gebhart/patrepeval huggingface dataset:
A combination of HLA-DQ beta Asp57-negative and HLA DQ alpha Arg52 confers susceptibility to insulin-dependent diabetes mellitus. (1990)

Family and population studies indicate that predisposition to insulin-dependent (type I) diabetes mellitus (IDDM) is polygenic. It has been shown that the absence of the aspartic acid in position 57 (Asp57) of the DQ beta chain is positively correlated to IDDM. However, Asp57-negative haplotypes do not always confer susceptibility and conversely, some Asp57-positive haplotypes seem to be disease associated. It has been suggested that other HLA class II sequences, probably belonging to the HLA DQA1 gene, confer susceptibility to IDDM. This report, based on extensive oligonucleotide dot blot hybridization of PCR-amplified DQA1 and DQB1 genes, reinforces the importance of the Asp57-negative DQ beta chain, but also introduces the possibility that a DQ alpha chain bearing an arginine in position 52 (Arg52) confers susceptibility to IDDM. A molecular model of susceptibility to IDDM is proposed. This model strongly suggests that the disease susceptibility correlates quantitatively with the expression at the cell surface of a heterodimer, composed of a DQ alpha-chain bearing an Arg52 and a DQ beta chain lacking an Asp57. In view of the respective positions of the two residues and their charge, we might anticipate that both residues DQ beta Asp57 and DQ alpha Arg52 are critical for modulation of susceptibility, presumably via viral-antigenic peptide and/or autoantigen presentation.
Seashell effect pretouch sensing for robotic grasping (2012)

This paper introduces seashell effect pretouch sensing, and demonstrates application of this new sensing modality to robot grasp control, and also to robot grasp planning.
KALİTE ANLAYIŞINDA ALTI SİGMA YAKLAŞIMI (2008)

Rekabet dunyasinda, “maliyet minimizasyonu, kâr maksimizasyonu, musteri tatmini ve pazar payinin genisletilmesi” firmalarin ana hedeflerdir. 21. Yuzyilin ilk ceyreginde isletmeye bu hedeflerini gerceklestirmesinde yardimci olacak en etkin ve denenmis metotlardan biri de “alti sigma” yaklasimidir. Alti sigma, “musteriyi butun calismalarinin odak noktasina koyarak, maliyetleri azaltma, verimliligi arttirma ve kaliteli mal uretip bunu surdurmeyi amaclayan bir yonetim felsefesidir”. Bunun icin olusturdugu arac ve metotlariyla surekli surec iyilestirmesini musteri beklentilerine gore yerine getirmeyi amaclamaktadir. Calismamizin amaci, kalite anlayisinin gelisim surecinde mukemmellik dongusunu ele alarak alti sigma yaklasimini irdelemek, iyilestirme surecinin arac ve metotlarini, degisim ile sigma iliskisini ve hata/milyon firsatta hata sayisi ile sigma seviyelerini ornekler yardimiyla degerlendirmektir
Metabolic factors contributing to increased resting metabolic rate and decreased insulin-induced thermogenesis during the development of type 2 diabetes. (1999)

Previous studies have indicated that individuals with type 2 diabetes have an increased resting metabolic rate (RMR) but decreased insulin-induced thermogenesis (IIT) compared with those with normal glucose tolerance (NGT). When and by which mechanisms these abnormalities occur during the development of diabetes remain unknown. In 560 Pima Indians, sleeping metabolic rate (respiratory chamber) was higher not only in subjects with diabetes (+4.9%, P &lt; 0.001) but also in those with impaired glucose tolerance (IGT) (+2.7%, P &lt; 0.01) compared with subjects with NGT. Longitudinally, RMR (ventilated hood) increased progressively in 17 subjects in whom glucose tolerance deteriorated from NGT to IGT (+4.2%) to diabetes (+2.6%) over 5.1 +/- 1.4 years (P &lt; 0.05 for trend). In parallel, IIT (% increase in metabolic rate during an insulin/glucose infusion) decreased during the transition from NGT (11.7%) to IGT (7.3%) to diabetes (6.5%) (P &lt; 0.05 for trend). In 151 subjects, basal endogenous glucose output (3-3H-glucose), fasting insulin and free fatty acid concentrations, and glucose disposal (hyperinsulinemic clamp) were significant determinants of RMR, independent of body composition, age, and sex. Nonoxidative and oxidative glucose disposal, RMR, and fasting insulin and glucose concentrations were determinants of IIT. Differences in RMR and IIT between glucose tolerance groups decreased after adjusting for these factors. These findings indicate that increases in RMR and decreases in IIT occur early in the development of type 2 diabetes, and that both changes are related to the progressive metabolic abnormalities that occur during the development of the disease.
Identification of a Novel High Affinity Copper Transport Complex in the Fission Yeast Schizosaccharomyces pombe (2001)

