gebhart/patrepeval huggingface dataset:
Hierarchical Assembly of Plasmonic Nanoparticle Heterodimer Arrays with Tunable Sub-5 nm Nanogaps (2019)

Nanoparticle assemblies have generated intense interest because of their novel optical, electronic, and magnetic properties that open up numerous opportunities in fundamental and applied nanophotonics, -electronics, and -magnetics. However, despite the great scientific and technological potential of these structures, it remains an outstanding challenge to reliably fabricate such assemblies with both nanometer-level structural control and precise spatial arrangements on a macroscopic scale. It is the combination of these two features that is key to realizing nanoparticle assemblies' potential, particular for device applications. To address this challenge, we propose a hierarchical assembly approach consisting of both template-particle and particle-particle interactions, whereby the former ensures precise addressability of assemblies on a surface and the latter provides nanometer-level structural control. Template-particle interactions are harnessed via chemical-pattern-directed assembly, and the particle-particle interactions are controlled using DNA-directed self-assembly. To demonstrate the potential of this hierarchical assembly approach, we demonstrate the fabrication of a particularly fascinating assembly: the nanoparticle heterodimer, which possesses a surprisingly rich set of plasmonic properties and is a promising candidate to enable a variety of imaging and sensing applications. Each heterodimer is placed on the surface at predetermined locations, and the precise control of the nanogaps is confirmed by far-field scattering measurements of individual dimers. We further demonstrate that the gap size can be effectively tuned by varying the DNA length. By correlating measured spectra with finite-difference time-domain (FDTD) simulations, we determine the gap sizes to be 4.2 and 5.0 nm-with subnm deviation-for the two DNA lengths investigated. This is one of the best gap uniformities ever demonstrated for surface-bound nanoparticle assemblies. The estimated surface-enhanced Raman scattering (SERS) enhancement factor of these heterodimers is on the order of 10<sup>5</sup>-10<sup>6</sup> with high reproducibility and predictable polarization-dependence. This hierarchical fabrication technique-employing both template-particle and particle-particle interactions-constitutes a novel platform for the realization of functional nanoparticle assemblies on surfaces and thereby creates new opportunities to implement these structures in a variety of applications.
Inhibition of HDAC3 promotes ligand-independent PPARγ activation by protein acetylation (2014)

Peroxisome proliferator-activated receptor gamma (PPARγ) is a nuclear receptor whose activation is dependent on a ligand. PPARγ activation by exogenous ligands, such as thiazolidinediones (TZDs), is a strategy in the treatment of type 2 diabetes mellitus for the improvement of insulin sensitivity. In addition to a ligand, PPARγ function is also regulated by posttranslational modifications, such as phosphorylation, sumoylation, and ubiquitination. Herein, we report that the PPARγ protein is modified by acetylation, which induces the PPARγ function in the absence of an external ligand. We observed that histone deacetylase 3 (HDAC3) interacted with PPARγ to deacetylate the protein. In immunoprecipitation assays, the HDAC3 protein was associated with the PPARγ protein. Inhibition of HDAC3 using RNAi-mediated knockdown or HDAC3 inhibitor increased acetylation of the PPARγ protein. Furthermore, inhibition of HDAC3 enhanced the expression of PPARγ target genes such as adiponectin and aP2. The expression was associated with an increase in glucose uptake and insulin signaling in adipocytes. HDAC3 inhibition enhanced lipid accumulation during differentiation of adipocytes. PPARγ acetylation was also induced by pioglitazone and acetylation was required for PPARγ activation. In the absence of TZDs, the acetylation from HDAC3 inhibition was sufficient to induce the transcriptional activity of PPARγ. Treating diet-induced obesity mice with HDAC3 inhibitor or pioglitazone for 2 weeks significantly improved high-fat-diet-induced insulin resistance. Our results indicate that acetylation of PPARγ is a ligand-independent mechanism of PPARγ activation. HDAC3 inhibitor is a potential PPARγ activator for the improvement of insulin sensitivity.
ESD protection design for 900-MHz RF receiver with 8-kV HBM ESD robustness (2003)

