gebhart/patrepeval huggingface dataset:
Nuclear structure in the vicinity of shell closures far from stability (2001)

The status of experimental approach to 100Sn and 78Ni is reviewed. Revised single particle energies for neutrons are deduced for the N=Z=50 shell closure and evidence for low lying Iπ=2+ and 3− states is presented. Moderate E2 polarization charges of 0.1 e and 0.6 e are found to reproduce the experimental data when core excitation of 100Sn is properly accounted for in the shell model. For the neutron rich Ni region no conclusive evidence for an N=40 subshell is found, whereas firm evidence for the persistence of the N=50 shell at 78Ni is inferred from the existence of seniority isomers. The disappearance of this isomerism in the mid νg9/2 shell is discussed. The spectroscopy of 216Th disproves the existence of a Z=92 shell gap as predicted by some recent mean field calculations. Inversion of the πh9/2 and f7/2 orbitals at Z=90 is ascribed to the coupling of the f7/2 (and i13/2) protons to the low-lying 3− state (ℏω3=1.69 MeV).
CREEP AND DENSIFICATION DURING SINTERING OF GLASS POWDER COMPACTS: I. EFFECTS OF APPLIED STRESS AND TEMPERATURE (1985)

The simultaneous creep and densification of glass powder compacts was studied as a function of applied uniaxial stresses between 0 and 30 kPa and at temperatures between 580C and 61~ C. A strong interaction between creep and densification was observed.This type of interaction has not been found in similar experiments on polycrystalline oxide ceramics.At a fixed temperature, the observed creeP.rate, d'/dt, may be expressed as the sum of two terms, i.e. ds:/dt = pE:~ + oE:~ , where ~; and ~~are constants for a particular powder system at fixed temperature, p is the relative densification rate and o is the applied stress.For the low stresses used, the volumetric densification rate is almost independent of o.The effective viscosity for creep, n~, defined as l/ E:~ has a .;;trongexponential dependence on porosity, P, and may be expressed as nc = exp(-11.2P).If the effective viscosities for creep and densification are the same, then the sintering stress, I , may be evaluated.I reaches a maximum at p -0.82 then decreases at higher values of p.For a constant applied stress, the ratio of the creep rate to the densification rate is independent of temperature.This indicates that both creep and densification in glass powder compacts have th~ same temperature activation energy.
Combinatorial-Designed Epidermal Growth Factor Receptor-Targeted Chitosan Nanoparticles for Encapsulation and Delivery of Lipid-Modified Platinum Derivatives in Wild-Type and Resistant Non-Small-Cell Lung Cancer Cells (2015)

Development of efficient and versatile drug delivery platforms to overcome the physical and biological challenges in cancer therapeutics is an area of great interest, and novel materials are actively sought for such applications. Recent strides in polymer science have led to a combinatorial approach for generating a library of materials with different functional identities that can be "mixed and matched" to attain desired characteristics of a delivery vector. We have applied the combinatorial design to chitosan (CS), where the polymer backbone has been modified with polyethylene glycol, epidermal growth factor receptor-binding peptide, and lipid derivatives of varying chain length to encapsulate hydrophobic drugs. Cisplatin, cis-([PtCl2(NH3)2]), is one of the most potent chemotherapy drugs broadly administered for cancer treatment. Cisplatin is a hydrophilic drug, and in order for it to be encapsulated in the developed nanosystems, it was modified with lipids of varying chain length. The library of four CS derivatives and six platinum derivatives was self-assembled in aqueous medium and evaluated for physicochemical characteristics and cytotoxic effects in platinum-sensitive and -resistant lung cancer cells. The results show that the lipid-modified platinate encapsulation into CS nanoparticles significantly improved cellular cytotoxicity of the drug. In this work, we have also reinforced the idea that CS is a multifaceted system that can be as successful in delivering small molecules as it has been as a nucleic acids carrier.
Label-free imaging of cell attachment with photonic crystal enhanced microscopy (2011)

