gebhart/patrepeval huggingface dataset:
Measurements of Variable-Shaped Electron Beams with Solid-State Detector and Scattering Aperture (2007)

A highly accurate method for measuring beam properties in a variable-shaped electron beam (VSB) system has been developed. This method is based on a knife-edge method with a solid-state detector (SSD) and scattering apertures. In VSB system, it is necessary to measure both beam profile and beam position for a long time. To meet this requirement, many aperture marks on a silicon membrane were prepared in a measurement unit. Using this unit, the accuracy and stability of beam-size and beam position measurements were evaluated in VBS system (HL-7000D, Hitachi-HITEC). As a result, the repeatability error for beam size was obtained to be smaller than 2 nm (3σ) and the repeatability error for beam position was obtained to be 0.82 nm (3σ). Moreover, a multitude of repeat experiments showed that this measurement unit can be used for more than ten years. Consequently, it was confirmed that this measurement method is useful for the high accuracy of a VSB system.
z-STED Imaging and Spectroscopy to Investigate Nanoscale Membrane Structure and Dynamics (2020)

Super-resolution stimulated emission depletion (STED) microcopy provides optical resolution beyond the diffraction limit. The resolution can be increased laterally (xy) or axially (z). Two-dimensional STED has been extensively used to elucidate the nanoscale membrane structure and dynamics via imaging or combined with spectroscopy techniques such as fluorescence correlation spectroscopy (FCS) and spectral imaging. On the contrary, z-STED has not been used in this context. Here, we show that a combination of z-STED with FCS or spectral imaging enables us to see previously unobservable aspects of cellular membranes. We show that thanks to an axial resolution of ∼100 nm, z-STED can be used to distinguish axially close-by membranes, early endocytic vesicles, or tubular membrane structures. Combination of z-STED with FCS and spectral imaging showed diffusion dynamics and lipid organization in these structures, respectively.
InternetQuestion and Answer (iQ&A): a Web-based survey technology (2000)

This paper presents InternetQuestion and Answer, a Web-based survey development and implementation technology, which has been designed for constructing on-line surveys for educational, medical, or administrative purposes. The system, called iQ&A, is a three-tiered database-backed Web system that has been developed to support a wide range of applications. Surveys are considered as general data collection instruments and include a wide field of application. iQ&A facilitates rapid survey construction and administration which is ideally suited for biomedical research as well as other research and educational activities. Full report management capabilities provide the survey publisher on-line access to current information on survey responses. Current implementations of this technology in the areas of biomedical applications of clinical trials, longitudinal research, and other research-related systems are presented. Further refinement of the current system should lead to a powerful general survey technology for broad-based applications.
Neurofilament Antigens in Acrylamide Neuropathy (1988)

After repeated exposure, acrylamide (AC) produces degeneration of distal axons. Because neurons whose axons have been injured (e.g. by axotomy) show alterations in their structural and chemical properties, the present study was designed to differentiate the direct effects of AC intoxication from neuronal responses secondary to axonal injury caused by AC. Rats were given AC as either a single high dose (75 mg/kg), or as daily intraperitoneal injections (30 mg/kg, six days per week for four weeks). Dorsal root ganglia of the fifth lumbar level, L5, were examined using a variety of monoclonal antibodies directed against nonphosphorylated (2-135) and phosphorylated (03-44, 06-17, 07-05) epitopes of 145 and 200 kilodalton neurofilament proteins. In control rats, antibody 2-135 stained axons and neuronal cell bodies; antibodies against phosphorylated epitopes of neurofilaments stained only axons distal to the glomerulus. Following chronic AC intoxication, all three antibodies directed against phosphorylated epitopes of neurofilaments (particularly 07-05) demonstrated intense immunoreactivity in 20-30% of neuronal cell bodies. In addition, the glomerular region of these axons was stained. Electron microscopy revealed many chromatolytic cells containing few neurofilaments. In contrast, a single high dose of AC produced no abnormal staining of neuronal cell bodies at a time when slow axonal transport was impaired. Our findings are compared to those observed following axotomy and to those occurring in aluminum-intoxicated rabbits, two experimental disorders in which altered distributions of phosphorylated filaments have been documented.
Supplementary Methods, Tables 1-4, Figure Legend 1 from Tumor Suppressor Functions of <i>ARLTS1</i> in Lung Cancers (2023)