This paper presents a state-of-art ESD protection design for an RF circuit with a human-body-model (HBM) ESD robustness of 8 kV. By including a turn-on efficient power-rails clamp circuit into the RF circuit, the ESD clamp devices of the RF input pin are operated in the forward-biased conduction, rather than the traditional junction breakdown condition. Therefore, the dimension of ESD devices for the RF input pin can be further downsized to reduce the input capacitance loading for the RF signal. This design has been successfully applied in a 900 MHz RF receiver and fabricated in 0.25 /spl mu/m CMOS process with a thick top metal layer. The experimental results have confirmed that its ESD robustness is as high as >8 kV under the HBM ESD test.
Olfactory attractants for mosquito surveillance and control: 1-octen-3-ol. (1994)

The role of octenol as a mosquito attractant is still under investigation. When used alone, octenol has been a good attractant for only a few species. However, there appears to be a synergistic response of species of the genera Aedes, Anopheles, Coquillettidia, Psorophora, and Mansonia to the combination of octenol and CO2. Further research is required to determine the potential role of this compound in mosquito management programs.
Transforming and differentiation-inducing potential of constitutively activated c-kit mutant genes in the IC-2 murine interleukin-3-dependent mast cell line. (1996)

Two mutations of c-kit receptor tyrosine kinase (KIT), valine-559 to glycine (G559) and aspartic acid-814 to valine (V814), resulted in its constitutive activation. To examine the transforming and differentiation-inducing potential of the mutant KIT, we used the murine interleukin-3-dependent IC-2 mast cell line as a transfectant. The IC-2 cells contained few basophilic granules and did not express KIT on the surface. The KITG559 or KITV814 gene was introduced into IC-2 cells using a retroviral vector. KITG559 and KITV814 expressed in IC-2 cells were constitutively phosphorylated on tyrosine and demonstrated kinase activity in the absence of stem cell factor, which is a ligand for KIT. IC-2 cells expressing either KITG559 or KITV814 (IC-2G559 or IC-2V814 cells) showed factor-independent growth in suspension culture and produced tumors in nude athymic mice. In addition, IC-2G559 and IC-2V814 cells showed a more mature phenotype compared with the phenotype of the original IC-2 cells, especially after transplantation into nude mice. The number of basophilic granules and the content of histamine increased remarkably. KITG559 and KITV814 also influenced the transcriptional phenotype of mouse mast cell proteases (MMCP) in IC-2 cells. The expression of MMCP-2, MMCP-4, and MMCP-6 was much greater in IC-2G559 and IC-2V814 cells than in the original IC-2 cells. The results indicated that constitutively activated KIT had not only oncogenic activity but also differentiation-inducing activity in mast cells.
Analysis of DNA polymorphism at HLA-A locus by PCR amplification with sequence specific oligonucleotide probe in Chinese Han and Uygur populations. (2002)

To determine HLA-A genetic polymorphism in Chinese populations and establish ethnic genetic database, 165 Han and 162 Uygur subjects were investigated with a non-isotopic and sensitive method PCR-SSOP. 22 alleles were identified in Han with the most frequent allele being HLA-A * 1101 (19.7%), followed by * 0201 (12.72%). Also, 22 alleles were identified in Uygur with * 2407 (17.90%) being the most frequent one and the frequencies of following alleles: * 0201, * 0101, * 3301 were higher than 10%. HLA-A * 0203, * 0205, * 0210, * 0302, * 2403 and * 3302 were only detected in Han; meanwhile * 0205, * 0211, * 2301, * 2502, * 68012 and * 6802 were only in Uygur. According to Hardy-Weinberg equilibrium, each allele showed no significant (P > 0.05) deviation between the expected frequency and the observed one. Heterozygosity (H), discrimination power (DP) and probability of paternity exclusion (EPP) of HLA-A locus from Han nationality were computed to be 0.9029, 0.9776 and 0.8592; and those from Uygur as 0.9063, 0.9379 and 0.7885. These results suggest that HLA-A DNA polymorphism and the database of two Chinese populations have useful applications in processing forensic casework (as personal identification, paternity test), tracing population migration and genetic diagnosis.
Activation of AXL and antitumor effects of a monoclonal antibody to AXL in lung adenocarcinoma. (2014)

