gebhart/patrepeval huggingface dataset:
An examination of the association between psychopathy and dissimulation using the MMPI-2-RF validity scales. (2012)

This investigation sought to determine whether individuals high on psychopathic traits are better able than those low on such traits to avoid detection when feigning psychopathology in the context of a forensic psychological evaluation. Study 1 tested whether individuals high on psychopathy were better able than those low on psychopathy to avoid detection by the Minnesota Multiphasic Personality Inventory 2-Restructured Form's (MMPI-2-RF; Ben-Porath, Y. S., & Tellegen, A., 2008, Minnesota Multiphasic Personality Inventory-2 Restructured Form: Manual for administration, scoring and interpretation, Minneapolis, MN: University of Minnesota Press.) overreporting (F-r, Fp-r) and underreporting (L-r and K-r) validity scales, when undergraduate students were asked to feign good, feign bad, or respond honestly. Study 2 aimed to replicate and extend the overreporting (F-r and Fp-r) analyses in a forensic pretrial sample, in which individuals were classified as malingering or not malingering using the Structured Interview of Reported Symptoms (SIRS; Rogers, R., Bagby, R. M., & Dickens, S. E., 1992, Structured Interview of Reported Symptoms. Tampa, FL, Psychological Assessment Resources.). Combined results indicated that psychopathy did not affect the utility of the MMPI-2-RF validity scales in detecting overreporting. The underreporting analyses indicated that psychopathy did not affect the utility of L-r; however, callous-aggressive (or "meanness") psychopathy traits moderated the utility of K-r in detecting those feigning psychological adjustment, such that K-r was better able to detect individuals high on, rather than low on, psychopathy when underreporting. These results are promising in terms of evidence that individuals high on psychopathic traits are not any better than individuals low on these traits in feigning during psychological evaluations.
Molecular characterization of resistance responses of Coffea canephora "Clone 14" upon infection with Meloidogyne paranaensis (2014)

Coffee is one of the major commodities in the world and an important source of income for producing countries. However, biotic and abiotic stresses are great limiting factors to coffee yield. In Brazil, root-knot nematodes cause considerable yield reduction and the use of resistant plants is the most promising method to control Meloidogyne spp. The aim of this work was to characterize the molecular mechanisms underlining the previously identified resistance to M. paranaensis in C. canephora 'Clone 14', by means of RNAseq experiments. Differential expression was tested using RNA extracted from roots of plants from clones 14 and 22 of C. canephora, previously identified as resistant and susceptible to M. paranaensis, respectively; and grown in sand before being inoculated with the nematodes. Root samples were collected at different time points post inoculation as well as roots from an uninfected plant (negative control). The RNA was treated with DNAse and subsequently, a portion of the sample was lyophilized for RNAseq experiments and another portion kept for validation by qPCR experiments. After sequencing and chromosome data analysis, it was observed that, genes related with resistance mechanisms were greatly expressed during the last phases of nematode infection in roots of clone 14. However, the expression of genes coding for proteins directly associated to the resistance process, such as the NBS-LRR Resistance Protein or the Disease Resistance Protein (RPP1), appeared mainly expressed during the first days after infection until the 20th. A set of candidate genes for resistance to M. paranaensis was selected and are currently under validation by qPCR experiments.
A robust rotor temperature estimator for induction machines in the face of changing cooling conditions and unbalanced supply (2005)

