gebhart/patrepeval huggingface dataset:
Prevalence of Helicobacter pylori Infection and Histologic Gastritis in Asymptomatic Persons (1989)

We estimated the prevalences of Helicobacter pylori (formerly called Campylobacter pylori) infection and histologic gastritis in 113 asymptomatic persons, using endoscopic biopsy of the gastric antrum and corpus. Unsuspected lesions, mainly mucosal erosions, were revealed at endoscopy in 16 subjects (14 percent). Gastritis was found in 42 subjects (37 percent), of whom 36 (32 percent of the total) were found to be infected with H. pylori on the basis of hematoxylin-eosin staining. H. pylori was not found in any of the 71 subjects with normal histologic features. Gastritis and H. pylori were noted in both the antrum and corpus in 75 percent of those infected (n = 27). The prevalence of H. pylori infection increased from 10 percent (2 of 20 subjects) in those between the ages of 18 and 29, to 47 percent (7 of 15) in those between the ages of 60 and 69, but the effect of age did not reach statistical significance. The prevalence of gastritis increased significantly with advancing age. Stepwise logistic regression analysis revealed that the relative risk for H. pylori infection associated with recent (within six months) antibiotic use was 5.8 (95 percent confidence interval, 1.5 to 22.1), whereas the relative risk was 6.5 (95 percent confidence interval, 1.4 to 29.2) for those who had never used bismuth compounds. We conclude that histologic gastritis and H. pylori infection commonly occur in the stomach of apparently normal persons and increase in prevalence with advancing age. All the subjects with H. pylori infection had gastritis, suggesting a possible etiologic role for the bacterium in the histologic lesion.
Magnetism in One-Dimensional Systems—The Heisenberg Model for Infinite Spin (1964)

It is observed that the free-energy, susceptibility, and correlation functions for a linear chain of N spins with nearest-neighbor isotropic Heisenberg coupling can be calculated explicitly in the (classical) limit of infinite spin. The results are compared briefly with those for Ising and Heisenberg chains of spin 12.
Topological Orientation of Acyl-CoA:Diacylglycerol Acyltransferase-1 (DGAT1) and Identification of a Putative Active Site Histidine and the Role of the N Terminus in Dimer/Tetramer Formation (2010)

Acyl CoA:diacylglycerol acyltransferase (DGAT) is an integral membrane protein of the endoplasmic reticulum that catalyzes the synthesis of triacylglycerols. Two DGAT enzymes have been identified (DGAT1 and DGAT2) with unique roles in lipid metabolism. DGAT1 is a multifunctional acyltransferase capable of synthesizing diacylglycerol, retinyl, and wax esters in addition to triacylglycerol. Here, we report the membrane topology for murine DGAT1 using protease protections assays and indirect immunofluorescence in conjunction with selective permeabilization of cellular membranes. Topology models based on prediction algorithms suggested that DGAT1 had eight transmembrane domains. In contrast, our data indicate that DGAT1 has three transmembrane domains with the N terminus oriented toward the cytosol. The C-terminal region of DGAT1, which accounts for ∼50% of the protein, is present in the endoplasmic reticulum lumen and contains a highly conserved histidine residue (His-426) that may be part of the active site. Mutagenesis of His-426 to alanine impaired the ability of DGAT1 to synthesize triacylglycerols as well as retinyl and wax esters in an in vitro acyltransferase assay. Finally, we show that the N-terminal domain of DGAT1 is not required for the catalytic activity of DGAT1 but, instead, may be involved in regulating enzyme activity and dimer/tetramer formation.
Superior Efficacy of Phosphoplatins: Novel Non‐DNA‐Binding Platinum Drugs for Human Ovarian Cancer (2010)

