gebhart/patrepeval huggingface dataset:
<title>Application of the aerial image measurement system (AIMS)<formula><sup><roman>TM</roman></sup></formula> to the analysis of binary mask imaging and resolution enhancement techniques</title> (1994)

The newly developed Aerial Image Measurement System (AIMS<SUP>TM*</SUP>) was used to quantify the lithographic benefits of several resolution enhancement techniques as compared to standard binary mask imaging. This system, a microscope based stepper emulator, permits rapid characterization of mask images from both binary and phase shifted mask (PSM) patterns at multiple focal planes. The resultant images are captured digitally with a CCD camera and analyzed using an exposure-defocus tree technique to quantify the depth-of-focus as a function of exposure latitude. The AIMS is used to extract both phase and transmission errors from captured aerial images of all the masks evaluated. AIMS results are compared to wafer electrical linewidth data. A 0.5 numerical aperture (NA) DUV stepper was used with a partial coherence of 0.6 combined with IBM APEX-E resist process. Collected data were analyzed using techniques identical to the AIMS analysis, allowing for a high level of consistency. Comparative data focused on binary mask imaging for the verification of the AIMS results. Trends associated with feature sizes and types are discussed.
A Potential Noninvasive Neurobiological Test for Alzheimer's Disease (1994)

Currently Alzheimer's disease, which affects more than 20 million people worldwide, can only be definitely diagnosed by histological examination of brain tissue obtained at autopsy or biopsy. There is a great need for an early, noninvasive, sensitive, and easily administered diagnostic test of Alzheimer's disease. Here it is reported that patients diagnosed with probable Alzheimer's disease by standard clinical criteria exhibited a marked hypersensitivity in their pupil dilation response to a cholinergic antagonist, tropicamide, placed in their eyes. It was possible to distinguish 18 of 19 individuals (95%) either clinically diagnosed with Alzheimer's disease or classified as suspect Alzheimer's individuals by neuropsychological screening from 30 of 32 normal elderly controls (94%).
Palindrome Resolution and Recombination in the Mammalian Germ Line (1997)

Genetic instability is promoted by unusual sequence arrangements and DNA structures. Hairpin DNA structures can form from palindromes and from triplet repeats, and they are also intermediates in V(D)J recombination. We have measured the genetic stability of a large palindrome which has the potential to form a one-stranded hairpin or a two-stranded cruciform structure and have analyzed recombinants at the molecular level. A palindrome of 15.3 kb introduced as a transgene was found to be transmitted at a normal Mendelian ratio in mice, in striking contrast to the profound instability of large palindromes in prokaryotic systems. In a significant number of progeny mice, however, the palindromic transgene is rearranged; between 15 and 56% of progeny contain rearrangements. Rearrangements within the palindromic repeat occur both by illegitimate and homologous, reciprocal recombination. Gene conversion within the transgene locus, as quantitated by a novel sperm fluorescence assay, is also elevated. Illegitimate events often take the form of an asymmetric deletion that eliminates the central symmetry of the palindrome. Such asymmetric transgene deletions, including those that maintain one complete half of the palindromic repeat, are stabilized so that they cannot undergo further illegitimate rearrangements, and they also exhibit reduced levels of gene conversion. By contrast, transgene rearrangements that maintain the central symmetry continue to be unstable. Based on the observed events, we propose that one mechanism promoting the instability of the palindrome may involve breaks generated at the hairpin structure by a hairpin-nicking activity, as previously detected in somatic cells. Because mammalian cells are capable of efficiently repairing chromosome breaks through nonhomologous processes, the resealing of such breaks introduces a stabilizing asymmetry at the center of the palindrome. We propose that the ability of mammalian cells to eliminate the perfect symmetry in a palindromic sequence may be an important DNA repair pathway, with implications regarding the metabolism of palindromic repeats, the mutability of quasipalindromic triplet repeats, and the early steps in gene amplification events.
Activation of caspases-8 and -10 by FLIPL (2004)

The first step in caspase activation is transition of the latent zymogen to an active form. For the initiator caspases, this occurs through dimerization of monomeric zymogens at an activating complex. Recent studies have suggested that FLIP(L) [FLICE-like inhibitory protein, long form; FLICE is FADD (Fas-associated death domain protein)-like interleukin-1beta-converting enzyme], previously thought to act solely as an inhibitor of caspase-8 activation, can under certain circumstances function to enhance caspase activation. Using an in vitro induced-proximity assay, we demonstrate that activation of caspases-8 and -10 occurs independently of cleavage of either the caspase or FLIP(L). FLIP(L) activates caspase-8 by forming heterodimeric enzyme molecules with substrate specificity and catalytic activity indistinguishable from those of caspase-8 homodimers. Significantly, the barrier for heterodimer formation is lower than that for homodimer formation, suggesting that FLIP(L) is a more potent activator of caspase-8 than is caspase-8 itself.
Salivary Ribonuclease in Cystic Fibrosis and Control Subjects (1984)

