximum value near the Ar content of 30%.
Identification of the Antigenic Constituents of Ehrlichia chaffeensis (1994)

Ehrlichia chaffeensis, the novel etiologic agent of human ehrlichiosis in the United States, was first isolated in 1990 and reported in 1991. To analyze the antigenic components of E. chaffeensis, we cultivated these obligate intracellular bacteria in DH82 cells, purified the ehrlichiae by renografin density gradient centrifugation, and examined the antigens by Western immunoblotting. Rabbit and human antisera to E. chaffeensis revealed more than 20 bands ranging from 20 to 200 kD. The distinct 22-kD protein was heat labile. The rest of the major immunoreactive components were heat stable. The immunoblots of E. chaffeensis were highly similar when probed with antisera to E. chaffeensis, E. canis, and E. ewingii, indicating the close antigenic relationships among the three species. The 22-kD protein cross-reacted only with anti-E. canis serum. The antibody against E. sennetsu reacted strongly with the 66-, 64-, 55-, and 44-kD antigens of E. chaffeensis. The E. risticii antisera reacted strongly with the 55- and 44-kD bands but only faintly with the 66-kD band. The major immunoreactive antigens of E. chaffeensis (66, 55, and 44 kD) showed cross-reactions with all the different antisera tested. The results indicated that E. chaffeensis is antigenically most closely related to E. canis, is less closely related to E. ewingii, and is only distantly related to E. sennetsu and E. risticii.
Dihydrofolate Reductase: X-ray Structure of the Binary Complex with Methotrexate (1977)

A central eight-stranded beta-pleated sheet is the main feature of the polypeptide backbone folding in dihydrofolate reductase. The innermost four strands and two bridging helices are geometrically similar to but are connected in a different way from those in the dinucleotide binding domains found in nicotinamide-adenine dinucleotide-linked dehydrogenases. Methotrexate is bound in a 15-angstrom-deep cavity with the pteridine ring buried in a primarily hydrophobic pocket, although a strong interaction occurs between the side chain of aspartic acid 27 and N(1), N(8), and the 2-amino group of methotrexate.
NIIIP-SMART: an investigation of distributed object approaches to support MES development and deployment in a virtual enterprise (2002)

The National Industrial Information Infrastructure Protocols (NIIIP) consortium's solutions for MES adaptable replicable technology (SMART) subgroup is developing an information infrastructure to enable the integration and interoperation among manufacturing execution systems (MES) and enterprise information systems within or among enterprises. The goal of these developments is an adaptable, affordable, reconfigurable, integratable manufacturing system. Key innovative aspects of NIIIP SMART are: Design of a standards-oriented configurable object model that represents the diverse aspects of MES. Application of distributed object architecture, work-flow, events, policy rules, intelligent agents, and knowledge management technologies to implement manufacturing and business procedures and policy. Product data exchange based on standard for the exchange of product data (STEP) and EXPRESS (ISO 10303), and enterprise resource planning interaction using open application group interface specification (OAGIS) business service requests (BSR).
Acute: High-level programming language design for distributed computation (2007)

Abstract Existing languages provide good support for typeful programming of stand-alone programs. In a distributed system, however, there may be interaction between multiple instances of many distinct programs, sharing some (but not necessarily all) of their module structure, and with some instances rebuilt with new versions of certain modules as time goes on. In this paper, we discuss programming-language support for such systems, focussing on their typing and naming issues. We describe an experimental language, Acute, which extends an ML core to support distributed development, deployment, and execution, allowing type-safe interaction between separately built programs. The main features are (1) type-safe marshalling of arbitrary values; (2) type names that are generated (freshly and by hashing) to ensure that type equality tests suffice to protect the invariants of abstract types, across the entire distributed system; (3) expression-level names generated to ensure that name equality tests suffice for type safety of associated values, for example, values carried on named channels; (4) controlled dynamic rebinding of marshalled values to local resources; and (5) thunkification of threads and mutexes to support computation mobility. These features are a large part of what is needed for typeful distributed programming. They are a relatively lightweight extension of ML, should be efficiently implementable, and are expressive enough to enable a wide variety of distributed infrastructure layers to be written as simple library code above the byte-string network and persistent store APIs. This disentangles the language run-time from communication intricacies. This paper highlights the main design choices in Acute. It is supported by a full language definition (of typing, compilation, and operational semantics), by a prototype implementation, and by example distribution libraries.
Variability in Microbiological Data from a Stratified Eutrophic Lake (1980)