Platinum (Pt) drugs are effectively used as cancer chemotherapy. These drugs form intra‐ and inter‐strand Pt‐DNA cross links leading to transcription inhibition process leading to cell death. Over 10% patients develop resistance to Pt drugs mainly due to the efficient removal of Pt from DNA by NER enzyme. The new class of Pt‐(II) and ‐(IV) pyrophosphato complexes developed in our laboratory, exhibit superior tumor‐specific toxicity and higher efficacy in human ovarian cancer (HOC) in vivo and head and neck cancer cell lines in vitro . Their mechanism of cytotoxicity does not involve covalent binding of Pt to DNA, but rather activate the Fas receptor signaling pathway leading to cell death. Clonogenic assay demonstrated that the phosphoplatins are more effective towards both cisplatin (CP)‐sensitive and ‐resistant HOC cell lines at lower concentrations as compared to CP and carboplatin (CR). In vivo studies in SCID mice, exhibit superior tumor regression and reduced toxicity of HOC compared to CP and CR. Apoptosis was established as the primary mechanism of cytotoxicity by cell cycle analysis and induced by activating cell‐surface receptors genes targeted towards cancer cells. Superior pharmacokinetic properties, reduced toxicity, better efficacy, ability to overcome CP‐resistant and activation of apoptotic genes make phosphaplatins the promising next generation of anticancer drugs.
The underlying mechanism for the PARP and BRCA synthetic lethality: Clearing up the misunderstandings (2011)

Poly (ADP-ribose) polymerase (PARP) inhibitors effectively kill tumours defective in the BRCA1 or BRCA2 genes through the concept of synthetic lethality. It is suggested that PARP inhibitors cause an increase in DNA single-strand breaks (SSBs), which are converted during replication to irreparable toxic DNA double-strand breaks (DSBs) in BRCA1/2 defective cells. There are a number of recent reports challenging this model. Here, alternative models that are not mutually exclusive are presented to explain the synthetic lethality between BRCA1/2 and PARP inhibitors. One such model proposes that PARP inhibition causes PARP-1 to be trapped onto DNA repair intermediates, especially during base excision repair. This may in turn cause obstruction to replication forks, which require BRCA-dependent homologous recombination to be resolved. In another model, PARP is directly involved in catalysing replication repair in a distinct pathway from homologous recombination. Experimental evidence supporting these novel models to explain the PARP-BRCA synthetic lethality are discussed.
An analysis of database workload performance on simultaneous multithreaded processors (1998)

Simultaneous multithreading (SMT) is an architectural technique in which the processor issues multiple instructions from multiple threads each cycle. While SMT has been shown to be effective on scientific workloads, its performance on database systems is still an open question. In particular, database systems have poor cache performance, and the addition of multithreading has the potential to exacerbate cache conflicts.This paper examines database performance on SMT processors using traces of the Oracle database management system. Our research makes three contributions. First, it characterizes the memory-system behavior of database systems running on-line transaction processing and decision support system workloads. Our data show that while DBMS workloads have large memory footprints, there is substantial data reuse in a small, cacheable critical working set. Second, we show that the additional data cache conflicts caused by simultaneous multithreaded instruction scheduling can be nearly eliminated by the proper choice of software-directed policies for virtual-to-physical page mapping and per-process address offsetting. Our results demonstrate that with the best policy choices, D-cache miss rates on an 8-context SMT are roughly equivalent to those on a single-threaded superscalar. Multithreading also leads to better interthread instruction cache sharing, reducing I-cache miss rates by up to 35%. Third, we show that SMT's latency tolerance is highly effective for database applications. For example, using a memory-intensive OLTP workload, an 8-context SMT processor achieves a 3-fold increase in instruction throughput over a single-threaded superscalar with similar resources.
Effect of Tacticity on the Dilute Solution Coil Dimensions of Poly(α-olefin)s (2005)

ADVERTISEMENT RETURN TO ISSUEPREVNoteNEXTEffect of Tacticity on the Dilute Solution Coil Dimensions of Poly(α-olefin)sPatrick Brant, Charles J. Ruff, and Thomas SunView Author Information ExxonMobil Chemical Company, Baytown Technology and Engineering Complex, Baytown, Texas 77520 Cite this: Macromolecules 2005, 38, 16, 7181–7183Publication Date (Web):July 6, 2005Publication History Received8 March 2005Revised8 June 2005Published online6 July 2005Published inissue 1 August 2005https://pubs.acs.org/doi/10.1021/ma050496ahttps://doi.org/10.1021/ma050496abrief-reportACS PublicationsCopyright © 2005 American Chemical SocietyRequest reuse permissionsArticle Views394Altmetric-Citations13LEARN 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 SUBJECTS:Copolymers,Hydrocarbons,Polymers,Size exclusion chromatography,Thermoresponsive polymers Get e-Alerts
213Bi (α-Emitter)–Antibody Targeting of Breast Cancer Metastases in theneu-N Transgenic Mouse Model (2008)