Thermal models are often used in motor overload protection relays to predict rotor temperature. Under impaired cooling conditions, the parameters in the thermal models need to be tuned accordingly to reflect changes in the motor cooling capability. The tuning process requires accurate rotor temperature as a reference signal. This reference signal is estimated from the rotor resistance based on the equivalent circuit of the induction machine; however, it is often corrupted by noise due to the asymmetry in the power supply. A detailed analysis of the trajectories of the voltage and current space vectors in the synchronously rotating d-q reference frame is presented in this paper. The axis misalignment due to the negative sequence space vectors is identified as the major source of noise. Based on this analysis, a robust and efficient rotor temperature estimator is proposed in this paper. A digital positive sequence waveform synthesizer is designed to help align the d-axis with the positive sequence current space vector. Then, the induction machine positive sequence equivalent circuit is used to give a reliable estimate of the rotor resistance, which in turn yields the rotor temperature. This estimated temperature is subsequently used to tune the parameters of the rotor thermal model online. The proposed rotor temperature estimator is validated by experiments. The estimated rotor temperature is demonstrated to be sufficiently accurate, and is therefore appropriate to be used as a reference signal for the online tuning of the rotor thermal model parameters. The thermal model built from this reference signal is able to track the rotor temperature accurately under impaired cooling conditions.
&lt;title&gt;Experimental demonstration of a two-stage binary optical time delay system&lt;/title&gt; (1996)

The features and operation of an electro-optically switched binary optical time delay system are discussed. THe system based on polarization switching using the low cost ferro- electric liquid crystal and polarizing beam splitters provides compactness, low complexity, low insertion loss and arbitrary time delay. We present the design, component selection, fabrication, testing, and evaluation of a prototype.
Identification of MiR-205 As a MicroRNA That Is Highly Expressed in Medullary Thymic Epithelial Cells (2015)

Thymic epithelial cells (TECs) support T cell development in the thymus. Cortical thymic epithelial cells (cTECs) facilitate positive selection of developing thymocytes whereas medullary thymic epithelial cells (mTECs) facilitate the deletion of self-reactive thymocytes in order to prevent autoimmunity. The mTEC compartment is highly dynamic with continuous maturation and turnover, but the genetic regulation of these processes remains poorly understood. MicroRNAs (miRNAs) are important regulators of TEC genetic programs since miRNA-deficient TECs are severely defective. However, the individual miRNAs important for TEC maintenance and function and their mechanisms of action remain unknown. Here, we demonstrate that miR-205 is highly and preferentially expressed in mTECs during both thymic ontogeny and in the postnatal thymus. This distinct expression is suggestive of functional importance for TEC biology. Genetic ablation of miR-205 in TECs, however, neither revealed a role for miR-205 in TEC function during homeostatic conditions nor during recovery from thymic stress conditions. Thus, despite its distinct expression, miR-205 on its own is largely dispensable for mTEC biology.
Experimental and numerical study of fast gas heating and O atom production in a capillary nanosecond discharge (2014)

Peer Reviewed
Circulating CXCR5+CXCR3+PD-1lo Tfh-like cells in HIV-1 controllers with neutralizing antibody breadth (2017)

HIV-1-specific broadly neutralizing antibodies (bnAbs) typically develop in individuals with continuous high-level viral replication and increased immune activation, conditions that cannot be reproduced during prophylactic immunization. Understanding mechanisms supporting bnAb development in the absence of high-level viremia may be important for designing bnAb-inducing immunogens. Here, we show that the breadth of neutralizing antibody responses in HIV-1 controllers was associated with a relative enrichment of circulating CXCR5<sup>+</sup>CXCR3<sup>+</sup>PD-1<sup>lo</sup> CD4<sup>+</sup> T cells. These CXCR3<sup>+</sup>PD-1<sup>lo</sup> Tfh-like cells were preferentially induced in vitro by functionally superior dendritic cells from controller neutralizers, and able to secrete IL-21 and support B cells. In addition, these CXCR3<sup>+</sup>PD-1<sup>lo</sup> Tfh-like cells contained higher proportions of stem cell-like memory T cells, and upon antigenic stimulation differentiated into PD-1<sup>hi</sup> Tfh-like cells in a Notch-dependent manner. Together, these data suggest that CXCR5<sup>+</sup>CXCR3<sup>+</sup>PD-1<sup>lo</sup> cells represent a dendritic cell-primed precursor cell population for PD-1<sup>hi</sup> Tfh-like cells that may contribute to the generation of bnAbs in the absence of high-level viremia.
Analytical validation of an immunoassay for the quantification of N-terminal pro–B-type natriuretic peptide in feline blood (2015)

