gebhart/patrepeval huggingface dataset:
Safe Control and Learning Using Generalized Action Governor (2022)

This paper introduces the Generalized Action Governor (AG), a supervisory scheme that augments a nominal closed-loop system with the capability to enforce state and input constraints through online action adjustment. We develop a generalized AG theory for discrete-time systems under bounded uncertainties, and relax the usual requirement of positive invariance to returnability of a safe set. Based on the theory, we present tailored AG design procedures for linear systems and for discrete systems with finite state and action spaces. We further study safe online learning enabled by the AG and present two safe learning strategies, namely safe Q-learning and safe data-driven Koopman operator-based control, both integrated with the AG to guarantee constraint satisfaction during learning. Numerical results illustrate the proposed methods.
Environmental Erectile Dysfunction: Can the Environment Really Be Hazardous to Your Erectile Health? (2008)

The proposal that exposures to environmental or occupational substances may affect erection ability is a tenable one and would add to a growing list of pathogenic risk factors associated with erectile dysfunction. Several lines of evidence gained by clinical epidemiologic and biomedical research investigations lend support. Several environmental toxicants to include lead, organic solvents, and pesticides have been implicated as possibly hazardous agents. Effects on the nervous and hormonal systems have been proposed as the leading mechanisms by which environmental toxicants adversely impact erectile function. Synthesis of the current evidence supports a possible risk association between environmental exposures and erectile dysfunction. However, scientific support is lacking to establish a direct causal association at this time. More scientific work is needed to identify specific environmental agents that may harm erectile function and define their exact mechanisms of action in this regard.
Gliclazide Directly Inhibits Arginine-Induced Glucagon Release (2002)

Arginine-stimulated insulin and somatostatin release is enhanced by the sulfonylurea gliclazide. In contrast, gliclazide inhibits the glucagon response. The aim of the present study was to investigate whether this inhibition of glucagon release was mediated by a direct suppressive effect of gliclazide or was secondary to the paracrine effect of released somatostatin. To eliminate the paracrine effects of somatostatin, we first perfused isolated rat pancreata with a medium supplemented with 23% of the standard calcium content. Second, we perifused isolated rat islets with a novel and highly specific antagonist of type 2 somatostatin receptor, DC-41-33 (2 micro mol/l), which fully antagonizes the suppressive somatostatin effect on rat A cells. Gliclazide (30 micro mol/l) inhibited glucagon release by 54% in the perfusion experiments, whereas the somatostatin response was nearly abolished. In islet perifusions with DC-41-33, arginine-induced glucagon release was inhibited by 66%. We therefore concluded that gliclazide inhibits glucagon release by a direct action on the pancreatic A cell.
Super Scatterers Based on Artificial Localized Magnon Resonances (2018)

The interaction between electromagnetic waves and objects is strongly affected by the shape and material composition of the latter. Artificially created materials, formed by a subwavelength structuring of their unit cells, namely metamaterials, can exhibit peculiar responses to electromagnetic radiation and provide additional powerful degrees of freedom to the scatterer design. In particular, negative material susceptibilities give rise to strong resonant interactions with deeply subwavelength particles. While the negative electrical permittivity of natural noble metals manifests itself in localized plasmon resonant oscillations, negative magnetic permeability is virtually non-existent in nature. Here the concept of artificial magnon resonance in subwavelength objects with effective negative permeability, designed based on the metamaterial approach, is demonstrated. Strong localized oscillations of the magnetic fields within an array of split ring resonators, forming a sphere, hybridize in a collective mode of the structure. As a result, extremely high scattering cross section, exceeding that of a steel sphere with the same radius by four orders of magnitude, was demonstrated. Furthermore, the scattering cross section of subwavelength metamaterial-based sphere was shown to be comparable to the low frequency (MHz) radar signature of a big military aircraft. Super scatterers, based on tunable resonances within artificially created materials, can find use in a broad range of electromagnetic applications, including wireless communications, radars, RFID, internet of things hardware and many others.
Emeriti faculty as mentors: the benefits and rewards of mentoring the next generation (2019)