AXL-targeted therapy, possibly through inhibiting ERK activation of carcinoma cells, could confer clinical benefits on patients with lung adenocarcinoma.
Neuropathic Pain (2017)

ABSTRACT Purpose of Review: Neuropathic pain is a frequently encountered condition that is often resistant to treatment and is associated with poor patient satisfaction of their treatment. Several medications have been shown to be effective in treating neuropathic pain associated with diabetic neuropathy and postherpetic neuralgia, and these medications are often used to treat neuropathic pain associated with other conditions as well. This article summarizes the diagnosis and assessment of patients with neuropathic pain as well as available pharmacologic and interventional treatment options. Recent Findings: Evidence-based recommendations for the treatment of neuropathic pain have been published, and first-line medications include antidepressants, anticonvulsants, topical agents, as well as opioid analgesics. Interventional options include anesthetic and steroid injections, nerve blocks, and spinal cord stimulation. Essential to the treatment algorithm of neuropathic pain is the assessment and treatment of psychosocial comorbidities and the utilization of a multidisciplinary team approach, including cognitive-behavioral and rehabilitative therapies. Questions remain about the comparative effectiveness of various medications and combination therapies. Increasing interest also exists in the optimization and personalization of pharmacotherapy based upon the underlying mechanism(s) of neuropathic pain according to the quality of the patient’s symptoms. Summary: The management of chronic neuropathic pain is challenging and is best achieved with the use of a multidisciplinary team. Pain is a subjective experience, and it is important to validate a patient’s pain, address psychosocial comorbidities, and set realistic treatment goals. Evidence-based guidelines are available to guide treatment, but frequently, high-quality evidence-based recommendations are lacking.
Locomotive mechanism design and fabrication of biomimetic micro robot using shape memory alloy (2004)

Recently, micro robots have been applied in various industrial areas. Some of them are requested to be able to move in small space or rough environment that people cannot reach. It is necessary to have a capability to move at even overturned and adapt simple mechanism to fabricate it easily with small size. In this paper, a novel bio-mimetic micro robot with simple mechanism using shape memory alloy (SMA) is introduced to generate earthworm-like locomotive motion. There have been many kinds of mobile micro robot using the SMA. However, these actuators generally require electric cable for power supply, which might have an adverse effect on the mobility of the micro robot The proposed micro robot system is composed of an actuator with SMA spring and silicone bellows, wireless control system, wireless power supply (battery) and body frames. The robot is also analyzed to customize required specifications. After the design and experiment, we find out that the micro robot can move a wireless free motion and be fabricated easily. Like an earthworm, the robot can travel on uneven, slippery and flexible environment.
Analysis of detection capability of parallel signature analyzers (1991)

A rigorous mathematical analysis is presented to identify error conditions under which aliasing can occur for several common types of serial signature analyzers (SSAs) and parallel signature analyzers (PSAs). The PSAs are faster and require less hardware than the SSAs; however, for PSAs some double errors are a special cause of concern. Such aliasing errors are analyzed and it is shown that PSA pairs can be identified for which these errors are disjoint. Novel reconfigurable PSA designs are presented which use a two-signature scheme to detect all double errors.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Effects of semiconductor-optical-amplifier nonlinearity on the performance of high-speed intensity-modulation lightwave systems (1990)

It is shown that when the amplifier is driven near saturation, its inherent nonlinearity causes significant bit-pattern-dependent pulse distortion, particularly in the bit-rate range between about 2 and 32 GB/s. Without proper countermeasures, this distortion can degrade system performance appreciably due to two basic mechanisms. The first, which can result in a system power penalty of as much as 10 dB, occurs in a standard decision circuit that automatically sets the threshold voltage to the average signal level, rather than in the middle of the eye opening. The second mechanism, which occurs even with the threshold set properly, is due to the nonlinear enhancement of the simple linear intersymbol interference (ISI) within the receiver filter. For example, computations of system performance at 8 Gb/s using an RC filter that gives a quite acceptable 10% of eye closure under linear conditions show that when the amplifier is driven to its saturation output power level, this mechanism causes a system power penalty of about 1 dB, which increases to about 4.5 dB when the power is doubled. Interestingly, with the proper threshold setting, an ideal integrate-and-dump receiver, which introduces no ISI, is shown to suffer no power penalty due to amplifier nonlinearity.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Changes in functional status and the risks of subsequent nursing home placement and death. (1993)