Treatment failure in breast cancer is largely the failure to control metastatic dissemination. In this study, we investigated the efficacy of an antibody against the rat variant of HER-2/neu, labeled with the alpha-particle emitter (213)Bi to treat widespread metastases in a rat/neu transgenic mouse model of metastatic mammary carcinoma. The model manifests wide-spread dissemination of tumor cells leading to osteolytic bone lesions and liver metastases, common sites of clinical metastases. The maximum tolerated dose was 120 muCi of (213)Bi-7.16.4. The kinetics of marrow suppression and subsequent recovery were determined. Three days after left cardiac ventricular injection of 10(5) rat HER-2/neu--expressing syngeneic tumor cells, neu-N mice were treated with (a) 120 muCi (213)Bi-7.16.4, (b) 90 muCi (213)Bi-7.16.4, (c) 120 muCi (213)Bi-Rituximab (unreactive control), and (d) unlabeled 7.16.4. Treatment with 120 muCi (213)Bi-7.16.4 increased median survival time to 41 days compared with 28 days for the untreated controls (P < 0.0001); corresponding median survival times for groups b, c, and d were 36 (P < 0.001), 31 (P < 0.01), and 33 (P = 0.05) days, respectively. Median survival relative to controls was not significantly improved in mice injected with 10-fold less cells or with multiple courses of treatment. We concluded that alpha-emitter (213)Bi-labeled monoclonal antibody targeting the HER-2/neu antigen was effective in treating early-stage HER-2/neu--expressing micrometastases. Analysis of the results suggests that further gains in efficacy may require higher specific activity constructs or target antigens that are more highly expressed on tumor cells.
Enhanced detection of intracellular organism of swine proliferative enteritis, ileal symbiont intracellularis, in feces by polymerase chain reaction (1993)

A sensitive assay based on amplification of a 319-bp DNA fragment of the intracellular bacterium of swine proliferative enteritis was developed for the detection of the organism in the feces of swine. A vernacular name, ileal symbiont intracellularis (IS-intracellularis), has recently been published for the intracellular bacterium, which was formerly known as a Campylobacter-like organism (C.J. Gebhart, S.M. Barnes, S. McOrist, G.F. Lin, and G.H.K. Larson, Int. J. Syst. Bacteriol. 43:533-538, 1993). As few as 10(1) IS-intracellularis organisms purified from intestinal mucosa, or 10(3) IS-intracellularis per g of feces, were detected. No amplification product was produced from a polymerase chain reaction performed on DNA extracted from the feces of healthy pigs. A 319-bp DNA fragment specific for IS-intracellularis was produced on amplification of DNA from the feces of pigs with experimental and naturally occurring proliferative enteritis.
Chromablur (2017)

Computer-graphics engineers and vision scientists want to generate images that reproduce realistic depth-dependent blur. Current rendering algorithms take into account scene geometry, aperture size, and focal distance, and they produce photorealistic imagery as with a high-quality camera. But to create immersive experiences, rendering algorithms should aim instead for perceptual realism. In so doing, they should take into account the significant optical aberrations of the human eye. We developed a method that, by incorporating some of those aberrations, yields displayed images that produce retinal images much closer to the ones that occur in natural viewing. In particular, we create displayed images taking the eye's chromatic aberration into account. This produces different chromatic effects in the retinal image for objects farther or nearer than current focus. We call the method ChromaBlur. We conducted two experiments that illustrate the benefits of ChromaBlur. One showed that accommodation (eye focusing) is driven quite effectively when ChromaBlur is used and that accommodation is not driven at all when conventional methods are used. The second showed that perceived depth and realism are greater with imagery created by ChromaBlur than in imagery created conventionally. ChromaBlur can be coupled with focus-adjustable lenses and gaze tracking to reproduce the natural relationship between accommodation and blur in HMDs and other immersive devices. It may thereby minimize the adverse effects of vergence-accommodation conflicts.
Major histocompatibility complex determinants select T-cell receptor alpha chain variable region dominance in a peptide-specific response. (1992)