Copper is an essential nutrient that serves as a co-factor for enzymes involved in critical cellular processes including energy generation, peptide hormone maturation, oxidative stress protection, and iron homeostasis. Although genes have been identified from yeast and mammals encoding a homologous subunit of a plasma membrane high affinity copper transporter, the presence of additional subunits that function as part of a copper transport complex has not been reported. We observed that ctr4(+), a previously identified copper transport protein from the fission yeast Schizosaccharomyces pombe, fails to complement bakers' yeast cells defective in high affinity copper transport and fails to be targeted to the plasma membrane. However, selection for S. pombe genes, which, when co-expressed with Ctr4, confer high affinity copper transport to S. cerevisiae cells resulted in the identification of ctr5(+). Both Ctr4 and Ctr5 are integral membrane proteins, are co-regulated by copper levels and the copper-sensing transcription factor Cuf1, physically associate in vivo, are interdependent for secretion to the plasma membrane, and are each essential for high affinity copper transport. These studies in S. pombe identify Ctr4 and Ctr5 as components of a novel eukaryotic heteromeric plasma membrane complex that is essential for high affinity copper transport.
The application of trigonometric grey prediction model to average per capita natural gas consumption of households in China (2018)

Purpose Due to high efficiency and low carbon of natural gas, the consumption of natural gas is increasing rapidly, and the prediction of natural gas consumption has become the focus. The purpose of this paper is to employ a prediction technique by combining grey prediction model and trigonometric residual modification for predicting average per capita natural gas consumption of households in China. Design/methodology/approach The GM(1,1) model is utilised to obtain the tendency term, then the generalised trigonometric model is used to catch the periodic phenomenon from the residual data of GM(1,1) model for improving predicting accuracy. Findings The case verified the view of Xie and Liu: “When the value of a is less, DGM model and GM(1,1) model can substitute each other.” The combination of the GM(1,1) and the trigonometric residual modification technique can observably improve the predicting accuracy of average per capita natural gas consumption of households in China. The mean absolute percentage errors of GM(1,1) model, DGM(1,1), unbiased grey forecasting model, and TGM model in ex post testing stage (from 2013 to 2015) are 32.5510, 33.5985, 36.9980, and 5.2996 per cent, respectively. The TGM model is suitable for the prediction of average per capita natural gas consumption of households in China. Practical implications According to the historical data of average per capita natural gas consumption of households in China, the authors construct GM(1,1) model, DGM(1,1) model, unbiased grey forecasting model, and GM(1,1) model with trigonometric residual modification. The accuracy of TGM is the best. TGM helps to improve the accuracy of GM(1,1). Originality/value This paper gives a successful practical application of grey model GM(1,1) with the trigonometric residual modification, where the cyclic variations exist in the residual series. The case demonstrates the effectiveness of trigonometric grey prediction model, which is helpful to understand the modeling mechanism of trigonometric grey prediction model.
Na<sup>+</sup>/Ca<sup>2+</sup>‐exchanger‐mediated Mn<sup>2+</sup>‐enhanced <sup>1</sup>H<sub>2</sub>O MRI in hypoxic, perfused rat myocardium (2007)