We introduce photonic crystal enhanced microscopy (PCEM) as a label-free biosensor imaging technique capable of measuring cell surface attachment and attachment modulation. The approach uses a photonic crystal optical resonator surface incorporated into conventional microplate wells and a microscope-based detection instrument that measures shifts in the resonant coupling conditions caused by localized changes in dielectric permittivity at the cell-sensor interface. Four model systems are demonstrated for studying cancer cells, primary cardiac muscle cells, and stem cells. First, HepG2/C3 hepatic carcinoma cells were cultured and observed via PCEM in order to characterize cell adhesion in the context of growth and locomotion. Second, Panc-1 pancreatic cancer cells were used to verify that cell attachment density decreases in response to staurosporine, a drug that induces apoptosis. Third, we used PCEM to confirm the influence of integrin-mediated signaling on primary neonatal cardiomyocyte growth and development. Rounded cardiomyocytes consistently showed decreased cell attachment density as recorded via PCEM, while spreading cells exhibited greater attachment strength as well as increased contractility. Finally, PCEM was used to monitor the morphological changes and extracellular matrix remodeling of porcine adipose-derived stem cells subjected to a forced differentiation protocol. Each of these experiments yielded information regarding cell attachment density without the use of potentially cytotoxic labels, enabling study of the same cells for up to several days.
Implausibility of the vibrational theory of olfaction (2015)

The vibrational theory of olfaction assumes that electron transfer occurs across odorants at the active sites of odorant receptors (ORs), serving as a sensitive measure of odorant vibrational frequencies, ultimately leading to olfactory perception. A previous study reported that human subjects differentiated hydrogen/deuterium isotopomers (isomers with isotopic atoms) of the musk compound cyclopentadecanone as evidence supporting the theory. Here, we find no evidence for such differentiation at the molecular level. In fact, we find that the human musk-recognizing receptor, OR5AN1, identified using a heterologous OR expression system and robustly responding to cyclopentadecanone and muscone, fails to distinguish isotopomers of these compounds in vitro. Furthermore, the mouse (methylthio)methanethiol-recognizing receptor, MOR244-3, as well as other selected human and mouse ORs, responded similarly to normal, deuterated, and (13)C isotopomers of their respective ligands, paralleling our results with the musk receptor OR5AN1. These findings suggest that the proposed vibration theory does not apply to the human musk receptor OR5AN1, mouse thiol receptor MOR244-3, or other ORs examined. Also, contrary to the vibration theory predictions, muscone-d30 lacks the 1,380- to 1,550-cm(-1) IR bands claimed to be essential for musk odor. Furthermore, our theoretical analysis shows that the proposed electron transfer mechanism of the vibrational frequencies of odorants could be easily suppressed by quantum effects of nonodorant molecular vibrational modes. These and other concerns about electron transfer at ORs, together with our extensive experimental data, argue against the plausibility of the vibration theory.
ACTH induction of 3-hydroxy-3-methylglutaryl coenzyme A reductase, cholesterol biosynthesis, and steroidogenesis in primary cultures of bovine adrenocortical cells. (1986)

The current studies demonstrate that corticosteroidogenesis can be maintained by primary cultures of bovine adrenocortical cells under lipoprotein-depleted conditions. The cholesterol necessary as substrate for steroid synthesis was found to arise from de novo synthesis within these cells. Adrenocorticotropin (ACTH) increased 3-hydroxy-3-methylglutaryl coenzyme A (HMG-CoA) reductase activity 5-fold within 12 h after addition to the medium. The increase in activity apparently represented accumulation of enzyme as determined by protein blotting and immunodetection. The predominant immunodetectable species of HMG-CoA reductase from bovine adrenal cells was 97,000 daltons; no higher molecular mass species was detectable. The ACTH induction of HMG-CoA reductase activity could be prevented after inhibition of cholesterol conversion to pregnenolone with clotrimazole. These results are suggestive that ACTH increases adrenocortical cholesterol biosynthesis and HMG-CoA reductase activity after conversion of a cellular pool of cholesterol and/or oxysterol into steroid. The increased rate of cholesterol biosynthesis is then capable of maintaining ACTH-promoted steroid production. This is the first study, in vitro, to demonstrate an ACTH-promoted accumulation of HMG-CoA reductase of adrenocortical cells.
Application of ANN and ANFIS for detection of brain tumors in MRIs by using DWT and GLCM texture analysis (2018)

