gebhart/patrepeval huggingface dataset:
Nonculture‐based identification of bacteria in milk by protein fingerprinting (2012)

Traditional methods for bacterial identification include Gram staining, culturing, and biochemical assays for phenotypic characterization of the causative organism. These methods can be time-consuming because they require in vitro cultivation of the microorganisms. Recently, however, it has become possible to obtain chemical profiles for lipids, peptides, and proteins that are present in an intact organism, particularly now that new developments have been made for the efficient ionization of biomolecules. MS has therefore become the state-of-the-art technology for microorganism identification in microbiological clinical diagnosis. Here, we introduce an innovative sample preparation method for nonculture-based identification of bacteria in milk. The technique detects characteristic profiles of intact proteins (mostly ribosomal) with the recently introduced MALDI Sepsityper(TM) Kit followed by MALDI-MS. In combination with a dedicated bioinformatics software tool for databank matching, the method allows for almost real-time and reliable genus and species identification. We demonstrate the sensitivity of this protocol by experimentally contaminating pasteurized and homogenized whole milk samples with bacterial loads of 10(3) -10(8) colony-forming units (cfu) of laboratory strains of Escherichia coli, Enterococcus faecalis, and Staphylococcus aureus. For milk samples contaminated with a lower bacterial load (10(4) cfu mL(-1) ), bacterial identification could be performed after initial incubation at 37°C for 4 h. The sensitivity of the method may be influenced by the bacterial species and count, and therefore, it must be optimized for the specific application. The proposed use of protein markers for nonculture-based bacterial identification allows for high-throughput detection of pathogens present in milk samples. This method could therefore be useful in the veterinary practice and in the dairy industry, such as for the diagnosis of subclinical mastitis and for the sanitary monitoring of raw and processed milk products.
Determinants of the inhibition of a Taiwan habu venom metalloproteinase by its endogenous inhibitors revealed by X‐ray crystallography and synthetic inhibitor analogues (2002)

Venoms from crotalid and viperid snakes contain several peptide inhibitors which regulate the proteolytic activities of their snake-venom metalloproteinases (SVMPs) in a reversible manner under physiological conditions. In this report, we describe the high-resolution crystal structures of a SVMP, TM-3, from Taiwan habu (Trimeresurus mucrosquamatus) cocrystallized with the endogenous inhibitors pyroGlu-Asn-Trp (pENW), pyroGlu-Gln-Trp (pEQW) or pyroGlu-Lys-Trp (pEKW). The binding of inhibitors causes some of the residues around the inhibitor-binding environment of TM-3 to slightly move away from the active-site center, and displaces two metal-coordinated water molecules by the C-terminal carboxylic group of the inhibitors. This binding adopts a retro-manner principally stabilized by four possible hydrogen bonds. The Trp indole ring of the inhibitors is stacked against the imidazole of His143 in the S-1 site of the proteinase. Results from the study of synthetic inhibitor analogues showed the primary specificity of Trp residue of the inhibitors at the P-1 site, corroborating the stacking effect observed in our structures. Furthermore, we have made a detailed comparison of our structures with the binding modes of other inhibitors including batimastat, a hydroxamate inhibitor, and a barbiturate derivative. It suggests a close correlation between the inhibitory activity of an inhibitor and its ability to fill the S-1 pocket of the proteinase. Our work may provide insights into the rational design of small molecules that bind to this class of zinc-metalloproteinases.
Characteristics of Women with Endometriosis from the USA and Puerto Rico (2015)

Overall, women with endometriosis from the USA and Puerto Rico reported high rates of pain and infertility and a similar spectrum of symptoms. Those from the EA reported longer time to diagnosis, and diagnostic delays than those from the ERP, which may explain the observed increased in rates of endometriosis-related symptoms and co-morbidities in EA as compared to ERP.
Association of a Presenilin 1 S170F Mutation With a Novel Alzheimer Disease Molecular Phenotype (2007)

These findings define a new Alzheimer disease molecular phenotype and support the concept that the phenotypic variability associated with PSEN1 mutations may be dictated by the Abeta aggregates' composition.
Are Capital Structure Decisions Relevant? (2006)