A survey of a stratified eutrophic lake was undertaken to determine the degree of variability in direct counts of bacteria, electron transport system activity, ATP concentration, chlorophyll a concentration and chemiluminescence, in the water column and the sediment. Heterogeneity in the horizontal and vertical dimension was studied in detail and the scale of variability was compared with within‐sample and between‐sample errors, and with seasonal fluctuations. Variability was greater in the sediment samples, and the coefficient of variation of samples taken at a single site was often as large as that between sites in a transect across the lake. Although this was not an exhaustive survey, the values provided should allow rough estimates to be made of the number of samples required to achieve a given level of precision in future investigations.
Conductance and Viscosity of Concentrated Aqueous Salt Solutions at 50.5° (1953)

Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans the biological, physical, and social sciences.
Genomic Characterization of the Human Heterotrimeric G Protein  ,  , and   Subunit Genes (2000)

Heterotrimeric guanine nucleotide binding proteins (G proteins) transduce extracellular signals received by transmembrane receptors to effector proteins. Each subunit of the G protein complex is encoded by a member of one of three corresponding gene families. Currently, 16 different members of the alpha subunit family, 5 different members of the beta subunit family, and 11 different members of the gamma subunit family have been described in mammals. Here we have identified and characterized Bacterial Artificial Chromosomes (BACs) containing the human homologs of each of the alpha, beta, and gamma subunit genes as well as a G alpha11 pseudogene and a previously undiscovered G gamma5-like gene. The gene structure and chromosome location of each gene was determined, as were the orientations of paired genes. These results provide greater insight into the evolution and functional diversity of the mammalian G protein subunit genes.
Determination of bacterial cell volume with the Coulter Counter (1986)

Two methods were used to determine mean volumes of cells of Escherichia coli B/rA in both stationary- and exponential-phase cultures, i.e., electronic measurement with a Coulter Counter-Analyzer system and biophysical measurement of the total volume and number of cells in sedimented cell pellets. Within experimental errors, the methods gave the same mean cell volumes.
The stem‐cell zone of the small intestinal epithelium. I. Evidence from paneth cells in the adult mouse (1981)

Stem cells in the small intestinal epithelium are known to differentiate into columnar, mucous, enteroendocrine, and Paneth cells. However, the site of initiation of stem-cell differentiation has been unknown. To approach this problem we determined the site of stem-cell differentiation along the Paneth cell line, using light microscopic morphometry and radioautography. The smallest Paneth cells containing the smallest granules were in positions 6 and 7, while the largest ones containing the largest granules were in positions 1 and 2 at the base of the crypt. Paneth cell death was less prevalent above position 3 than it was in position 1. Since cell size, granule size, and cell death are indicators of Paneth cell age, it was deduced that there is a gradient of Paneth cell age in the crypt base, with the oldest Paneth cells at the bottom, and the youngest at the top. After single injection or continuous infusion of 3H-thymidine, the first labeled Paneth cells to appear were the highest Paneth cells in their crypt column. Later, labeled Paneth cells became more prevalent in lower positions, and, eventually, appeared in position 1. The size of granules in labeled Paneth cells increased with time. It was concluded that Paneth cells originate in position 5 or above and then migrate downward. These results are consistent with a stem-cell zone hypothesis, which proposes that stem cells in positions 1-4 receive no inducement to differentiate. Only those stem cells that migrate up out of the stem-cell zone into position 5 will be induced and then begin to differentiate.
Infrequent Mutations of the <i>hOGG1</i> Gene, That Is Involved in the Excision of 8‐Hydroxyguanine in Damaged DNA, in Human Gastric Cancer (1998)