In this work we combine different methodologies in order to develop algorithms for Computer-Aided Diagnosis (CAD) for brain tumors from the axial plane (T2 MRI). All methods utilize texture analysis by extracting features from raw data, without post-processing, based on different techniques, such as Gray Level Co-Occurrence Matrix (GLCM), or Discrete Wavelet Transform (DWT) and different classification methods, based on ANN or ANFIS. All of our proposed methodologies are developed, validated and verified on various sub data including 65% non-healthy MRIS. The total used database consists of 202 MRIs from non-healthy patients and 18 from healthy, segmented visually by an experienced neurosurgeon. Combining different subsets of features, our best results are by using 4 GLCM features for a 4 input and two hidden layers ANN, giving sensitivity 100%, specificity 77.8% accuracy 94.3%. It is proved that the input data to train such a CAD are considered to be unbiased if the ratio between healthy/un-healthy tissue MRIs is about 35%/65%, respectively.
Genetic validation of bipolar disorder identified by automated phenotyping using electronic health records (2018)

Bipolar disorder (BD) is a heritable mood disorder characterized by episodes of mania and depression. Although genomewide association studies (GWAS) have successfully identified genetic loci contributing to BD risk, sample size has become a rate-limiting obstacle to genetic discovery. Electronic health records (EHRs) represent a vast but relatively untapped resource for high-throughput phenotyping. As part of the International Cohort Collection for Bipolar Disorder (ICCBD), we previously validated automated EHR-based phenotyping algorithms for BD against in-person diagnostic interviews (Castro et al. Am J Psychiatry 172:363-372, 2015). Here, we establish the genetic validity of these phenotypes by determining their genetic correlation with traditionally ascertained samples. Case and control algorithms were derived from structured and narrative text in the Partners Healthcare system comprising more than 4.6 million patients over 20 years. Genomewide genotype data for 3330 BD cases and 3952 controls of European ancestry were used to estimate SNP-based heritability (h<sup>2</sup><sub>g</sub>) and genetic correlation (r<sub>g</sub>) between EHR-based phenotype definitions and traditionally ascertained BD cases in GWAS by the ICCBD and Psychiatric Genomics Consortium (PGC) using LD score regression. We evaluated BD cases identified using 4 EHR-based algorithms: an NLP-based algorithm (95-NLP) and three rule-based algorithms using codified EHR with decreasing levels of stringency-"coded-strict", "coded-broad", and "coded-broad based on a single clinical encounter" (coded-broad-SV). The analytic sample comprised 862 95-NLP, 1968 coded-strict, 2581 coded-broad, 408 coded-broad-SV BD cases, and 3 952 controls. The estimated h<sup>2</sup><sub>g</sub> were 0.24 (p = 0.015), 0.09 (p = 0.064), 0.13 (p = 0.003), 0.00 (p = 0.591) for 95-NLP, coded-strict, coded-broad and coded-broad-SV BD, respectively. The h<sup>2</sup><sub>g</sub> for all EHR-based cases combined except coded-broad-SV (excluded due to 0 h<sup>2</sup><sub>g</sub>) was 0.12 (p = 0.004). These h<sup>2</sup><sub>g</sub> were lower or similar to the h<sup>2</sup><sub>g</sub> observed by the ICCBD + PGCBD (0.23, p = 3.17E-80, total N = 33,181). However, the r<sub>g</sub> between ICCBD + PGCBD and the EHR-based cases were high for 95-NLP (0.66, p = 3.69 × 10<sup>-5</sup>), coded-strict (1.00, p = 2.40 × 10<sup>-4</sup>), and coded-broad (0.74, p = 8.11 × 10<sup>-7</sup>). The r<sub>g</sub> between EHR-based BD definitions ranged from 0.90 to 0.98. These results provide the first genetic validation of automated EHR-based phenotyping for BD and suggest that this approach identifies cases that are highly genetically correlated with those ascertained through conventional methods. High throughput phenotyping using the large data resources available in EHRs represents a viable method for accelerating psychiatric genetic research.
Engineered nanofillers: impact on the morphology and properties of biomedical thermoplastic polyurethane nanocomposites (2012)