Supplementary Methods, Tables 1-4, Figure Legend 1 from Tumor Suppressor Functions of &lt;i&gt;ARLTS1&lt;/i&gt; in Lung Cancers
Cheminformatics Modeling of Adverse Drug Responses by Clinically Relevant Mutants of Human Androgen Receptor (2016)

The human androgen receptor (AR) is a ligand-activated transcription factor that plays a pivotal role in the development and progression of prostate cancer (PCa). Many forms of castration-resistant prostate cancer (CRPC) still rely on the AR for survival. Currently used antiandrogens face clinical limitations as drug resistance develops in patients over time since they all target the mutation-prone androgen binding site (ABS), where gain-of-function mutations eventually convert antagonists into agonists. With a significant number of reported distinct mutations located across the ABS, it is imperative to develop a prognostic platform which would equip clinicians with prior knowledge and actionable strategies if cases of previously unreported AR mutations are encountered. The goal of this study is to develop a theoretical approach that can predict such previously unreported AR mutants in response to current treatment options for PCa. The expected drug response by these mutants has been modeled using cheminformatics methodology. The corresponding QSAR pipeline has been created, which extracts key protein-ligand interactions and quantifies them by 4D molecular descriptors. The developed models reported with an accuracy reaching 90% and enable prediction of activation of AR mutants by its native ligand as well as assess whether known antiandrogens will act on them as agonists or antagonists. As a result, a previously uncharacterized mutant, T878G, has been predicted to be activated by the latest antiandrogen enzalutamide, and the corresponding experimental evaluation confirmed this prediction. Overall, the developed cheminformatics pipeline provides useful insights toward understanding the changing genomic landscape of advanced PCa.
The approach to small vessels in the era of drug-eluting stents. (2005)

The treatment of small-vessel disease will occupy an increasingly important part of interventional cardiology practice and this raises several issues. The definition of "small vessels" has great implications for device size selection, and knowledge of "normal" small-vessel dimensions is important. Stents have been applied in the setting of smaller-vessel disease and future iterations of small-vessel stents will need to address several design factors. Stent strut thickness might impact on subsequent restenosis as well as late lumen loss. There has been great interest in the use of drug-eluting stents for small vessels. Randomized clinical trials of sirolimus-eluting versus bare metal stents in the treatment of small-vessel disease have shown significant improvements in the rates of target lesion revascularization and restenosis with sirolimus-eluting stents. These improvements in restenosis rates are attributable to the low levels of late loss with the drug-eluting stent.
Biliary bile acid profiles in familial adenomatous polyposis (1992)

The role of calf perforating veins in the aetiology of venous hypertension remains the subject of controversy, and their paper demonstrates the difficulties encountered when addressing this issue.
Bacterial Glycogen Provides Short-Term Benefits in Changing Environments (2020)