Dominant expression of T-cell receptor (TCR) alpha or beta chain variable region (V alpha or V beta) gene families has been observed in the T-cell response to some conventional peptide antigens. Current models for the interaction of TCR V region elements with different determinants of a major histocompatibility complex (MHC)-peptide complex, the normal TCR ligand, suggest that the TCR V-J junctional region (CDR3, where J is joining) is the primary contact with a peptide epitope and that other TCR V region segments may interact directly with neighboring MHC determinants. This suggests that V alpha or V beta dominance in a specific response can be MHC-selected. In this case, if related peptides bind to an MHC molecule in a similar orientation, they could select for identical V alpha or V beta dominance even if they are noncrossreactive at the level of T-cell activation. We have screened for this possibility by introducing minimal conservative substitutions in a synthetic peptide, YYEELLKYYEELLK, that is presented to T cells in association with an uncommon A beta E alpha d mixed Ia isotype. We report here that the peptide variant FFEELLKFFEELLK is noncrossreactive with YYEELLKYYEELLK but appears to preserve the same MHC binding motif since T-cell responses are restricted to the same mixed A beta E alpha isotype. Although the two peptides are noncrossreactive in either direction, the same members of the V alpha 4 gene family are dominantly expressed in T cells specific for either peptide. We conclude that the similar topography of the two MHC-peptide complexes gives functional significance to a unique A beta E alpha determinant that selects for V alpha 4 dominance.
Metal–metalloporphyrin frameworks: a resurging class of functional materials (2014)

This review presents comprehensively recent progress in metal-metalloporphyrin frameworks (MMPFs) with an emphasis on versatile functionalities. Following a brief introduction of basic concepts and the potential virtues of MMPFs, we give a snapshot of the historical perspective of MMPFs since 1991. We then summarize four effective strategies implemented frequently to construct prototypal MMPFs. MMPFs represent a resurging class of promising functional materials, highlighted with diverse applications including guest-molecule adsorption and separation, catalysis, nano-thin films and light-harvesting.
Lessons from a class on handheld augmented reality game design (2009)

This paper describes the structure, format, and outcome of an experimental class in Handheld Augmented Reality Game Design conducted as an inter-institutional collaboration between the Georgia Institute of Technology and Savannah College of Art and Design. It analyzes several unique elements of the class, especially the need for rapid prototyping of multiple games when exploring game design using novel game technology, and highlights important issues regarding interdisciplinary collaboration and mobile augmented reality gaming. The paper also discusses several approaches taken by students in completing class assignments, which suggest viable design strategies for the creation of future handheld augmented reality experiences.
Linkage disequilibrium for schizophrenia at the chromosome 15q13‐14 locus of the α7‐nicotinic acetylcholine receptor subunit gene (CHRNA7) (2001)

The transmission/disequilibrium test was used for fine mapping of the linkage of schizophrenia to the chromosome 15q13-14 region, the site of a candidate gene, the α7 nicotinic acetylcholine receptor subunit gene (CHRNA7), in parent–child triads from the NIMH Schizophrenia Genetics Initiative families. This candidate gene was identified from neurobiological studies of deficits in schizophrenics of the inhibitory gating of the P50 auditory evoked potential. The neurobiological deficit was also used as a phenotype for subsequent linkage analysis. In the present study, significant genotype-wise disequilibrium (P < 0.007) was found at D15S165, a polymorphic simple sequence marker physically located within 1 mega-base of both CHRNA7 and a partially duplicated, expressed sequence that includes exons 5–10 of CHRNA7. Replication of this result was found in an additional set of families. The results support this region as a chromosomal location involved in the genetic transmission of schizophrenia. Am. J. Med. Genet. (Neuropsychiatr. Genet.) 105:20–22, 2001. © 2001 Wiley-Liss, Inc.
Incorporating 4D Seismic Data in Reservoir Simulation Models Using Ensemble Kalman Filter (2007)