The viability of siloxane-based thermoplastic polyurethane (TPU) nanocomposites as a new insulation material for implantable and electrically active medical devices is investigated. We show that manipulating and controlling the specific interactions between the TPU segments and the engineered nanofiller greatly varies the TPU properties. The incorporation of dual modified organofluoromica as the nanofiller successfully enhanced the tensile strength, toughness and tear strength of the TPU. This is due to the presence of dual surfactants, which form regions of higher and lower surface energy on the layered silicate surface, thus enabling molecular interactions between the organofluoromica and both the hard and the soft TPU segment populations. We show that the addition of a second choline-based modifier with reactive –OH functionality may lead to the formation of positively charged TPU chain end groups as a result of trans-urethanization reactions during high temperature compounding, thus introducing labile “grip-slip-grip-slip” interactions between the TPU and the nanofiller. These molecular interactions assist in achieving a reduced level of stiffening, while at the same time enhance the toughening mechanism. The increase in the creep resistance and retardation in the stress relaxation of the TPU provides evidence that the dual modified organofluoromica also serves to enhance the dimensional stability of the TPU.
Correction to: The influence of atrial fibrillation on the levels of NT-proBNP versus GDF-15 in patients with heart failure (2020)

The original article can be found online.
Stabilization of Metastable Face-Centered Cubic Cobalt and the Tetragonal Phase of Zirconia by a Carbon Shell:  Reaction under Autogenic Pressure at Elevated Temperature of CoZr2(acac)2(OiPr)8 (2004)

Spherical Co and ZrO2 particles in the size range of 11−16 nm, exhibiting at room temperature metastable phases, fcc for cobalt and tetragonal for zirconia, were synthesized, by the reaction under autogenic pressure at elevated temperature (RAPET) technique. The tetragonal phase in ZrO2 was obtained without doping the ZrO2 with trivalent impurities. Using high-resolution transmission electron microscopy and selected area energy-dispersive X-ray analysis it is manifested that a carbon shell of ∼4 nm thickness is formed on the surface of Co and ZrO2 nanocrystallites. This carbon shell is responsible for stabilizing the high-temperature metastable phases at room temperature. These two products were obtained by the dissociation of CoZr2(acac)2(OiPr)8 at 700 °C under its autogenic pressure.
Measurements and Performance Factor Comparisons of Magnetic Materials at High Frequency (2016)

The design of power magnetic components for operation at high frequency (HF, 3-30 MHz) has been hindered by a lack of magnetic material performance data and by the limited design theory in that frequency range. To address these deficiencies, we have measured and present core loss data for a variety of commercially available magnetic materials in the HF range. In addition, we extend the theory of performance factor for appropriate use in the HF design. Since magnetic materials suitable for HF applications tend to have low permeability, we also consider the impact of low permeability on design. We conclude that, with appropriate material selection and design, increased frequencies can continue to yield improved power density well into the HF regime.
Stimulation location within the substantia nigra pars reticulata differentially modulates gait in hemiparkinsonian rats (2013)

Deep brain stimulation (DBS) improves the distal motor symptoms of Parkinson's disease, but long-term improvements in gait and postural disturbances are less pronounced. The effects of stimulation location, within the large nuclear region of the substantia nigra pars reticulata (SNr), and stimulation parameters on improvement in gait are unclear, and this lack of foundational knowledge hinders the application and optimization of SNr DBS. We quantified the effects of medial vs. lateral SNr DBS on methamphetamine-induced circling in hemiparkinsonian rats to test the hypothesis that stimulation location differentially modulates axial symptoms. The frequency tuning curves showed opposite trends with stimulation frequency; during high frequency stimulation, medial SNr DBS decreased ipsilateral circling, while lateral SNr DBS had no effect on circling. As well, we quantified the effects of 130 Hz SNr DBS on gait to test the hypothesis that SNr DBS location differentially modulates gait. High frequency DBS of the medial SNr, but not lateral SNr, improved the rat's ability to maintain walking speed. The therapeutic effects of medial SNr DBS appeared to improve with time on the same order as clinical studies (>10 min). These results suggest that improvement in gait depends on the location of the electrodes (medial vs. lateral SNr) with a time course for improvement reminiscent of human data and provide a rational basis for the appropriate selection of implant site and stimulation parameters for SNr DBS.
Electromagnetic coupling and array packing induce exchange of dominance on complex modes in 3D periodic arrays of spheres with large permittivity (2016)