This holistic single-case study reports on the benefits mentors derived from participating in the Increasing Minority Presence within Academia through Continuous Training (IMPACT) mentoring program. The IMPACT program was sponsored by the National Science Foundation Office for Broadening Participation in Engineering 15–7680 (awards #1542728 and #1542524). In this program, emeriti faculty were matched with underrepresented minority faculty in the engineering professoriate for career-focused mentorship. The conceptual framework of the Benefits of Being a Mentor grounded this study. Findings indicate mentors appreciate the opportunity to give back and remain engaged in the field, to relive past academic career experiences, and to support the next generation of engineering professors while adjusting to retirement. These findings aligned with the conceptual framework on three factors: rewarding experience, improved job performance, and generativity. Implications for administrators and faculty, as well as additional research areas, are discussed.
Kinin Infusion Prevents Renal Inflammation, Apoptosis, and Fibrosis via Inhibition of Oxidative Stress and Mitogen-Activated Protein Kinase Activity (2007)

The progression of renal disease displays several characteristics, including proteinuria, apoptosis, inflammation, and fibrosis. In this study, we investigated the effect of long-term infusion of kinin in protection against salt-induced renal damage in Dahl salt-sensitive rats. Dahl salt-sensitive rats were fed a high-salt diet for 2 weeks and were then infused with bradykinin (500 ng/h) via subcutaneously implanted minipumps for 3 weeks. Kinin infusion attenuated salt-induced impaired renal function as evidenced by reduced proteinuria, serum creatinine, and blood urea nitrogen levels without apparent effect on blood pressure. Morphological analysis indicated that kinin administration reduced salt-induced glomerular sclerosis, tubular dilatation, luminal protein cast formation, and interlobular arterial thickness. Kinin also significantly lowered collagen I, III, and IV deposition and their mRNA levels. Moreover, kinin reduced interstitial monocyte/macrophage accumulation, as well as tubular cell apoptosis and caspase-3 activity. Protection of renal injury by kinin was associated with increased renal NO levels and reduced nicotinamide adenine dinucleotide/nicotinamide adenine dinucleotide phosphate oxidase activities and superoxide generation. Suppression of oxidative stress by kinin was accompanied by reduced transforming growth factor-beta1 protein and mRNA levels, as well as decreased phosphorylation of mitogen-activated protein kinases. This is the first study to demonstrate that kinin infusion can directly protect against salt-induced renal injury without blood pressure reduction by inhibiting apoptosis, inflammation, and fibrosis via suppression of oxidative stress, transforming growth factor-beta1 expression, and mitogen-activated protein kinase activation.
Silicon point contacts: Nanofabrication, molecular beam epitaxial growth, and transport measurements (1994)

We describe a fabrication process for three-dimensional Si point contacts. The process is based on molecular beam epitaxy to grow electrodes of the devices and on electron-beam lithography and wet etching to produce holes in the insulator. From scanning electron microscopy and transmission electron microscopy analysis we find that the lower electrode has a perfect crystalline structure, while the upper electrode has a composite structure consisting of a single-crystalline column grown out of the hole in the insulator and a poly-crystalline environment. The smallest holes realized have a diameter of 40 nm. I–V curves of point contacts with a boron concentration of about 5×1018 cm−3 and with diameters in the range 200–2000 nm are linear at 300 K and indicate behavior according to the Maxwell resistance, as expected for diffusive transport. Below 40 K variable-range hopping is the transport mechanism. In this temperature range quadratic I–V curves develop, which can be understood from electric field activated hopping in the point-contact geometry.
Abstract 543: Preclinical combination strategies to enhance the efficacy of the anti-PD-1 antibody pembrolizumab (2016)