The measurement of N-terminal pro-B-type natriuretic peptide (NT-proBNP), a biomarker for heart stress detectable in blood, has been shown to have clinical utility in cats with heart disease. A second-generation feline enzyme-linked immunosorbent assay (Cardiopet® proBNP, IDEXX Laboratories Inc., Westbrook, Maine) was developed to measure NT-proBNP in routine feline plasma or serum samples with improved analyte stability. Results of the analytical validation for the second-generation assay are presented. Analytic sensitivity was 10 pmol/l. Accuracy of 103.5% was determined via serial dilutions of 6 plasma samples. Coefficients of variation for intra-assay, interassay, and total precision were in the ranges of 1.6-6.3%, 4.3-8.8%, and 10.1-15.1%, respectively. Repeatability across 2 lots for both serum and plasma had an average coefficient of determination (r(2)) of 0.99 and slope of 1.11. Stability of the analyte was found to be high. In serum samples held at 4°C for 24-72 hr, the mean percent recovery from time zero was ≥99%. In serum samples held at 25°C for 24 hr, the mean percent recovery from time zero was 91.9%, and for 48 hr, 85.6%. A method comparison of the first- and second-generation assays with a clinically characterized population of cats revealed no difference in the tests' ability to differentiate levels of NT-proBNP between normal cats and cats with occult cardiomyopathy (P < 0.001). Results from our study validate that the second-generation feline Cardiopet proBNP assay can measure NT-proBNP in routine feline plasma and serum samples with accuracy and precision.
Sialadenitis in the MRL-l mouse: morphological and immunohistochemical characterization of resident and infiltrating cells. (1987)

The MRL-lpr/lpr (MRL/l) mouse spontaneously develops an autoimmune disease associated with various rheumatic manifestations. We have studied the histological features of sialadenitis and utilized an immunohistochemical staining technique on frozen tissue sections to analyse the cellular composition of the salivary glands at varying stages of disease. Semiquantitative assessment of the infiltration disclosed a focal inflammation which started at 2 months of age and was progressive until 5 months of age in submandibular glands. A high frequency of Ly-1 and L3T4-positive cells was observed at all stages of sialadenitis, whereas Lyt-2 positive cells were found at a lower frequency. Ia expression was seen on a large proportion of the infiltrating cells and also on ductal and glandular epithelial cells in the vicinity of the inflammatory lesions. The presence of Ia antigens on many inflammatory as well as resident cells and the high frequency of lymphocytes with 'helper' phenotype may indicate a perpetuated immunological activation within salivary glands.
The Research Assistant and AI in eScience (2019)

This paper was solicited as a "vision" talk for the 2019 eScience conference. It is based on my assessment of the role AI will have on eScience in the years ahead. While machine learning methods are already being well integrated into computing practice, this paper will look at another area: the role AI will play as an assistant to our daily research work.
A perspective on few-copy entanglement detection in experiments (2022)

Although the realization of useful quantum computers poses significant challenges, swift progress in emerging quantum technologies is making this goal realistically approachable. In this context, one of the essential resources is quantum entanglement, which allows for quantum computations outperforming their classical counterparts. However, the task of entanglement detection is not always straightforward for several reasons. One of the main challenges is that standardly-used methods rapidly become unfeasible when dealing with quantum states containing more than a few qubits. Typically, this is due to the fact that a vast amount of measurements is needed on many copies of the state. Generally, it is not unusual to deal with a very limited number of state copies in experimental settings - in fact, this may be the case for many large quantum systems. In this article, an overview is provided of a probabilistic approach that enables high-confidence genuine multipartite entanglement detection using an exceptionally low number of state copies. Additionally, a study is presented that shows that this protocol remains efficient also in the presence of noise, thus confirming the practicality of the method for near-term quantum devices and its suitability for complex experimental settings.
Diet overlap and consumption patterns suggest seasonal flux in the likelihood for exploitative competition among piscivorous fishes (2004)