We investigate the effect on wave propagation of array packing and electromagnetic coupling between spheres in a three-dimensional (3D) lattice of microspheres with large permittivity that exhibit strong magnetic polarizability. We report on the complex wavenumber of Bloch waves in the lattice when each sphere is assumed to possess both electric and magnetic dipoles and full electromagnetic coupling is accounted for. While for small material-filling fractions we always determine one dominant mode with low attenuation constant, the same does not happen for large filling fractions, when electromagnetic coupling is included. In the latter case we peculiarly observe two dominant modes with low attenuation constant, dominant in different frequency ranges. The filling fraction threshold for which two dominant modes appear varies for different metamaterial constituents, as proven by considering spheres made by either titanium dioxide or lead telluride. As further confirmation of our findings, we retrieve the complex propagation constant of the dominant mode(s) via a field fitting procedure employing two sets of waves (direct and reflected) pertaining to two distinct modes, strengthening the presence of the two distinct dominant modes for increasing filling fractions. However, given that one mode only, with transverse polarization, at any given frequency, is dominant and able to propagate inside the lattice, we are able to accurately treat the metamaterial that is known to exhibit artificial magnetism as a homogeneous material with effective parameters, such as the refractive index. Results clearly show that the account of both electric and magnetic scattering processes in evaluating all electromagnetic intersphere couplings is essential for a proper description of the electromagnetic propagation in lattices.
Lipoarabinomannan antigenic epitope differences in tuberculosis disease subtypes (2020)

An accurate urine test for diverse populations with active tuberculosis could be transformative for preventing TB deaths. Urinary liporabinomannan (LAM) testing has been previously restricted to HIV co-infected TB patients. In this study we evaluate urinary LAM in HIV negative, pediatric and adult, pulmonary and extrapulmonary tuberculosis patients. We measured 430 microbiologically confirmed pretreatment tuberculosis patients and controls from Peru, Guinea Bissau, Venezuela, Uganda and the United States using three monoclonal antibodies, MoAb1, CS35, and A194, which recognize distinct LAM epitopes, a one-sided immunoassay, and blinded cohorts. We evaluated sources of assay variability and comorbidities (HIV and diabetes). All antibodies successfully discriminated TB positive from TB negative patients. ROAUC from the average of three antibodies' responses was 0.90; 95% CI 0.87-0.93, 90% sensitivity, 73.5% specificity (80 pg/mL). MoAb1, recognizing the 5-methylthio-D-xylofuranose(MTX)-mannose(Man) cap epitope, performed the best, was less influenced by glycosuria and identified culture positive pediatric (N = 19) and extrapulmonary (N = 24) patients with high accuracy (ROAUC 0.87, 95% CI 0.77-0.98, 0.90 sensitivity 0.80 specificity at 80 pg/mL; ROAUC = 0.96, 95% CI 0.92-0.99, 96% sensitivity, 80% specificity at 82 pg/mL, respectively). The MoAb1 antibody, recognizing the MTX-Man cap epitope, is a novel analyte for active TB detection in pediatric and extrapulmonary disease.
Scalar integral diffraction methods: unification, accuracy, and comparison with a rigorous boundary element method with application to diffractive cylindrical lenses (1998)

Various integral diffraction methods are systematically unified into a single framework, clearly illustrating the interconnections among the numerous scalar and rigorous formulations. This hierarchical depiction of the integral methods makes clear the specific approximations inherent in each integral method. The scalar methods are compared in detail with a rigorous open-region formulation of the boundary element method (BEM). The rigorous BEM provides a reference method for accurately determining the diffracted fields for both TE and TM incidence. The rigorous BEM and the various scalar methods are then applied to the case of focusing of normally incident plane waves by diffractive cylindrical lenses with f-numbers ranging from f/2 to f/0.5. From the diffracted-field calculations, a number of performance metrics are determined including focal spot size, diffraction efficiency, reflected and transmitted powers, and focal-plane sidelobe power. The quantitative evaluation of the performance of the scalar methods with these metrics allows the establishment, for the first time, of the region of validity of the various scalar methods for this application. As expected, the accuracy of the scalar methods decreases as the f-number of the diffractive lenses is reduced. Additionally, some metrics, particularly the focal-plane sidelobe power, appear to be particularly sensitive to the approximations in the scalar methods, and as a result their accuracy is significantly degraded.