DNA glycosylase, encoded by the hOGG1 gene, repairs 8-hydroxyguanine (oh8Gua), which is an oxidatively damaged mutagenic base. To clarify whether the DNA repair activity of hOGG1 protein is involved in gastric carcinogenesis, we examined 9 gastric cancer cell lines and 35 primary gastric cancers for mutations and genetic polymorphisms of the hOGG1 gene by polymerase chain reaction-single strand conformation polymorphism analysis. A G-to-A transition was detected in a gastric cancer cell line, MKN1. This nucleotide change caused the conversion of the amino acid from Arg to His at codon 154, which is located in a domain highly conserved among human, mouse, and yeast OGG1 proteins. No mutation was detected in primary gastric cancers. We compared the distribution of the polymorphic alleles associated with enzymatic activity (hOGG1-Ser326 vs. hOGG1-Cys326) between 35 gastric cancer patients and 42 healthy individuals. Although the frequency of the Cys326 allele, associated with low enzymatic activity, in gastric cancer patients was a little higher than that in healthy individuals, the difference did not reach statistical significance. These results suggest that low hOGG1 activity due to mutations and genetic polymorphisms is involved in the development of only a small subset of gastric cancers.
Effect of a defined continuous-flow derived bacterial culture and dietary lactose on Salmonella typhimurium colonization in broiler chickens. (1994)

A defined bacterial culture protective against Salmonella typhimurium cecal colonization in broiler chicks was derived utilizing a continuous-flow (CF) culture apparatus. Chicks receiving the CF culture in combination with a diet containing dietary lactose were protected against cecal colonization by S. typhimurium. The culture consisted of a mixture of gram-positive and gram-negative facultative and strictly anaerobic bacteria. The isolates were identified as Enterococcus avium, two strains of Enterococcus faecalis (designated A and B), Lactococcus lactis, Lactobacillus animalis, a Lactobacillus that could not be identified to species level (designated strain CMS), Citrobacter freundii, Escherichia coli, E. fergusonii, Bifidobacterium animals, and Propionibacterium acidipropionici. Results indicated that CF cultures can be used as a tool to identify bacteria which are antagonistic to S. typhimurium in the chick cecum.
Discussion (2002)

Brown, Spencer A. Ph.D.; Rohrich, Rod J. M.D.; Chao, James J. M.D., Ph.D. Author Information
Design and implementation of a Parallel Pthread Library (PPL) with parallelism and portability (1998)

Although multi thread libraries have been implemented to provide threads—a unit of concurrent/parallel execution—at user level, there is no thread library that provides both parallelism and portability. We designed and implemented the PPL (Parallel Pthread Library) with the following two requirements in mind: (1) It should permit parallel execution according to the system, and (2) it should provide a common thread environment for many operating systems and be highly portable. We employed a multi-routine approach to realize parallelism, separating the internal structure of PPL into two parts to expedite portability: namely, a virtual processor dependent module and a virtual processor-independent module. We implemented PPL in several systems and compared its performance with other user-level threads. Furthermore, we evaluated parallelism in multi-processor systems. The results show that PPL has sufficient portability and parallelism. © 1998 Scripta Technica. Syst Comp Jpn, 29(2): 28–35, 1998
The shadow cluster concept for resource allocation and call admission in ATM-based wireless networks (1995)

This paper describes the Shadow Cluster concept, a novel idea that can be used to improve the resource allocation and the call admission procedures in wire less networks. Shadow clusters can be used to allocate resources that need to be reserved for call hand-offs, and to determine if a new call should be admitted to a wireless network based on the call's requirements and local traffic conditions.
Inhibition of HER3 activation and tumor growth with a human antibody binding to a conserved epitope formed by domain III and IV (2017)

Human epidermal growth factor receptor 3 (HER3, also known as ErbB3) has emerged as relevant target for antibody-mediated tumor therapy. Here, we describe a novel human antibody, IgG 3-43, recognizing a unique epitope formed by domain III and parts of domain IV of the extracellular region of HER3, conserved between HER3 and mouse ErbB3. An affinity of 11 nM was determined for the monovalent interaction. In the IgG format, the antibody bound recombinant bivalent HER3 with subnanomolar affinity (K<sub>D</sub> = 220 pM) and HER3-expressing tumor cells with EC<sub>50</sub> values in the low picomolar range (27 - 83 pM). The antibody competed with binding of heregulin to HER3-expressing cells, efficiently inhibited phosphorylation of HER3 as well as downstream signaling, and induced receptor internalization and degradation. Furthermore, IgG 3-43 inhibited heregulin-dependent proliferation of several HER3-positive cancer cell lines and heregulin-independent colony formation of HER2-overexpressing tumor cell lines. Importantly, inhibition of tumor growth and prolonged survival was demonstrated in a FaDu xenograft tumor model in SCID mice. These findings demonstrate that by binding to the membrane-proximal domains III and IV involved in ligand binding and receptor dimerization, IgG 3-43 efficiently inhibits activation of HER3, thereby blocking tumor cell growth both in vitro and in vivo.
Pharmacogenetic features of cathepsin B inhibitors that improve memory deficit and reduce β-amyloid related to Alzheimer's disease (2010)