The following sections are included:The Capital Structure ProblemThe Capital Structure Problem when Assets are PlaceIs Maximizing the Value of the Firm Optimal for Shareholders?Implications for Cost of Equity Capital: MM IIWhat if Assets are Not In Place?ReferencesProblems
HEMODYNAMIC RESPONSES OF QUADRIPLEGICS TO ARM, ESLEG, AND COMBINED ARM + ES-LEG ERGOMETRY (1980)

Figoni, S. F.; Glaser, R. M. FACSM; Rodgers, M. M.; Ezenwa, B. N.; Hooker, S. P.; Faghri, P. D.; Gupta, S. C. Author Information
Mouse Glucocorticoid Receptor Phosphorylation Status Influences Multiple Functions of the Receptor Protein (1997)

Although studies have shown that the mouse glucocorticoid receptor (mGR) contains eight phosphorylation sites (Bodwell, J. E., Ortí, E. , Coull, J. M., Pappin, D. J. C., Smith, L. I., and Swift, F. (1991) J. Biol. Chem. 266, 7549-7555), the effect of phosphorylation on receptor function is unclear. We have examined the consequences of single or multiple phosphorylation site mutations on several properties of mGR including receptor expression, ligand-dependent nuclear translocation, hormone-mediated transactivation, ligand-dependent down-regulation of mGR, and receptor protein half-life. Mutations had little effect on receptor expression, subcellular distribution, ligand-dependent nuclear translocation, or on the ability to activate hormone-mediated transcription from a complex (murine mammary tumor virus) promoter. In contrast, the phosphorylation status of the mGR had a profound effect on the ability to transactivate a minimal promoter containing simple glucocorticoid response elements after hormone administration. Similarly, ligand-dependent down-regulation by glucocorticoids of both receptor mRNA and protein was abrogated in mutants containing three or more phosphorylation site alterations. Finally, we show that the phosphorylation status of mGR has a profound effect on the stability of the glucocorticoid receptor protein. Receptors containing seven or eight mutated sites have a markedly extended half-life and do not show the ligand-dependent destabilization seen with wild type receptor. These data show that receptor phosphorylation may play a crucial role in regulating receptor levels and hence control receptor functions.
A NONCYCLIC NEUTRAL CARRIER EXHIBITING EXCELLENTLY Li+-SELECTIVE TRANSPORT (1986)

Abstract 3,3-Bis(8-quinolyloxymethyl)oxetane, which has been newly synthesized as a carrier in the cation transport through liquid membranes, exhibits extremely high Li+-selectivity. From the investigation of structural effect, introduction of 8-quinolyl terminal group, oxetane ring, and trimethylene chain to the structure of carrier is suggested to be important for excellent Li+-selectivity.
Helicity-selective phase-matching and quasi-phase matching of circularly polarized high-order harmonics: towards chiral attosecond pulses (2016)

Phase matching of circularly polarized high-order harmonics driven by counter-rotating bichromatic lasers was recently predicted theoretically and demonstrated experimentally. In that work, phase matching was analyzed by assuming that the total energy, spin angular momentum and linear momentum of the photons participating in the process are conserved. Here we propose a new perspective on phase matching of circularly polarized high harmonics. We derive an extended phase matching condition by requiring a new propagation matching condition between the classical vectorial bi-chromatic laser pump and harmonics fields. This allows us to include the influence of the laser pulse envelopes on phase matching. We find that the helicity dependent phase matching facilitates generation of high harmonics beams with a high degree of chirality. Indeed, we present an experimentally measured chiral spectrum that can support a train of attosecond pulses with a high degree of circular polarization. Moreover, while the degree of circularity of the most intense pulse approaches unity, all other pulses exhibit reduced circularity. This feature suggests the possibility of using a train of attosecond pulses as an isolated attosecond probe for chiral-sensitive experiments.
Geographic differences in allele frequencies of susceptibility SNPs for cardiovascular disease (2011)

Large differences in RAFs for a set of common SNPs that influence risk of cardiovascular disease were noted between the major world populations. Pairwise comparisons revealed RAF differences for at least eight SNPs that might be due to population-specific selection or demographic factors. These findings are relevant to a better understanding of geographic variation in the prevalence of cardiovascular disease.
331 Reproducibility of heat stress susceptibility and future reproductive success during heat stress in pigs (2016)