Alkaline acid- and thermo-stable ribonuclease (RNAase) was assayed in whole mixed saliva from controls and from cystic fibrosis (CF) heterozygotes and homozygotes. There was a significant difference in salivary RNAase activity between control adults (n = 99) and CF heterozygotes (n = 77) (12.6 +/- 0.60 and 36.6 +/- 2.2 U/l, mean +/- SE respectively; p less than 0.001) and between control children (n = 1834) and CF patients (n = 60) (7.9 +/- 0.15 and 47.0 +/- 5.4 U/l respectively; p less than 0.001). A statistically significant difference in salivary RNAase activity was also found between control children and control adults (p less than 0.001) and between CF homozygotes and CF heterozygotes (p less than 0.001). The protein concentration was significantly increased by about 50-60% in saliva both from CF heterozygotes and from CF homozygotes (p less than 0.001 for both groups). It is concluded that in view of the great overlapping in values between the groups, these tests can only be of limited use for diagnostic purposes.
Antibody and CD8+ T Cell Responses against HER2/neu Required for Tumor Eradication after DNA Immunization with a Flt-3 Ligand Fusion Vaccine (2007)

These results show that active induction of both humoral and cellular immunity to HER2/neu is required for efficient tumor protection, and that neither response alone is sufficient.
Cellular Internalization and Degradation of Thrombospondin-1 Is Mediated by the Amino-terminal Heparin Binding Domain (HBD) (1997)

Thrombospondin-1 (TSP-1) is a large modular trimeric protein that has been proposed to play a diverse role in biological processes. Newly synthesized TSP-1 either is incorporated into the matrix or binds to the cell surface where it is rapidly internalized and degraded. TSP-1 catabolism is mediated by the low density lipoprotein receptor-related protein (LRP), a large endocytic receptor that is a member of the low density lipoprotein receptor family. Using adenovirus-mediated gene transfer experiments, we demonstrate that the very low density lipoprotein receptor can also bind and internalize TSP-1. An objective of the current investigation was to identify the portion of TSP-1 that binds to these endocytic receptors. The current studies found that the amino-terminal heparin binding domain (HBD, residues 1-214) of mouse TSP-1, when prepared as a fusion protein with glutathione S-transferase (GST), bound to purified LRP with an apparent KD ranging from 10 to 25 nM. Recombinant HBD (rHBD) purified following proteolytic cleavage of GST-HBD, also bound to purified LRP, but with an apparent KD of 830 nM. The difference in affinity was attributed to the fact that GST-HBD exists in solution as a dimer, whereas rHBD is a monomer. Like TSP-1, 125I-labeled GST-HBD or 125I-labeled rHBD were internalized and degraded by wild type fibroblasts that express LRP, but not by fibroblasts that are genetically deficient in LRP. The catabolism of both 125I-labeled GST-HBD and rHBD in wild type fibroblast was blocked by the 39-kDa receptor-associated protein, an inhibitor of LRP function. GST-HBD and rHBD both completely blocked catabolism of 125I-labeled TSP-1 in a dose-dependent manner, as did antibodies prepared against the HBD. Taken together, these data provide compelling evidence that the amino-terminal domain of TSP-1 binds to LRP and thus the recognition determinants on TSP-1 for both LRP and for cell surface proteoglycans reside within the same TSP-1 domain. Further, high affinity binding of TSP-1 to LRP likely results from the trimeric structure of TSP-1.
A Highly Efficient Method to Differentiate Smooth Muscle Cells From Human Embryonic Stem Cells (2007)

The molecular mechanisms and the control of smooth muscle cell (SMC) differentiation have been extensively investigated because of its therapeutic potential. To date, different cell types have been used to study SMC differentiation, including a variety of mouse embryonic stem cells, 2 adult stem cells, 3,4 and others. 5 Because several fundamental differences exist between mouse and human embryonic development, 6 lack of a good model system to study human SMC differentiation has hampered the progress of translating SMC knowledge to novel clinical therapies.
SORI: a secure and objective reputation-based incentive scheme for ad-hoc networks (2004)