Abstract Pembrolizumab (MK-3475), a humanized monoclonal IgG4 antibody against programmed death receptor 1 (PD-1), has shown activity in multiple types of cancer. Although pembrolizumab is showing a dramatic impact in patients that respond, a large fraction of patients do not respond to single agent therapy. Combination approaches may be the key to improving response rates in these patients. One of the challenges is how best to tailor combination strategies to provide maximal benefit to patients. How we prioritize new combinations will require an understanding of which mechanism is best for which tumor. To elucidate mechanisms that may create an immunogeneic tumor microenvironment and enhance the antitumor activity of PD-1 blockade, we have tested combination strategies with muDX400, a murine anti-PD-1 antibody. The murine preclinical syngeneic tumor models selected for these studies had varied tumor microenvironment compositions and displayed a range of responses to therapy with single agent anti-PD-1. Here we show enhanced anti-tumor activity when PD-1 blockade is combined with conventional chemotherapies, small molecule therapies and additional immunotherapy approaches that target multiple steps in the immune-oncology pathway. Pre and post treatment tumors from these models were extensively characterized by gene expression profiling, whole exome sequencing, flow cytometry and immunohistochemistry analysis. Molecular and cellular correlates of response to anti-PD-1 as a single agent and in combination with these agents were evaluated. These data support potential combination strategies that could either increase efficacy or expand the patient population in which pembrolizumab will demonstrate benefit. Citation Format: Elaine M. Pinheiro, Marlene Hinton, Ruban Mangadu, Mingmei Cai, Uyen Phan, Michael Nebozhyn, Heather Hirsch, Andrey Loboda, Sarah Javaid, Yaolin Wang, Venkataraman Sriram, Joseph H. Phillips, Terri McClanahan, Brian Long. Preclinical combination strategies to enhance the efficacy of the anti-PD-1 antibody pembrolizumab. [abstract]. In: Proceedings of the 107th Annual Meeting of the American Association for Cancer Research; 2016 Apr 16-20; New Orleans, LA. Philadelphia (PA): AACR; Cancer Res 2016;76(14 Suppl):Abstract nr 543.
A very small dielectric planar filter for portable telephones (2002)

A high-performance dielectric filter 4.5 mm*3.2 mm*2.0 mm in size has been developed. It has two planar resonators and is made of high-permittivity multilayer ceramic in the Bi-Ca-Nb-O system. The transmission characteristic of the planar filter is found to have a distinctive attenuation pole feature. The behavior of the attenuation pole is explained by the relation between even-odd mode impedances and an equivalent expression with lumped elements.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Deep Learning for Detection and Localization of B-Lines in Lung Ultrasound (2023)

Lung ultrasound (LUS) is an important imaging modality used by emergency physicians to assess pulmonary congestion at the patient bedside. B-line artifacts in LUS videos are key findings associated with pulmonary congestion. Not only can the interpretation of LUS be challenging for novice operators, but visual quantification of B-lines remains subject to observer variability. In this work, we investigate the strengths and weaknesses of multiple deep learning approaches for automated B-line detection and localization in LUS videos. We curate and publish, BEDLUS, a new ultrasound dataset comprising 1,419 videos from 113 patients with a total of 15,755 expert-annotated B-lines. Based on this dataset, we present a benchmark of established deep learning methods applied to the task of B-line detection. To pave the way for interpretable quantification of B-lines, we propose a novel "single-point" approach to B-line localization using only the point of origin. Our results show that (a) the area under the receiver operating characteristic curve ranges from 0.864 to 0.955 for the benchmarked detection methods, (b) within this range, the best performance is achieved by models that leverage multiple successive frames as input, and (c) the proposed single-point approach for B-line localization reaches an F1-score of 0.65, performing on par with the inter-observer agreement. The dataset and developed methods can facilitate further biomedical research on automated interpretation of lung ultrasound with the potential to expand the clinical utility.
Effect of passive sensitization on the mechanical activity of human isolated bronchial smooth muscle induced by substance P, neurokinin A and VIP (1993)