Changing nutritional conditions challenge microbes and shape their evolutionary optimization. Here, we used real-time metabolomics to investigate the role of glycogen in the dynamic physiological adaptation of <i>Escherichia coli</i> to fluctuating nutrients following carbon starvation. After the depletion of environmental glucose, we found significant metabolic activity remaining, which was linked to rapid utilization of intracellular glycogen. Glycogen was depleted by 80% within minutes of glucose starvation and was similarly replenished within minutes of glucose availability. These fast time scales of glycogen utilization correspond to the short-term benefits that glycogen provided to cells undergoing various physiological transitions. Cells capable of utilizing glycogen exhibited shorter lag times than glycogen mutants when starved between periods of exposure to different carbon sources. The ability to utilize glycogen was also important for the transition between planktonic and biofilm lifestyles and enabled increased glucose uptake during pulses of limited glucose availability. While wild-type and mutant strains exhibited comparable growth rates in steady environments, mutants deficient in glycogen utilization grew more poorly in environments that fluctuated on minute scales between carbon availability and starvation. Taken together, these results highlight an underappreciated role of glycogen in rapidly providing carbon and energy in changing environments, thereby increasing survival and competition capabilities under fluctuating and nutrient-poor conditions.<b>IMPORTANCE</b> Nothing is constant in life, and microbes in particular have to adapt to frequent and rapid environmental changes. Here, we used real-time metabolomics and single-cell imaging to demonstrate that the internal storage polymer glycogen plays a crucial role in such dynamic adaptations. Glycogen is depleted within minutes of glucose starvation and similarly is replenished within minutes of glucose availability. Cells capable of utilizing glycogen exhibited shorter lag times than glycogen mutants when starved between periods of exposure to different carbon sources. While wild-type and mutant strains exhibited comparable growth rates in steady environments, mutants deficient in glycogen utilization grew more poorly in environments that fluctuated on minute scales between carbon availability and starvation. These results highlight an underappreciated role of glycogen in rapidly providing carbon and energy in changing environments, thereby increasing survival and competition capabilities under fluctuating and nutrient-poor conditions.
Covert Channel-Based Transmitter Authentication in Controller Area Networks (2021)

In recent years, the security of automotive Cyber-Physical Systems (CPSs) is facing urgent threats due to the widespread use of legacy in-vehicle communication systems. As a representative legacy bus system, the Controller Area Network (CAN) hosts Electronic Control Units (ECUs) that are crucial for the vehicles functioning. In this scenario, malicious actors can exploit the CAN vulnerabilities, such as the lack of built-in authentication and encryption schemes, to launch CAN bus attacks (e.g., suspension, injection, and masquerade attacks) with life-threatening consequences (e.g., disabling brakes). In this article, we present TACAN (Transmitter Authentication in CAN), which provides secure authentication of ECUs on the legacy CAN bus by exploiting the <italic xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">covert channels</i> , without introducing CAN protocol modifications or traffic overheads (no extra bits or CAN messages are used). TACAN turns upside-down the originally malicious concept of covert channels and exploits it to build an effective defensive technique that facilitates transmitter authentication via a centralized, trusted Monitor Node. TACAN consists of three different covert channels for ECU authentication: 1) the Inter-Arrival Time (IAT)-based, leveraging the IATs of CAN messages; 2) the Least Significant Bit (LSB)-based, concealing authentication messages into the LSBs of normal CAN data; and 3) a hybrid covert channel, exploiting the combination of the first two. In order to validate TACAN, we implement the covert channels on the University of Washington (UW) EcoCAR (Chevrolet Camaro 2016) testbed. We further evaluate the bit error, throughput, and detection performance of TACAN through extensive experiments using the EcoCAR testbed and a publicly available dataset collected from Toyota Camry 2010. We demonstrate the feasibility of TACAN and the effectiveness of detecting CAN bus attacks, highlighting no traffic overheads and attesting the regular functionality of ECUs.
[Acute abdomen caused by inflammation of a Meckel's diverticulum containing a stone]. (1992)

Meckel's diverticula have a prevalence of approx. 2% in the population. About 90% of them are clinically inapparent. Usual complications are a perforation of ectopic gastric mucosa (possibly with intestinal bleeding), an invagination and a volvulus. Etiology is normally revealed only by surgical exploration. Calculi are rarely found in Meckel's diverticula, males being afflicted much more often than females. The enterolith consists of calcified residues of food. Unexplained abdominal symptoms with an ileus situation should also be considered a Meckel's diverticulum containing enteroliths. This is especially so, if there are unidentified calcifications visible on the abdominal X-ray.
23.1: Invited Paper : New Materials for Polymer‐Stabilized Blue Phase (2011)

Abstract Compared to other liquid crystalline mesophases, the Blue Phase exhibits extremely fast switching via induced birefringence by an external field. However, the pure Blue Phase is characterized by a rather narrow temperature range on the order of a few K. For display applications, one very promising way to broaden the stable temperature range is achieved by polymer‐stabilization of the Blue Phase. A crucial prerequisite for efficient stabilization is the optimal material selection/matching of reactive mesogens RMs and the chiral host. New material concepts will be introduced and discussed.
Ionophore-mediated loading of Ca2+into large unilamellar vesicles in response to transmembrane pH gradients (1994)