Identifying factors associated with susceptibility or resistance to heat stress (HS) is likely a prerequisite to developing mitigation strategies to improve pig reproductive efficiency. Study objectives were to determine if the HS response early in life predicts future reproductive success during HS. During phase I of the study, pre-pubertal gilts (n = 235; 78 ± 1.2 kg BW) were exposed to a TN period (24 h; 22 ± 0.5°C, 62 ± 13% RH; fed ad libitum) followed by a HS period (24 h; 30 ± 1°C, 49 ± 8% RH; fed ad libitum). Respiration rate (RR), skin temperature (TS), and rectal temperature (TR) were recorded at 16 regularly scheduled time points within each experimental period. Body weights (BW) and daily feed intake (FI) were also recorded during the experiment. Interestingly, HS TR between gilts did not explain the variation in the decrease in FI during the acute phase of HS (R2 < 0.01, P < 0.05). Also, a low proportion of variability in the severity of BW loss during HS could be explained by TR (R2 = 0.03, P < 0.05) or FI (R2 = 0.09, P < 0.01). Gilts deemed the most tolerant (T; n = 48) and susceptible (S; n = 48), as defined by their ability to maintain a minimal TR during HS, were subjected to phase II after puberty. During phase II, gilts were fed Matrix® for 14 d in TN conditions (18°C; limit fed 2.7 kg/d). Following synchronization, estrus detection and artificial insemination were conducted over a period of 9 d during cyclical and progressive HS conditions (21 to 35°C for 9 d). Gilts were slaughtered after 43–48 d of gestation in TN conditions (21°C). Fetal weight and crown-rump length were increased by 7.4 and 2.8%, respectively, in gilts classified as S compared to T (P < 0.01). Fetal count, corpus luteum count and size, and embryo survivability were not correlated with post-pubertal HS TR whereas fetal weight (R2 = 0.07) and crown-rump length (R2 = 0.07) were positively correlated with HS TR (P < 0.05). Positive correlations existed between pre-pubertal and post-pubertal HS TR (R2 = 0.40, P < 0.05). Interestingly, pre-pubertal TN TR was also correlated with post-pubertal HS TR (R2 = 0.30, P < 0.01) suggesting that pre-pubertal thermoregulatory responses to HS, despite variable between animals, were predictive of future responses to HS. Importantly, the thermoregulatory response (TR, TS, RR) and production response (decreased FI and BW) to HS appear to be only marginally related, indicating that production losses during HS are independent from the thermoregulatory response during HS. This project was supported by the National Pork Board and the Iowa Pork Producers Association.
MANAGEMENT OF COMPLEX BILIARY LEAK BY ENDOSCOPIC DRAINAGE WITH TRANSMURAL OR TRANSPAPILLARY-TRANSFISTULARY ACCESS (2019)

Biliary leak (BL) occurs often after hepatobiliary surgery. ERCP with biliary sphincterotomy and/or placement of a biliary stent or nasobiliary catheter represents the first therapeutic option. Some complex cases might resist to conventional treatment.
Evaluation of experimental vaccines for bovine viral diarrhea in bovines, ovines and guinea pigs. (2009)

The bovine viral diarrhea virus (BVDV) infection control should be based on elimination of persistently infected animals and on immunization through vaccination, to prevent fetal infection. However, the efficacy of inactivated BVDV vaccines is variable due to its low immunogenicity. This study evaluated the humoral immune response against homologous and heterologous strains of 7 inactivated BVDV vaccines, in bovines and two experimental models (ovine and guinea pig) which might be used to test candidate vaccines. Vaccines formulated with BVDV Singer, Oregon, NADL, and multivalent, induced seroconversion in the three animal models studied, reaching antibody titres higher than 2. Vaccine containing 125C -genotype 2- only induced a low antibody response in ovine, while VS-115 NCP vaccine was not immunogenic. Furthermore, bovine sera at 60 dpv presented homologous as well as heterologous antibody response, indicating a high degree of cross-reactivity among the strains studied. However, when bovine sera were tested against the Argentine field strain 00-693, they showed the lowest levels of cross-reactivity, suggesting the need of continued surveillance to identify and characterize emerging field BVDV strains. Finally, optimal correlations between bovine-ovine and bovine-guinea pig models were observed, indicating that two alternative species could replace bovines when testing the immunogenicity of BVDV candidate vaccines.
Contamination effects on optical performance for short reach 10Gb/s SFP+ transceivers (2010)