Summary A method based on the ensemble Kalman filter (EnKF) for continuous model updating with respect to the combination of production data and 4D seismic data is presented. When the seismic data are given as a difference between two surveys, a combination of the ensemble Kalman filter and the ensemble Kalman smoother has to be applied. Also, special care has to be taken because of the large amount of data assimilated. Still, the method is completely recursive, with little additional cost compared to the traditional EnKF. The model system consists of a commercial reservoir simulator coupled with a rock physics and seismic modeling software. Both static variables (porosity, permeability, and rock physic parameters) and dynamic variables (saturations and pressures) may be updated continuously with time based on the information contained in the assimilated measurements. The method is applied to a synthetic model and a real field case from the North Sea. In both cases, the 4D seismic data are different variations of inverted seismic. For the synthetic case, it is shown that the introduction of seismic data gives a much better estimate of reservoir permeability. For the field case, the introduction of seismic data gives a very different permeability field than using only production data, while retaining the production match.
Mono(di)nuclear Europium(III) Complexes of Macrobi(tri)cyclic Cryptands Derived from Diazatetralactams as Luminophores in Aqueous Solution (1999)

To increase the excellent light-emitting properties of the Eu3+ ion, macrobicyclic and macrotricyclic ligands 7 – 10, incorporating a 18-membered tetralactam ring (acting as a lanthanide binding site) and a sensitizer group (2,2′-bipyridine or 2,2′-bipyridine 1,1′-dioxide moiety), were synthesized. The mononuclear and dinuclear europium cryptates derived from these ligands were isolated and characterized. Their luminescent properties and those of the corresponding cryptates containing a phenanthroline group (see 11 and 12) were examined in H2O and D2O solutions at 77 and 300 K. It results that the tetralactam moiety plays a major role in the efficient shielding of the complexed Eu3+ ion from the water environment. The cryptands incorporating the bipyridine unit are the most promising labels according to their photophysical properties (excitation maxima, emission decay lifetime, relative luminescent yield). In contrast with literature data, introduction of N-oxide groups in the bipyridine chromophore weakens the luminescence properties of the cryptate.
Taurine promotes the differentiation of a vertebrate retinal cell type in vitro (1993)

The retina offers a model system for investigating the mechanisms that control cell type determination and differentiation in the vertebrate central nervous system. Previously, rod photoreceptor development in vitro was found to require a diffusible activity released by retinal cells (D. Altshuler and C. Cepko, Development 114, 947-957, 1992). In this report, we show that retinal-cell-conditioned medium and extracts contain two separable activities that influence rod development: a > 10 kDa inhibitory activity, and a stimulatory activity that is < 1 kDa and heat stable. Taurine was found to be a component of the < 1 kDa fraction and to stimulate rod development when added to retinal cultures. Taurine was not the only rod-promoting factor in these retinal preparations, however, as conditioned medium and extracts stimulated a higher level of rod development than did taurine alone. Taurine uptake into cells could be blocked without inhibiting taurine's ability to stimulate rod development, arguing against an osmoregulatory or nutritive mechanism of action. Finally, a competitive antagonist of taurine's bioactivity was identified and shown partially to inhibit rod development in retinal explants, suggesting that taurine may normally act to stimulate rod development in the retina. These results provide evidence for three activities, one of which is taurine, that are candidate regulators of rod photoreceptor development in vivo.
Production of R-(-)-mandelic acid from mandelonitrile by Alcaligenes faecalis ATCC 8750 (1991)

R-(-)-Mandelic acid was produced from racemic mandelonitrile by Alcaligenes faecalis ATCC 8750. Ammonium acetate or L-glutamic acid as the carbon source and n-butyronitrile as the inducer in the culture medium were effective for bacterial growth and the induction of R-(-)-mandelic acid-producing activity. The R-(-)-mandelic acid formed from mandelonitrile by resting cells was present in a 100% enantiomeric excess. A. faecalis ATCC 8750 has an R-enantioselective nitrilase for mandelonitrile and an amidase for mandelamide. As R-(-)-mandelic acid was produced from racemic mandelonitrile in a yield of 91%, whereas no S-mandelonitrile was left, the S-mandelonitrile remaining in the reaction is spontaneously racemized because of the chemical equilibrium and is used as the substrate. Consequently, almost all the mandelonitrile is consumed and converted to R-(-)-mandelic acid. R-(-)-Mandelic acid was also produced when benzaldehyde plus HCN was used as the substrate.