The Ca2+ translocating properties of the carboxylic ionophores A23187, ionomycin and lasolocid A (X537A) have been investigated by employing large unilamellar vesicles that exhibit a pH gradient (acidic interior). An analysis of Ca2+ uptake at equilibrium reveals that Ca2+ accumulation is an electroneutral process, whereby one Ca2+ ion is transported in for every two H+ ions transported out. A kinetic analysis shows that both A23187 and ionomycin transport Ca2+ in the form of a 1:1 cation:ionophore complex, whereas a 1:2 complex is observed for lasolocid A. The specificity of the ionophores for transporting Ca2+ is reflected by the influence of exterior Na+ ions that inhibit Ca2+ uptake for lasolocid A but do not influence ionomycin-mediated uptake.
Detection of mild traumatic brain injury in pediatric populations using BrainCheck, a tablet-based cognitive testing software: a preliminary study (2020)

Aim: Despite its high frequency of occurrence, mild traumatic brain injury (mTBI), or concussion, is difficult to recognize and diagnose, particularly in pediatric populations. Conventional methods to diagnose mTBI primarily rely on clinical questionnaires and sometimes include neuroimaging or pencil and paper neuropsychological testing. However, these methods are time consuming, require administration/interpretation from health professionals, and lack adequate test sensitivity and specificity. This study explores the use of BrainCheck Sport, a computerized neurocognitive test that is available on iPad, iPhone, or computer desktop, for mTBI assessment. The BrainCheck Sport Battery consists of 6 gamified traditional neurocognitive tests that assess areas of cognition vulnerable to mTBI such as attention, processing speed, executing functioning, and coordination. Methods: We administered BrainCheck Sport to 10 participants diagnosed with mTBI at the emergency department of Children’s hospital or local high school within 96 hours of injury, and 115 normal controls at a local high school. Statistical analysis included Mann-Whitney U test, chi-square tests, and Hochberg tests to examine differences between the mTBI group and control group on each assessment in the battery. Significant metrics from these assessments were used to build a logistic regression model that distinguishes mTBI from control participants. Results: BrainCheck Sport was able to detect significant differences in Coordination, Stroop, Immediate/Delayed Recognition between normal controls and mTBI patients. Receiver operating characteristic (ROC) analysis of our logistic regression model found a sensitivity of 84% and specificity of 81%, with an area under the curve of 0.884. Conclusions: BrainCheck Sport has potential in distinguishing mTBI from control participants, by providing a shorter, gamified test battery to assess cognitive function after brain injury, while also providing a method for tracking recovery with the opportunity to do so remotely from a patient’s home.
Cerenkov emission induced by external beam radiation stimulates molecular fluorescence (2011)

The results here indicate that molecular fluorescence monitoring during external beam radiotherapy is possible.
Supporting Personal Narrative for Children with Complex Communication Needs (2012)

Children with complex communication needs who use voice output communication aids seldom engage in extended conversation. The “How was School today...?” system has been designed to enable such children to talk about their school day. The system uses data-to-text technology to generate narratives from sensor data. Observations, interviews and prototyping were used to ensure that stakeholders were involved in the design of the system. Evaluations with three children showed that the prototype system, which automatically generates utterances, has the potential to support disabled individuals to participate better in interactive conversation. Analysis of a conversational transcript and observations indicate that the children were able to access relevant conversation and had more control in the conversation in comparison to their usual interactions where control lay mainly with the speaking partner. Further research to develop an improved, more rugged system that supports users with different levels of language ability is now underway.
Differential Cytokine, Chemokine and Growth Factor Expression in Phenotypes of Chronic Lung Allograft Dysfunction (2014)

There were major differences in cytokine and chemokine expression in our different study groups. Especially IL-6, but also IP-10/CXCL10, and VEGF may be interesting mediators in RAS.
Continuous glucose monitoring to assess glycemic control in the first 6 weeks after pancreas transplantation (2019)