This research examined the effects of changes in functional status on the risks for subsequent nursing home placement and death. Using data on the 3,646 baseline self-respondents to the Longitudinal Study on Aging who were successfully reinterviewed at the first follow-up (1986) and who were not in a nursing home at that time, a two-stage analysis was conducted. First, the risks for nursing home placement and death between the 1986 and 1988 follow-ups were modeled based on a static set of baseline (1984) indicators. Measures of the change in functional health status between baseline and first follow-up were then introduced to determine whether such change had significant net effects and enhanced model fit. Substantial improvement in model fit was obtained for both outcomes. The risk of nursing home placement was associated with deterioration in advanced (i.e., cognitive) ADLs and lower body function. Deterioration in basic ADLs and lower body function was associated with the risk of dying.
Reliability and relay selection in peer-to-peer communication systems (2010)

The presence of restrictive network address translators (NATs) and firewalls prevent nodes from directly exchanging packets and thereby pose a problem for peer-to-peer (p2p) communication systems. Skype, a popular p2p VoIP application, addresses this problem by using another Skype client (relay) with unrestricted connectivity to relay the signaling and media traffic between session endpoints. This distributed technique for addressing connectivity issues raises challenging questions about the reliability and latency of relayed calls, relay selection techniques, and the interference of relayed calls with the applications running on relays -- a phenomena we refer to as user annoyance.
VOTNet: hybrid simulation of virtual operational technology network for cybersecurity assessment (2018)

Cybersecurity assessment in automation requires a modeling and simulation framework to study the complex relationships between the cyber-based control mechanisms and the power systems. A real power system is not ideal for such an assessment due to potential disruption in operation. In this paper, we propose a simulation model of a virtual operational technology (OT) network in power system automation for cybersecurity assessment. The proposed simulation model is modularized with key components including power system and process, communication, automation, and enterprise network. We discuss Virtual OT Network (VOTNet), a specific instance of the model, in terms of simulated and emulated systems such as programmable logic controller, computing systems, control centers, and software. We evaluate VOTNet under two use cases: different attack scenarios and scalability vs. attack surface to study the impacts of cyber attacks. Particularly, unauthorized access, data manipulation in PLC, and denial of service in SCADA communication are demonstrated.
Factors determining the photovoltaic performance of a CdSe quantum dot sensitized solar cell: the role of the linker molecule and of the counter electrode (2008)

Colloidal CdSe quantum dots (QDs) of different sizes, prepared by a solvothermal route, have been employed as sensitizers of nanostructured TiO(2) electrode based solar cells. Three different bifunctional linker molecules have been used to attach colloidal QDs to the TiO(2) surface: mercaptopropionic acid (MPA), thioglycolic acid (TGA), and cysteine. The linker molecule plays a determinant role in the solar cell performance, as illustrated by the fact that the incident photon to charge carrier generation efficiency (IPCE) could be improved by a factor of 5-6 by using cysteine with respect to MPA. The photovoltaic properties of QD sensitized electrodes have been characterized for both three-electrode and closed two-electrode solar cell configurations. For three-electrode measurement a maximum power conversion efficiency near 1% can be deduced, but this efficiency is halved in the closed cell configuration mainly due to the decrease of the fill factor (FF).
Erythrocytic Malaria Growth or Invasion Inhibition Assays with Emphasis on Suspension Culture GIA (2003)