1. The effect of passive sensitization on the mechanical activity of human isolated bronchial smooth muscle induced by the following neuropeptides substance P (SP), neurokinin A (NKA) and vasoactive intestinal peptide (VIP) was studied both in the absence and in the presence of the neutral endopeptidase (NEP) inhibitor, phosphoramidon. 2. Cumulative concentration-response curves (CCRC) to these neuropeptides were constructed in human passively sensitized isolated bronchial rings and compared to those in paired controls. Passively sensitized human isolated bronchial rings were tissues incubated overnight in serum from asthmatic patients atopic to Dermatophagoides pteronyssinus and paired controls were tissues originating from the same lung specimens but incubated overnight in serum from healthy donors. 3. In the absence of phosphoramidon, passive sensitization significantly increased the amplitude of the contractile responses to SP and NKA including that to the maximal concentration given from 50 +/- 5% to 76 +/- 6% (n = 5, P < 0.05) and from 70 +/- 7% to 101 +/- 6% (n = 5, P < 0.05) of the maximal response to acetylcholine, respectively. Passive sensitization significantly shifted to the left the CCRC for both tachykinins as measured by the geometric means dose-ratios which were 8.5 (95% confidence limits (CL): 3.1-13.9) and 7.3 (95% CL: 4.2-10.3) for SP and NKA, respectively. 4. In the presence of phosphoramidon (10 microM), passive sensitization still increased significantly the amplitude of the contractile responses to SP and NKA including that to the maximal concentration given from 74 +/- 4% to 115 +/- 7% (n = 5, P<0.05) and from 104 +/- 9% to 146 +/- 16% (n = 5, P<0.05)of the maximal response to acetylcholine, respectively. Passive sensitization still significantly shifted to the left the CCRC for both tachykinins as measured by the dose-ratios which were 9.0 (95% CL:4.3-13.6) and 5.4 (95% CL: 2.9-7.9) for SP and NKA, respectively.5. The relaxant response to the maximal concentration of VIP given in tissues precontracted with histamine (0.5 mM) was significantly reduced by passive sensitization from 41 +/- 4% to 25 +/- 3% (n = 5,P <0.05) of the amplitude of the precontraction in the absence of phosphoramidon and from 72 +/- 1%to 49 +/- 4% (n = 5, P<0.05) in the presence of phosphoramidon (10 microM). Passive sensitization significantly shifted to the right the CCRC for VIP as measured by the dose-ratios which were 10.4(95% CL: 6.6-14.1) and 6.4 (95% CL: 3.0-9.8) in the absence and in the presence of phosphoramidon,respectively.6. We conclude that passive sensitization enhances the mechanical response to neuropeptides which contract human isolated bronchial smooth muscle and reduces that to a neuropeptide which relaxes it.The mechanism of passive sensitization-induced changes in the mechanical activity appears to be independent of a decrease in NEP activity since these changes persist in the presence of the NEP inhibitor, phosphoramidon.
DNA Methylation Analyses in Lungs of Cloned Pigs. (2008)

Phenotypic abnormalities in somatic cell nuclear transfer (SCNT)-derived animals may be caused by incomplete epigenetic reprogramming of donor cells. We previously observed an association between delayed alveologenesis and dysregulated gene expression in the lungs of SCNT-derived pigs. Since DNA methylation is one of the major epigenetic modifications of the genome that regulate gene expression, we compared the global and loci-specific methylation of cytosine in the lungs of deceased neonatal cloned pigs (n=5) and one-month old live cloned pigs (n=5) to those of age-matched controls (n=5 per group). Global cytosine methylation concentrations were determined by binary gradient reverse-phase high-performance liquid chromatography (RP-HPLC) using nuclease- and phosphatase-treated genomic DNA. In the lungs of deceased neonatal clones, the proportion of 5-methyl-2-dC (5mC) to total dC was 4.5% lower (p<0.01) than that of age-matched controls. In contrast, the proportion of 5mC in the lungs of one-month old live clones was 5.9% higher (p<0.001) than that of age-matched controls. Interestingly, an inverse correlation was observed between global cytosine methylation concentrations and the proportions of dysregulated genes which were up-regulated in deceased neonatal and live clones compared to their age-matched controls (64 up-regulated genes of 121 dysregulated and 50 up-regulated genes of 154 dysregulated, respectively). Loci-specific cytosine methylation levels were analyzed by Bisulfite-Pyrosequencing technology. From a previously reported list of genes that were differentially expressed between clones and age-matched controls (fold change>2, p<0.05), we analyzed the CpG islands in the putative promoter regions of MYC, Period 1 (PER1), and Fatty Acid Binding Protein 3 (FABP3) because it has been reported that the expression of these genes is under the regulation of DNA methylation in humans or mice. Surprisingly, all of the CpGs in the target sequences were hypomethylated in both groups of clones and controls suggesting no differences in the degree of methylation despite differential expression of these genes between clones and their age-matched controls. The findings from this study demonstrate that global DNA methylation levels may be associated with the survival of cloned pigs, and the differentially expressed genes studied herein may be regulated by mechanisms other than DNA methylation.
Studies of the muon momentum calibration and performance of the ATLAS detector with pp collisions at $$\sqrt{s}=13$$ TeV (2023)