Abstract – Competition, both intraspecific and interspecific, among piscivorous fishes (predators) may be more pronounced in reservoirs because of the artificial nature of these systems and the continuous anthropogenic influences that may not allow natural processes to regulate their densities. Most studies attempting to measure the extent of competition are based on predator–prey balance indices that are annual snapshots and do not account for seasonal changes. We sought to identify times during the year when intra‐ and interspecific exploitative competition for prey was most likely among dominant predators in a large reservoir of the south‐eastern United States. The possibility of interspecific competition was measured by examining the seasonal extent of diet overlap based on samples of stomach contents. The likelihood or severity of this competition was indexed by how well predators met their energy needs. We found predators were realising less of their energy requirements during spring and autumn, and diet analyses showed predators overlapped substantially in their use of prey during those seasons. Thus, exploitative competition was most likely or severe during spring and autumn; furthermore, this competition had the potential to be interspecific as evidenced by resource overlap.
Contextual occupancy maps incorporating sensor and location uncertainty (2010)

This paper describes a method of incorporating sensor and localisation uncertainty into contextual occupancy maps to provide for robust mapping. This paper builds on a recently proposed application of the Gaussian process (GP) to occupancy mapping. An extension of GPs is employed which incorporates uncertain inputs into the covariance function. In turn, this allows statistically consistent, multi-resolution maps to be constructed which exploit the spatial inference properties of GPs while correctly accounting for sensor and localisation errors. Experiments are described, with both synthetic and real data, which show the benefits of complete uncertainty modeling and how contextual occupancy maps may be constructed by fusing data from different sensors on different robots in a common probabilistic representation.
Harnessing insulin- and leptin-induced oxidation of PTP1B for therapeutic development (2018)

The protein tyrosine phosphatase PTP1B is a major regulator of glucose homeostasis and energy metabolism, and a validated target for therapeutic intervention in diabetes and obesity. Nevertheless, it is a challenging target for inhibitor development. Previously, we generated a recombinant antibody (scFv45) that recognizes selectively the oxidized, inactive conformation of PTP1B. Here, we provide a molecular basis for its interaction with reversibly oxidized PTP1B. Furthermore, we have identified a small molecule inhibitor that mimics the effects of scFv45. Our data provide proof-of-concept that stabilization of PTP1B in an inactive, oxidized conformation by small molecules can promote insulin and leptin signaling. This work illustrates a novel paradigm for inhibiting the signaling function of PTP1B that may be exploited for therapeutic intervention in diabetes and obesity.
Steady-state methods for measuring in-plane thermal conductivity of thin films for heat spreading applications (2021)

The development of high thermal conductivity thin film materials for the thermal management of electronics requires accurate and precise methods for characterizing heat spreading capability, namely, in-plane thermal conductivity. However, due to the complex nature of thin film thermal property measurements, resolving the in-plane thermal conductivity of high thermal conductivity anisotropic thin films with high accuracy is particularly challenging. Capable transient techniques exist; however, they usually measure thermal diffusivity and require heat capacity and density to deduce thermal conductivity. Here, we present an explicit uncertainty analysis framework for accurately resolving in-plane thermal conductivity via two independent steady-state thermometry techniques: particle-assisted Raman thermometry and electrical resistance thermometry. Additionally, we establish error-based criteria to determine the limiting experimental conditions that permit the simplifying assumption of one-dimensional thermal conduction to further reduce thermal analysis. We demonstrate the accuracy and precision (<5% uncertainty) of both steady-state techniques through in-plane thermal conductivity measurements of anisotropic nanocrystalline diamond thin films.
Publisher Correction: Classical and alternative complement activation on photoreceptor outer segments drives monocyte-dependent retinal atrophy (2018)