In an ad-hoc network, intermediate nodes on a communication path are expected to forward packets of other nodes so that the mobile nodes can communicate beyond their wireless transmission range. However, because wireless mobile nodes are usually constrained by limited power and computation resources, a selfish node may be unwilling to spend its resources in forwarding packets which are not of its direct interest, even though it expects other nodes to forward its packets to the destination. It has been shown that the presence of such selfish nodes degrades the overall performance of a non-cooperative ad hoc network. To address this problem, we propose a secure and objective reputation-based incentive (SORI) scheme to encourage packet forwarding and discipline selfish behavior. Different from the existing schemes, under our approach, the reputation of a node is quantified by objective measures, and the propagation of reputation is efficiently secured by a one-way-hash-chain-based authentication scheme. Armed with the reputation-based mechanism, we design a punishment scheme to penalize selfish nodes. The experimental results show that the proposed scheme can successfully identify selfish nodes and punish them accordingly.
Effect of intranasal dexmedetomidine on emergence agitation after sevoflurane anesthesia in children undergoing tonsillectomy and/or adenoidectomy (2017)

This study demonstrates that a 1 μg/kg dose of intranasal dexmedetomidine administered after the induction of anesthesia reduces post-sevoflurane incidence and severity of EA in children undergone tonsillectomy and/or adenoidectomy with no adverse effects and smooth recovery profile.
Molecular Staging of Early Colon Cancer on the Basis of Sentinel Node Analysis: A Multicenter Phase II Trial (2001)

Identification and focused examination of the SN is a novel method of staging CRC. CK-IHC and RT-PCR identified occult micrometastases in 53% of patients whose SNs were negative by conventional staging techniques. These ultrasensitive assays of the SN can identify patients who may be at high risk for recurrence of CRC and therefore are more likely to benefit from systemic adjuvant therapy.
Recombinant Canarypox Vaccine-Elicited CTL Specific for Dominant and Subdominant Simian Immunodeficiency Virus Epitopes in Rhesus Monkeys (2002)

Since virus-specific CTL play a central role in containing HIV replication, a candidate AIDS vaccine should generate virus-specific CTL responses. In this study, the ability of a recombinant canarypox virus expressing SIV Gag-Pol-Env (ALVAC/SIV gag-pol-env) was assessed for its ability to elicit both dominant and subdominant epitope-specific CTL responses in rhesus monkeys. Following a series of five immunizations, memory CTL responses specific for a dominant Gag epitope could be demonstrated in the peripheral blood of vaccinated monkeys. Memory CTL responses to a subdominant Pol epitope were undetectable in these animals. Following challenge with SIVmac251, the experimentally vaccinated animals developed high frequency CTL responses specific for the dominant Gag epitope that emerged in temporal association with the early containment of viral replication. Interestingly, the experimentally vaccinated, but not the control vaccinated animals, developed CTL responses to the subdominant Pol epitope that were detectable only after containment of early viremia. Thus, recombinant canarypox vaccination elicited low frequency, but durable memory CTL populations. The temporal association of the emergence of the dominant epitope-specific response with early viral containment following challenge suggests that this immune response played a role in the accelerated clearing of early viremia in these animals. The later emerging CTL response specific for the subdominant epitope may contribute to the control of viral replication in the setting of chronic infection.
Bile reflux gastritis and intestinal metaplasia at the cardia (2002)

Histological evidence of bile reflux into the stomach is associated with cardia IM. This could have an important bearing on carcinogenesis at this site.
Transformation of Bacillus amyloliquefaciens by electroporation (1989)

A method for transformation of whole Bacillus amyloliquefaciens cells by electroporation was developed. The procedure is as efficient as the protoplast transformation method, resulting in up to 105 transformants/µg plasmid DNA, but requires less effort and time. Cells for electroporation were grown to late exponential phase in a rich medium supplemented with 0.25 M sucrose, washed with and resuspended in 0.25 M sucrose, 1 mM HEPES, 1 mM MgCl2, 10% (v/v) glycerol, pH 7.0, at 3–5 × 1010 cells/ml for storage at -80%°C. The highest transformation frequency was obtained at 7.5 kV/cm with a 25 µF capacitor. The transformation efficiency increased linearly with DNA concentration at least over the range 10 ng-12.5 µg/ml. Transformations with ligated DNA and of industrial strains were also successful. In addition, B. subtilis cells treated as above could be transformed by electroporation, resulting in 104 transformants/µg DNA at 12.5 kV/cm.
Virus DNA packaging: the strategy used by phage λ (1995)