All 3 types of PT resulted in excellent glucose control 3-6 weeks post-procedure. CGM outcomes represent an important objective outcome after PT.
The Use of a Kirschner Wire in the Treatment of a Comminuted Le Fort I Fracture: A Case Report (2011)

Simultaneous fracture of the maxilla and cervical vertebrae rarely occurs in bicycling accidents. The following case report describes a simple technique for closed reduction of a severely comminuted maxillary fracture with shattering of the dentoalveolar process. The combination of a rigid external distractor halo frame on the skull, a Kirschner wire through the maxilla, and an intermaxillary wire fixation resulted in stable vertical and sagittal correction of the fragmented maxilla with adequate access and minimal manipulation and without necessitating removal of the cervical collar.
Stabilization of Cubic AlN in Epitaxial AlN/TiN Superlattices (1997)

The high-pressure rocksalt structure of AlN was stabilized in epitaxial AlN/TiN(001) superlattices with AlN layer thickness $\ensuremath{\le}2.0\mathrm{nm}$. The AlN layers were shown to be pure rocksalt-structure AlN, with a stress-free lattice parameter of $0.408\ifmmode\pm\else\textpm\fi{}0.002\mathrm{nm}$, using x-ray diffraction, transmission electron microscopy, and electron energy loss spectroscopy. The stable hexagonal phase was observed for AlN layer thickness $&gt;2\mathrm{nm}$. The rocksalt structure formed at small layer thicknesses since it provided lower AlN/TiN interfacial energy than the hexagonal or zinc-blende structures.
Experimental demonstration of nonreciprocal amplified spontaneous emission in a CoFe clad semiconductor optical amplifier for use as an integrated optical isolator (2004)

Experimental results are presented for an integrated-optical-waveguide-isolator concept. This concept is based on inducing the transverse magneto-optic Kerr effect in a semiconductor InP-based optical amplifier (SOA) by using a transversely magnetized ferromagnetic metal as an electrical contact. As a result, the SOA exhibits nonreciprocal loss/gain for TM polarized light and is easily monolithically integrated with other InP-based active photonic devices. We have designed, fabricated and characterized prototype ferromagnetic metal-clad optical amplifiers for an operation wavelength of 1300nm. In these first generation devices we obtained isolation strengths of up to 2.0dB∕mm.
Differences of supranucleosomal organization in different kinds of chromatin: cell type-specific globular subunits containing different numbers of nucleosomes. (1984)

Fractions of homogeneously-sized supranucleosomal particles can be obtained in high yield and purity from various types of cells by brief micrococcal nuclease digestion (10 or 20 s) of condensed chromatin in 100 mM NaCl followed by sucrose gradient centrifugation and agarose gel electrophoresis. These chromatin particles, which contain only DNA and histones, differed according to cell type. Sea urchin spermatozoa (Paracentrotus lividus) gave rise to heavy particles (ca. 260 S) with a mean diameter (48 nm). These resembled the unit chromatin fibrils fixed in situ, which contain an average of 48 nucleosomes, as determined both by electron microscopy after unraveling in low salt buffer and gel electrophoresis. In contrast, higher order particles from chicken erythrocyte chromatin were smaller (105 S; 36-nm diam) and contained approximately 20 nucleosomes. The smallest type of supranucleosomal particle was obtained from chicken and rat liver (39 S; 32-nm diam; eight nucleosomes). Oligomeric chains of such granular particles could be recognized in regions of higher sucrose density, indicating that distinct supranucleosomal particles of globular shape are not an artifact of exposure to low salt concentrations but can be obtained at near-physiological ionic strength. The demonstration of different particle sizes in chromatin from different types of nuclei is contrary to the view that such granular particles are produced by artificial breakdown into "detached turns" from a uniform and general solenoid structure of approximately six nucleosomes per turn. Our observations indicate that the higher order packing of the nucleosomal chain can differ greatly in different types of nuclei and the supranucleosomal organization of chromatin differs between cell types and is related to the specific state of cell differentiation.