A correction to this article has been published and is linked from the HTML and PDF versions of this paper. The error has been fixed in the paper.
Genome-Wide shRNA Screen for DNA Damage Response Regulators in Human Hematopoietic Stem and Progenitor Cells (2011)

Abstract Abstract 1289 Hematopoietic stem cells due to their life-long function should protect genome integrity to avoid accumulation of genetic aberrations leading to malignant transformation or bone marrow failure. We reported recently that human HSC of cord blood origin are exquisitely sensitive to DNA damage-induced apoptosis. Thus, following 3Gy of ionizing radiation HSC show evidence of persistent DNA damage response and greater p53-dependent apoptosis in comparison with commited myeloid progenitors. To elucidate the molecular basis of these observations we carried out a genome-wide loss-of-function genetic screen using a library of 80 000 shRNA vectors targeting more than 16 000 human genes. A screen was performed on immortalized (by TLS-ERG infection) cord blood cells (TEX), which radio-sensitivity is similar to early hematopoietic cells. To find out the radio-protective hits we exposed infected cells to four rounds of 4Gy irradiation in three independent experiments. TEX cells exhibited steady increase of their proliferative potential after each irradiation exposure. Cells were gathered after each irradiation round and their DNA was subjected to sequencing to determine protective hits. Upon the analysis we recognized known regulators of DNA damage response (e.g. p53) and identified many genes that previously were not connected to genotoxic stress response. Thus, the knockdown of these genes was at least as effective as p53 knockdown in protection of TEX cells against gamma-irradiation. The validation of the chosen hits on TEX cells showed that about half of them indeed mediate the protection against irradiation. Further validation included real-time PCR of infected cells to ensure the absence of off-target effect along with Western blot analysis of affected protein. We followed up the investigation of chosen hits on primary human lineage-negative cord blood cells and observed that only few candidates were mediating the same effect on HSC/progenitors cells as on TEX cells. To further validate the effect of the most prominently effective hits we employed several shRNA vectors for the same target gene. Following this step of validation, we choose to investigate the knockdown of CHEK2, the gene with reported role in DNA damage response in several murine tissues. Our preliminary studies in long-term cytokine-supplemented cultures demonstrated that CHEK2 is involved in DNA damage response of human HSC and progenitors. The further investigation of the effect of CHEK2 knockdown on repopulating human HSC is currently underway. An integrated analysis of our observations revealed several putative CHEK2-centered molecular networks, which connect DNA damage response to HSC function. Disclosures: No relevant conflicts of interest to declare.
Ocular Surface Epithelial Thickness Evaluation in Dry Eye Patients: Clinical Correlations (2016)

Purpose. To evaluate the relationship between corneal and conjunctival epithelium thickness and ocular surface clinical tests in dry eye disease (DED) patients. Patients and Methods. Fifty-four patients with DED and 32 control subjects were included. Each patient underwent an ocular surface evaluation using the ocular surface disease index (OSDI), tear film break-up time (TBUT), corneal and conjunctival staining, tear film lipid layer analysis, and Schirmer test. The central corneal (CET), limbal (LET), and bulbar conjunctival epithelium thickness (BET) were acquired using spectral-domain optical coherence tomography (SD-OCT). Results. Compared to control subjects, mean BET was significantly thicker and mean LET was significantly lower in the DED group. There was no significant difference in mean CET between the two groups. The mean LET was correlated with OSDI and TBUT. The inferior LET was correlated with OSDI, Schirmer I test, TBUT, Oxford score, and corneal sensitivity. Mean BET was correlated with OSDI and TBUT, but not with Schirmer I test and Oxford score. Conclusions. In dry eye patients, a thinner limbal epithelium and a thicker bulbar conjunctival epithelium were observed. These changes were correlated to the severity of dry eye symptoms and tear film alterations.