Abstract This paper presents the muon momentum calibration and performance studies for the ATLAS detector based on the pp collisions data sample produced at $$\sqrt{s}$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:msqrt> <mml:mi>s</mml:mi> </mml:msqrt> </mml:math> = 13 TeV at the LHC during Run 2 and corresponding to an integrated luminosity of 139 $${\textrm{fb}}^{-1}$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:msup> <mml:mrow> <mml:mtext>fb</mml:mtext> </mml:mrow> <mml:mrow> <mml:mo>-</mml:mo> <mml:mn>1</mml:mn> </mml:mrow> </mml:msup> </mml:math> . An innovative approach is used to correct for potential charge-dependent momentum biases related to the knowledge of the detector geometry, using the $$Z\rightarrow \mu ^{+}\mu ^{-}$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mi>Z</mml:mi> <mml:mo>→</mml:mo> <mml:msup> <mml:mi>μ</mml:mi> <mml:mo>+</mml:mo> </mml:msup> <mml:msup> <mml:mi>μ</mml:mi> <mml:mo>-</mml:mo> </mml:msup> </mml:mrow> </mml:math> resonance. The muon momentum scale and resolution are measured using samples of $$J/\psi \rightarrow \mu ^{+}\mu ^{-}$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mi>J</mml:mi> <mml:mo>/</mml:mo> <mml:mi>ψ</mml:mi> <mml:mo>→</mml:mo> <mml:msup> <mml:mi>μ</mml:mi> <mml:mo>+</mml:mo> </mml:msup> <mml:msup> <mml:mi>μ</mml:mi> <mml:mo>-</mml:mo> </mml:msup> </mml:mrow> </mml:math> and $$Z\rightarrow \mu ^{+}\mu ^{-}$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mi>Z</mml:mi> <mml:mo>→</mml:mo> <mml:msup> <mml:mi>μ</mml:mi> <mml:mo>+</mml:mo> </mml:msup> <mml:msup> <mml:mi>μ</mml:mi> <mml:mo>-</mml:mo> </mml:msup> </mml:mrow> </mml:math> events. A calibration procedure is defined and applied to simulated data to match the performance measured in real data. The calibration is validated using an independent sample of $$\Upsilon \rightarrow \mu ^{+}\mu ^{-}$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mi>Υ</mml:mi> <mml:mo>→</mml:mo> <mml:msup> <mml:mi>μ</mml:mi> <mml:mo>+</mml:mo> </mml:msup> <mml:msup> <mml:mi>μ</mml:mi> <mml:mo>-</mml:mo> </mml:msup> </mml:mrow> </mml:math> events. At the Z $$(J/\psi )$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mo>(</mml:mo> <mml:mi>J</mml:mi> <mml:mo>/</mml:mo> <mml:mi>ψ</mml:mi> <mml:mo>)</mml:mo> </mml:mrow> </mml:math> peak, the momentum scale is measured with an uncertainty at the 0.05% (0.1%) level, and the resolution is measured with an uncertainty at the 1.5% (2%) level. The charge-dependent bias is removed with a dedicated in situ correction for momenta up to 450 GeV with a precision better than 0.03 $${\textrm{TeV}}^{-1}$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:msup> <mml:mrow> <mml:mtext>TeV</mml:mtext> </mml:mrow> <mml:mrow> <mml:mo>-</mml:mo> <mml:mn>1</mml:mn> </mml:mrow> </mml:msup> </mml:math> .
Epigenetic Regulation of Autoimmune Diseases through Deacetylase Inhibition (2009)

This chapter contains sections titled: Introduction Regulatory T cells Epigenetic regulation of FOXP3 expression FOXP3 acetylation and function Protein lysine deacetylation HDAC inhibitors in autoimmune disease Dietary butyrate promotes lysine acetylation by inhibiting deacetylases The HDAC inhibitor butyrate affects TGF-β signalling and increases Smad3 levels HDAC inhibitors affect immune-cell proliferation and conversion of antigen triggered T cells into an unresponsive state Conclusions References