Erythrocytic cycle malaria parasite growth or invasion inhibition assays (GIA) compare the effects of various test and control substances on malaria parasite growth in erythrocytes or invasion into erythrocytes in vitro. Although inhibitions by antimalarial drugs in vitro correlate well with drug protective levels required in vivo, as yet there are too few data to know how well inhibitions by antibodies in vitro correlate with the types and degrees of immune protection in vivo. Antibody-mediated GIA is frequently complicated by parasite strain-specific inhibitions, as well as nonspecific inhibitory factors generated in sera collected or stored under nonoptimal conditions. In this chapter, we describe methods for collecting and processing sera, for using different strains of parasite, and a simplified method for staining parasite DNA with Hoechst dye 33342 before quantitating parasites using ultraviolet (UV)-excited flow cytometry. We also describe a new type of GIA using suspension cultures in a 48-well plate. Critical to this method is enclosing the plate in a gassed, heat-sealed plastic bag, which, being low mass, can easily be rested at a 13.5 degrees angle on a rotor platform (114 rpm with 1-in. displacement) to produce gentle pulsatile waves of media in each well. The suspension GIA, which, relative to the static GIA, increased inhibition by one antibody and decreased inhibition by another (Table 1), may better simulate in vivo blood flow and may thus better predict in vivo efficacy.
Analyses of apoptotic regulators CASP9 and DFFA at 1P36.2, reveal rare allele variants in human neuroblastoma tumours (2002)

The genes encoding Caspase-9 and DFF45 have both recently been mapped to chromosome region 1p36.2, that is a region alleged to involve one or several tumour suppressor genes in neuroblastoma tumours. This study presents an update contig of the 'Smallest Region of Overlap of deletions' in Scandinavian neuroblastoma tumours and suggests that DFF45 is localized in the region. The genomic organization of the human DFF45 gene, deduced by in-silico comparisons of DNA sequences, is described for the first time in this paper. In the present study 44 primary tumours were screened for mutation by analysis of the genomic sequences of the genes. In two out of the 44 tumours this detected in the DFFA gene one rare allele variant that caused a non-polar to a polar amino acid exchange in a preserved hydrophobic patch of DFF45. One case was hemizygous due to deletion of the more common allele of this polymorphism. Out of 194 normal control alleles only one was found to carry this variant allele, so in respect of it, no healthy control individual out of 97 was homozygous. Moreover, our RT-PCR expression studies showed that DFF45 is preferably expressed in low-stage neuroblastoma tumours and to a lesser degree in high-stage neuroblastomas. We conclude that although coding mutations of Caspase-9 and DFF45 are infrequent in neuroblastoma tumours, our discovery of a rare allele in two neuroblastoma cases should be taken to warrant further studies of the role of DFF45 in neuroblastoma genetics.
Whole-Blood Calcineurin Activity Is Not Predicted by Cyclosporine Blood Concentration in Renal Transplant Recipients (2001)

Abstract Background: In transplant patients, current cyclosporine (CsA) dose monitoring with classic pharmacokinetics has demonstrated limitations. Evaluation of the activity of calcineurin (CN), the serine-threonine phosphatase enzyme target of CsA, has been proposed as a reliable way to optimize CsA dosing. Methods: CN activity was measured in whole blood in an attempt to overcome the high variability of results obtained previously with peripheral blood mononuclear cells (PBMCs). We also explored, in vitro, a possible relationship between the CsA concentration and CN inhibition in whole blood. Finally, we assessed whether the CsA blood trough concentration correlates with whole-blood CN activity in kidney transplant recipients (n = 15) on maintenance immunosuppression with CsA. Results: In 14 healthy individuals, less scattered CN activity values were documented in whole blood than in the PBMC fraction. Whole-blood CN activity was higher than the sum of the enzyme activity in each cell blood fraction. After ex vivo incubation of whole blood from healthy subjects (n = 5) with increasing concentrations of CsA (50–1000 μg/L for 1 h), a concentration-dependent inhibition of CN activity was found comparable to that in the PBMC fraction. Moreover, in 15 kidney transplant recipients, no relationship was found between CsA pharmacokinetic parameters and CN activity at time 0. However, a highly significant correlation was found between CN area under the CN activity-time curve, which represents the extent of the CN daily inhibition, and CN activity at time 0 (r = 0.79; P &lt;0.01) and at 12 h postdosing (r = 0.96; P &lt;0.01). Conclusions: Measuring CN activity in whole-blood samples is a reproducible method. In kidney transplant recipients, CsA trough concentrations do not predict baseline CN activity. Moreover, a single CN activity monitoring at baseline or at time 12 h post-CsA dosing may be a useful surrogate for the inhibition of this enzyme by CsA during 12 h.