Paramagnetic Mn2+ has emerged in the search for non-invasive magnetic resonance imaging (MRI) techniques to monitor Ca2+ in diagnostic and prognostic cardiovascular disease tests because it both alters MRI contrast and behaves as a Ca2+ 'surrogate' in vivo. However, the reliance on macroscopically averaged measurements to infer microscopic processes constitutes a major limitation of MRI. This investigation circumvents this limitation and contributes an MRI-based myocardial Ca2+-transporter assay, which probes the Na+/Ca2+-exchanger involvement in Mn2+ (and presumably Ca2+) transport by virtue of its response to pharmacological inhibition. In the model employed herein, ex vivo arrested rat hearts underwent normoxia and then hypoxia while a constant (hyperkalemic) perfusion minimized flow (and uncontrolled Ca2+-channel) contributions to Mn2+-enhanced MRI measurements. The results (i) demonstrate that Mn2+ (and presumably Ca2+) accumulates via Na+/Ca2+-exchanger-mediated transport during hyperkalemic hypoxia and further, (ii) implicate hypo-perfusion (rather than the diminished participation of an isolated sarcolemmal Ca2+-transporter) as the mechanism that underlies the reported reductions of Mn2+ accumulation (relative to healthy myocardium) subsequent to myocardial insults in MRI studies. Although myriad studies have employed Mn2+-enhanced MRI in myocardial investigations, this appears to be the first attempt to assay the Na+/Ca2+-exchanger with MRI under highly circumscribed conditions. MRI-based Ca2+)transporter assays, such as the Na+/Ca2+-exchanger assay utilized here, will inevitably impact disciplines in the medical sciences and beyond.
Sol-gel technology for biomedical engineering (2005)

Sol-gel derived silica possess many promising features, including low-temperature preparation procedure, porosity, chemical and physical stability. Applications exploiting porous materials to encapsulate sensor molecules, enzymes and many other compounds, are developing rapidly. In this paper some potential applications, with emphasis on biomedical and environmental ones, are reviewed. The material preparation procedure is described and practical remarks on silica-based sol-gels are included. It is reported that sol-gels with entrapped various molecules may be used in construction of implants and coatings with bioactive properties. It is shown how to exploit the sol-gel production route for construction of sol-gel coated fiberoptic applicators for lasertherapy. The applications of bioactive materials are discussed, as well. It is demonstrated that it is possible to immobilize photosensitive compounds in sol-gel matrix without loosing their photoactivity. Some examples of sol-gel based biosensors are demonstrated, as well, showing their potential for detecting various gases, toxic substances, acidity, humidity, enzymes and biologically active agents.
Making the most of Clumping and Thresholding for polygenic scores (2019)

Abstract Polygenic prediction has the potential to contribute to precision medicine. Clumping and Thresh-olding (C+T) is a widely used method to derive polygenic scores. When using C+T, it is common to test several p-value thresholds to maximize predictive ability of the derived polygenic scores. Along with this p-value threshold, we propose to tune three other hyper-parameters for C+T. We implement an efficient way to derive thousands of different C+T polygenic scores corresponding to a grid over four hyper-parameters. For example, it takes a few hours to derive 123,200 different C+T scores for 300K individuals and 1M variants on a single node with 16 cores. We find that optimizing over these four hyper-parameters improves the predictive performance of C+T in both simulations and real data applications as compared to tuning only the p-value threshold. A particularly large increase can be noted when predicting depression status, from an AUC of 0.557 (95% CI: [0.544-0.569]) when tuning only the p-value threshold in C+T to an AUC of 0.592 (95% CI: [0.580-0.604]) when tuning all four hyper-parameters we propose for C+T. We further propose Stacked Clumping and Thresholding (SCT), a polygenic score that results from stacking all derived C+T scores. Instead of choosing one set of hyper-parameters that maximizes prediction in some training set, SCT learns an optimal linear combination of all C+T scores by using an efficient penalized regression. We apply SCT to 8 different case-control diseases in the UK biobank data and find that SCT substantially improves prediction accuracy with an average AUC increase of 0.035 over standard C+T.
Thermoreversible gelation on cooling and on heating of an aqueous gelatin–poly(N‐isopropylacrylamide) conjugate (1998)

A polymer conjugate composed of 43 wt% gelatin and 57 wt% poly(N-isopropylacrylamide) (PNIPAAm) was prepared. The dynamic viscoelastic properties of an aqueous solution of the conjugate at the concentration of 5 wt% were examined. The solution was viscous fluid at 30°C and turned into an elastic homogeneous hydrogel upon heating above 34°C or upon cooling below 10°C. The resultant hydrogels turned back into a solution at the opposite temperature cycles of the gelation. It is considered that the driving force of the gelation is the intermolecular hydrophobic interaction of PNIPAAm blocks or the intermolecular helix association of gelatin blocks, respectively, on heating or on cooling. © 1998 John Wiley & Sons, Ltd.
Epitaxial Growth of Au–Pt–Ni Nanorods for Direct High Selectivity H<sub>2</sub>O<sub>2</sub> Production (2016)