This research is to establish a modeling methodology to assess insertion loss due to contamination on a lens based, 10Gb/s, short reach Small Form-factor Pluggable (SFP+) module transceivers in multimode applications.
A 2 pole 9.6–11.7 GHz band stop filter using analog tuning RF MEMS varactors (2011)

A tunable 9.6 GHz to 11.7 GHz bandstop filter is presented. Tuning is done using RF-MEMS structures with analogical capacitance variation, from 25 fF to 225 fF [1]. The filter is a 2 pole design, based on ring resonators coupled on a 50 Ohms micro-strip transmission line. A half-wave line is arranged between the two resonators, to optimize microwave performances with a zero reflection mode, and minimizes the out of band losses. The measured performances are −35 dB of rejection at 9.6 GHz, shifting to −42 dB at 11.7 GHz. The losses below the rejected band are less than −1 dB. This device has also been measured under variable RF power and has shown handling at 6 W.
BIS Monitoring Requires Proper Electrode Placement for Optimum Performance (2003)

To the Editor: The recent study by Muncaster et al. (1) attempted to compare the performance of several electroencephalogram (EEG) measures during recovery from an opioid-based anesthetic. Unfortunately, this study used an obsolete monitor and Bispectral Index (BIS) version, and the improper electrode placement (Fp1-F7 and Fp2-F8) was not the montage utilized in previous BIS validation studies and, equally importantly, is not the montage specified by the manufacturer for derivation of the BIS calculation (2–4). Since artifact processing, feature estimation, and suppression detection methods are sensitive to electrode placement, different values may be obtained when incorrect electrode placements are used (5). In this case, the short interelectrode distance used by these investigators resulted in the very small amplitude signal resembling suppression observed in some patients. The misplacement of EEG electrodes for BIS calculation is akin to misplacing ECG electrodes for a device that estimates ST-elevation/depression within a specified ECG lead. To address this improper electrode placement issue, in 1998—5 full years ago—Aspect Medical Systems introduced specific BIS sensors to facilitate proper signal acquisition. The comparative results presented in this paper do not accurately reflect the performance of the current commercially available BIS products. Paul J. Manberg, PhD
El análogo de brasinoesteroides DI-31 varía la arquitectura de la raíz en los cultivares de interés comercial INCA LP-5 y Perla de Cuba de Oryza sativa L. (Poaceae) / The brassinosteroid analog DI-31 modify the root architecture of commercial cultivars INCA LP-5 and Perla de Cuba of Oryza sativa L. (Poaceae) (2019)

Resumen El estudio de la arquitectura de la raiz permite describir la forma y estructura del sistema radical en las plantas. Las variaciones en la misma estan condicionadas por factores ambientales, asi como hormonales. Los brasinoesteroides y sus analogos promueven el desarrollo del sistema radical, aunque no existen muchos estudios que demuestren su efecto en la arquitectura de la raiz. El objetivo de este trabajo fue evaluar el efecto del analogo de brasinoesteroide DI-31 en la arquitectura de la raiz de dos cultivares de arroz (Oryza sativa L.) cv. INCA LP-5 y Perla de Cuba. Se emplearon semillas de ambos cultivares y el analogo de brasinoesteroide DI-31. El peso de las semillas durante la toma de agua tuvo un incremento rapido durante las primeras 15 horas manteniendose estable posteriormente hasta las 30 horas, momento en que comienza la Fase III de la germinacion. No existen diferencias significativas entre los valores de porcentaje de germinacion entre los tratamientos empleados en los cultivares estudiados. Las mediciones de los parametros de la arquitectura de la raiz fueron realizadas con el programa SmartRoot de Image J. La longitud de la radicula fue significativamente mayor para el cultivar INCA LP-5 en los tratamientos con DI-31 no siendo asi para el cultivar Perla de Cuba. Se observo diferencias significativas para las variables longitud de la radicula, raices laterales y densidad de raices laterales con DI-31 para el cultivar INCA LP-5. Palabras clave: arroz, raices laterales, germinacion, imbibicion ABSTRACT The study of the root architecture allows to describe the shape and structure of the root system in plants, variations are conditioned by environmental as well as hormonal factors. The brassinosteroids and their analogues promote the development of the root system but there are not many studies about its effect on the root architecture. The aim of this work was to evaluate the effect of brassinosteroid analog DI-31 on the root architecture of two rice cultivars (Oryza sativa L.) cv. INCA LP-5 and Perla de Cuba. The water uptake of the seeds had a rapid increase during the first 15 hours, remaining stable until 30 hours, when the third phase of the germination started. There are no significant differences between the germination percentage values between the treatments used in the cultivars studied. The measurements of the root were made with the Image J SmartRoot program. The radicle length was significantly greater for the cultivar INCA LP-5 in the treatments with DI-31, but not for the cultivar Perla de Cuba. Significant differences were observed for root length, lateral root variables and lateral root density with DI-31 for INCA LP-5 cultivar. Keywords: rice, lateral roots, germination, imbibition
A New Signal Injection-based Method for Estimation of Position in Interior Permanent Magnet Synchronous Motors (2019)