Beta-amyloid (Abeta) in the brain is a major factor involved in Alzheimer's disease (AD) that results in severe memory deficit. Our recent studies demonstrate pharmacogenetic differences in the effects of inhibitors of cathepsin B to improve memory and reduce Abeta in different mouse models of AD. The inhibitors improve memory and reduce brain Abeta in mice expressing the wild-type (WT) beta-secretase site of human APP, expressed in most AD patients. However, these inhibitors have no effect in mice expressing the rare Swedish (Swe) mutant amyloid precursor protein (APP). Knockout of the cathepsin B decreased brain Abeta in mice expressing WT APP, validating cathepsin B as the target. The specificity of cathepsin B to cleave the WT beta-secretase site, but not the Swe mutant site, of APP for Abeta production explains the distinct inhibitor responses in the different AD mouse models. In contrast to cathepsin B, the BACE1 beta-secretase prefers to cleave the Swe mutant site. Discussion of BACE1 data in the field indicate that they do not preclude cathepsin B as also being a beta-secretase. Cathepsin B and BACE1 could participate jointly as beta-secretases. Significantly, the majority of AD patients express WT APP and, therefore, inhibitors of cathepsin B represent candidate drugs for AD.
Perception of structural boundaries in popular music. (2006)

The aim of this study was to examine if listeners with various amounts of musical training show consistent perception of phrase and section structure in Western popular music. A second goal was to examine if the theoretical-based rules of Lerdahl and Jackendoff’s “A Generative Theory of Tonal Music (GTTM)&quot; (1983) correspond with phrase- and section-boundary perception for subjects listening to popular music. Two experiments were conducted. In the first experiment, twenty listeners were asked to indicate segment boundaries in six popular songs by pressing a key while listening to the music. This procedure was repeated three times for each song by each listener. The notated boundaries were analyzed over all subjects and histo-grams were computed that indicate the number of indicated boundaries placed at a specific point in time. Based on these his-tograms, a number of congruent boundaries were chosen from each song. In the second experiment listeners were asked to rate these selected boundaries for their salience and to describe the boundary cues. The results of the first experiment show that, for each song, a number of boundaries were indicated by all subjects, i.e. subjects perceive the same boundaries. In addition it seems that there is no single most important underlying cue for boundary perception, but rather several cues depending on the song. Strong cues appear to be change in timbre, rest/pause, and repetition of previously heard material. The descriptions of the boundaries could be classi-fied in an ontology similar to the rules of GTTM.
New polyisobutylene‐based model elastomeric ionomers: RheoLogical behavior (1986)

Abstract The rheological behavior of sulfonated polyisobutylene based elastomeric ionomers has been studied. The effects of molecular architecture, type of cation, and addition of excess neutralization agent were investigated. The effect of temperature was studied to a limited extent. In a specific case, the influence of an ionic plasticizer, zinc stearate was also examined. It was found that in these telechelic ionomers where the ionic groups are located exclusively at the chain ends, significant Ionic interactions may persist even at 180°C. The zinc‐neutralized ionomers had the lowest viscosity as compared to the corresponding potassium‐ or calcium‐neutralized ionomers. The covalent character of zinc is believed responsible for this behavior. Other factors being constant, the triarm based ionomers are more viscous than the monofunctional ionomers. A mixture of monofunctional ionomers with the triarm, species is a model for dangling chain ends, and results in a slight lowering of the viscosity under the conditions studied. Zinc stearate acts as an ionic plasticizer. Upon the addition of 15 percent by weight of zinc‐stearate to the ionomer, the low shear rate viscosity drops by several orders of magnitude and renders the ionomer thermally processable at moderate temperatures.
Bypassing multidrug resistance in human breast cancer cells with lipid/polymer particle assemblies (2012)

The results show that this core-shell lipid/particle structure could be a promising strategy to bypass MDR.