Au-Ni core-shell nanorods (NRs) and Au-Pt-Ni core-sandwich-shell NRs are synthesized and exhibit high activity for selective H<sub>2</sub> O<sub>2</sub> production via direct oxygen reduction. The epitaxial growth with coherent lattice fringes allow for the tuning of the oxygen reduction pathway. Moreover, a selectivity of 95% and mass activity of 192.9 A g<sup>-1</sup><sub>noble metal</sub> are achieved using Au-Pt-Ni NRs at 150 mV overpotential.
Amino acids within the extracellular matrix (ECM) binding region (201-218) of rat insulin-like growth factor binding protein (IGFBP)-5 are important determinants in binding IGF-I (1999)

The highly conserved N-and C-terminal domains of IGFBPs are believed to participate in IGF binding, but only recently have some of the critical residues in the IGFBP sequence involved in ligand binding been identified. Here we describe two highly conserved amino acids in the C-terminal domain of rat IGFBP-5 that are involved in binding IGF-I. Site-directed mutagenesis was used to produce two mutants, G203K and Q209A, of rIGFBP-5. Relative to wild-type rIGFBP-5, an 8-fold reduction in affinity for human IGF-I was found for recombinant G203K protein in both IGF-I ligand blots and solution phase ligand binding assays, and a 7-and 6-fold reduction for Q209A respectively. This shows that Gly203 and Gln209 in IGFBP-5 are important determinants in binding IGF-I, and due to their complete conservation in all IGFBP sequences, we suggest that they are likely to be involved in binding IGF-I in all six binding proteins. In addition, these two non-basic residues lie within the ECM binding region (201-218) of IGFBP-5, demonstrating that the C-terminus contains partially overlapping IGF-I and ECM binding sites. We therefore propose that heparin binding to basic amino acids in IGFBP-5 between 201-218 may physically occlude subsequent interaction between IGF-I and Gly203/Gln209, and that this may explain previous work of others showing reduced affinity of ECM bound IGFBP-5 for IGF-I.
Hybrid Obfuscation to Protect Against Disclosure Attacks on Embedded Microprocessors (2017)

The risk of code reverse-engineering is particularly acute for embedded processors which often have limited available resources to protect program information. Previous efforts involving code obfuscation provide some additional security against reverse- engineering of programs, but the security benefits are typically limited and not quantifiable. Hence, new approaches to code protection and creation of associated metrics are highly desirable. This paper has two main contributions. We propose the first hybrid diversification approach for protecting embedded software and we provide statistical metrics to evaluate the protection. Diversification is achieved by combining hardware obfuscation at the microarchitecture level and the use of software-level obfuscation techniques tailored to embedded systems. Both measures are based on a compiler which generates obfuscated programs, and an embedded processor implemented in an FPGA with a randomized Instruction Set Architecture (ISA) encoding to execute the hybrid obfuscated program. We employ a fine-grained, hardware-enforced access control mechanism for information exchange with the processor and hardware-assisted booby traps to actively counteract manipulation attacks. It is shown that our approach is effective against a wide variety of possible information disclosure attacks in case of a physically present adversary. Moreover, we propose a novel statistical evaluation methodology that provides a security metric for hybrid-obfuscated programs.
A polymorphism of the methionine synthase gene: association with plasma folate, vitamin B12, homocyst(e)ine, and colorectal cancer risk. (1999)

We previously reported (J. Chen et al., Cancer Res., 56: 4862-4864, 1996; J. Ma et al., Cancer Res., 57: 1098-1102, 1997) that a 5,10-methylenetetrahydrofolate reductase (MTHFR) polymorphism (677C-->T, ala-->val) was associated with lower risk of colorectal cancer. In this study, we examined the relationship of a polymorphism (2756A-->G, asp-->gly) in the gene (MTR) for methionine synthase, another important enzyme in the same folate/methionine/homocyst(e)ine metabolic pathway, with risk of colorectal cancer among 356 cases and 476 cancer-free controls. The frequency of the homozygous variant genotype (gly/gly) was slightly lower among cases (3%) than controls (5%). The odds ratio for the gly/gly genotype was 0.59 [95% confidence interval (CI), 0.27-1.27] compared with those with the homozygous wild type (asp/asp). There were no significant differences in plasma levels of folate, vitamin B12, and homocyst(e)ine (tHcy) among the MTR genotypes, in contrast to the MTHFR polymorphism. However, similar to the interaction observed for the MTHFR polymorphism among men who consumed less than 1 alcoholic drink/day, those with the gly/gly genotype had a lower risk of colorectal cancer with an odds ratio of 0.27 (95% CI, 0.09-0.81) compared with those with the asp/asp genotype. The possible association of the MTR polymorphism with lower risk of colorectal cancer especially among those with low alcohol consumption, in the same direction as for the MTHFR polymorphism, is intriguing. However, our study had limited statistical power because of the low frequency of the MTR variant genotype, which is reflected in the wide CIs. Hence, these findings need to be confirmed in larger populations.
Reflexiones en torno a pandemias de ayer y hoy. Revisitando el caso de la gripe española a propósito del coronavirus (2020)