Several heuristic procedures to estimate the rotor position of permanent magnet synchronous motors (PMSM) via signal injection have been reported in the literature. Using averaging theory, a framework to analyse such schemes has been recently proposed. However, to the best of our knowledge, no theoretical analysis of the performance of the conventional linear time invariant filtering methods, which are widely used as standard industrial practice, has been reported in the literature. The objective of this note is to propose a new method that, on one hand, is amenable to a rigorous theoretical analysis and, on the other hand, ensures an improved accuracy in the position estimation. An additional advantage of the new method is that it relies on the use of linear operators, implementable with simple computations. The effectiveness of the proposed scheme is assessed by experiments on an interior PMSM platform driven by a 521 V DC bus with 5-kHz PWM.
Intelligent NFC potassium measurement strip with hemolysis check in capillary blood (2018)

130 million people in Western Europe and the USA suffer from chronic cardiac degeneration or kidney insufficiency. The medical treatment requires a routine medical examination accompanied by laboratory blood analyses. This is cost-intensive for the health care system and also time consuming for the patients. This paper presents an economical, wireless sensor node solution in terms of an intelligent near field communication (NFC) potassium measurement strip (NPMS) usable in a home environment. The NPMS comprises two different electrochemical sensors for the acquisition of two parameters in capillary blood and an autonomous sense and identification grain (ASIG) for the electrical analysis, communication, and data transfer. The ASIG is equipped with an integrated amperometric and potentiostatic functionality, radio frequency identification (RFID) interface for high frequency (HF)/NFC, and has been designed using a 130 nm CMOS standard process. It facilitates the implementation of two different measurement techniques, which are necessary for the accurate determination of the potassium concentration in capillary blood, whereby the occurrence of hemolysis can be detected. This NPMS impresses with its large scale integration and is solely powered by the NFC reader device.
Community versus hospital-acquired pneumonia in patients requiring extracorporeal membrane oxygenation (2019)

Patients with CAP and HAP who received ECMO for respiratory support had similar characteristics and clinical outcomes.
Simulation and analysis of bistability in osteochondrogenesis (2014)

status: Published
Thermoreversible Gelation of Aqueous Mixtures of Pectin and Chitosan. Rheology (2003)

The synergistic interaction between pectin and chitosan in aqueous acid solution and in the gel phase has been studied by oscillatory shear measurements. Mixtures of pectin and chitosan form thermoreversible gels over a broad composition range by lowering the temperature. The value of the gelation temperature depends on the composition of the mixture, with low values for mixtures with low pectin contents. For incipient gels, a power law can describe the frequency dependence of the complex viscosity, with power law exponents close to -1. The gel evolution of pectin-chitosan mixtures upon a temperature quench below the gel point has been studied. Evidence is provided for a relation between gelation and phase separation in the process of temperature-induced gelation of pectin-chitosan mixtures. A simple model is proposed to rationalize the gelation process in these systems.