Preguntas de la entrevista: \n1. A manera de presentación: ¿Qué tema/s ha investigado en relación con el impacto de epidemias y pandemias en nuestra región? ¿Qué lo impulsó a abordar esta temática?\n2. A la luz de su experiencia de investigación ¿qué semejanzas y qué diferencias podría señalar entre las epidemias que afectaron la región en el pasado, con la actual pandemia decovid-19?\n3. ¿Qué similitudes y qué disonancias podría señalar en relación conla forma en que los estados de la región y sus respectivas sociedades enfrentaron en el pasado sus crisis epidemiológicas y las reacciones provocadas por la actual emergencia sanitaria?\n4 .¿Cuáles son, en su opinión, los aportes más significativos que la investigación histórica sobre el impacto de epidemias y pandemias puede ofrecer en la presente coyuntura a nuestras sociedades?
Accelerated MRI-predicted brain ageing and its associations with cardiometabolic and brain disorders (2020)

Brain structure in later life reflects both influences of intrinsic aging and those of lifestyle, environment and disease. We developed a deep neural network model trained on brain MRI scans of healthy people to predict "healthy" brain age. Brain regions most informative for the prediction included the cerebellum, hippocampus, amygdala and insular cortex. We then applied this model to data from an independent group of people not stratified for health. A phenome-wide association analysis of over 1,410 traits in the UK Biobank with differences between the predicted and chronological ages for the second group identified significant associations with over 40 traits including diseases (e.g., type I and type II diabetes), disease risk factors (e.g., increased diastolic blood pressure and body mass index), and poorer cognitive function. These observations highlight relationships between brain and systemic health and have implications for understanding contributions of the latter to late life dementia risk.
Cytotoxic gold(i)-bearing dendrimers from alkyne precursors (2011)

A series of four dendrimers end-functionalized with gold(I) has been prepared from alkyne-terminated precursors and (tricyclohexylphosphine)gold(I) azide. Isolated yields range from 84–89%, based on gold. The first-generation dendrimer is cytotoxic toward 3T3 mouse fibroblast cells. Apoptosis ensues within 6 h of treatment with gold(I).
The Iron Tug-of-War between Bacterial Siderophores and Innate Immunity (2019)

Iron is necessary for the survival of almost all aerobic organisms. In the mammalian host, iron is a required cofactor for the assembly of functional iron-sulfur (Fe-S) cluster proteins, heme-binding proteins and ribonucleotide reductases that regulate various functions, including heme synthesis, oxygen transport and DNA synthesis. However, the bioavailability of iron is low due to its insolubility under aerobic conditions. Moreover, the host coordinates a nutritional immune response to restrict the accessibility of iron against potential pathogens. To counter nutritional immunity, most commensal and pathogenic bacteria synthesize and secrete small iron chelators termed siderophores. Siderophores have potent affinity for iron, which allows them to seize the essential metal from the host iron-binding proteins. To safeguard against iron thievery, the host relies upon the innate immune protein, lipocalin 2 (Lcn2), which could sequester catecholate-type siderophores and thus impede bacterial growth. However, certain bacteria are capable of outmaneuvering the host by either producing "stealth" siderophores or by expressing competitive antagonists that bind Lcn2 in lieu of siderophores. In this review, we summarize the mechanisms underlying the complex iron tug-of-war between host and bacteria with an emphasis on how host innate immunity responds to siderophores.
Assembling Fibonacci anyons from a<mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"><mml:msub><mml:mi mathvariant="double-struck">Z</mml:mi><mml:mn>3</mml:mn></mml:msub></mml:math>parafermion lattice model (2015)

Coupling arrays of extrinsic defects provides a promising avenue towards realizing exotic phases of matter. By varying the coupling between parafermionic zero modes and moving from triangular lattice to square lattice authors explore the ground states of the model and describe a method to assemble Fibonacci anyons.