Phage lambda, like a number of other large DNA bacteriophages and the herpesviruses, produces concatemeric DNA during DNA replication. The concatemeric DNA is processed to produce unit-length, virion DNA by cutting at specific sites along the concatemer. DNA cutting is co-ordinated with DNA packaging, the process of translocation of the cut DNA into the preformed capsid precursor, the prohead. A key player in the lambda DNA packaging process is the phage-encoded enzyme terminase, which is involved in (i) recognition of the concatemeric lambda DNA; (ii) initiation of packaging, which includes the introduction of staggered nicks at cosN to generate the cohesive ends of virion DNA and the binding of the prohead; (iii) DNA packaging, possibly including the ATP-driven DNA translocation; and (iv) following translocation, the cutting of the terminal cosN to complete DNA packaging. To one side of cosN is the site cosB, which plays a role in the initiation of packaging; along with ATP, cosB stimulates the efficiency and adds fidelity to the endonuclease activity of terminase in cutting cosN. cosB is essential for the formation of a post-cleavage complex with terminase, complex I, that binds the prohead, forming a ternary assembly, complex II. Terminase interacts with cosN through its large subunit, gpA, and the small terminase subunit, gpNu1, interacts with cosB. Packaging follows complex II formation. cosN is flanked on the other side by the site cosQ, which is needed for termination, but not initiation, of DNA packaging. cosQ is required for cutting of the second cosN, i.e. the cosN at which termination occurs. DNA packaging in lambda has aspects that differ from other lambda DNA transactions. Unlike the site-specific recombination system of lambda, for DNA packaging the initial site-specific protein assemblage gives way to a mobile, translocating complex, and unlike the DNA replication system of lambda, the same protein machinery is used for both initiation and translocation during lambda DNA packaging.
Adsorbate deformation as a contrast mechanism in stm imaging of biopolymers in an aqueous environment (1988)

The Scanning Tunneling Microscope (STM) has already been applied to several problems in biology. Examples are imaging of both stained and unstained biopolymers adsorbed on substrates such as graphite in air and in vacuo, AFM images of the surface of a polypeptide crystal and STM images of carbon-platinum replicas. Useful though these methods are, they involve dehydration of the samples and, in the case of adsorbates on graphite, the experiments are not easy to repeat. Sonnenfeld and Hansma have invented a method for operating the STM in conducting solvents'. We have been investigating the mechanism of the STM operated in a non-UHV environment and are using the STM to study aggregates of biopolymers on a metal substrate submerged under a buffer solution. Although formation of the aggregates must modify hydrated biopolymers considerably, repeatable images are obtained relatively easily, and deposition from a biochemically useful environment is straightforward.
Requirement of a dynein light chain in TGFβ/Smad3 signaling (2009)

We have previously reported that the dynein light chain (DLC) km23-1 is required for Smad2-dependent TGFbeta signaling. Here we describe another member of the km23/DYNLRB/LC7/robl family of DLCs, termed km23-2, which is also involved in TGFbeta signaling. We show not only that TGFbeta stimulates the interaction of km23-2 (DYNLRB2) with TGFbeta receptor II (TbetaRII) but also that TGFbeta regulates the interaction between km23-2 and endogenous TbetaRII in vivo. In addition, TGFbeta treatment causes km23-2 phosphorylation, whereas a kinase-deficient form of TbetaRII prevents km23-2 phosphorylation. In contrast to the km23-1 isoform, blockade of km23-2 expression using small interfering RNAs (siRNAs) decreased key TGFbeta/Smad3-specific responses, including the induction of both plasminogen activator inhibitor-1 (PAI-1) gene expression and p21 protein expression. Blockade of km23-1 expression had no effect on these two major TGFbeta/Smad3 responses under similar conditions. Further, km23-2 was required for TGFbeta stimulation of Smad3-dependent Smad-binding element (SBE)2-Luc transcriptional activity, but not for TGFbeta stimulation of Smad2-dependent activin responsive element (ARE)-Lux transcriptional activity. In order to assess the mechanisms underlying the preferential stimulation of Smad3- versus Smad2-specific TGFbeta responses, immunoprecipitation (IP)/blot analyses were performed, which demonstrate that TGFbeta stimulated preferential complex formation of km23-2 with Smad3, relative to Smad2. Collectively, our findings indicate that km23-2 is required for Smad3-dependent TGFbeta signaling. More importantly, we demonstrate that km23-2 has functions in TGFbeta signaling that are distinct from those for km23-1. This is the first report to describe a differential requirement for unique isoforms of a specific DLC family in Smad-specific TGFbeta signaling.
Submicron enhancement-mode AlGaN/GaN HEMTs (2003)

Most recent GaN-based HEMT technology has been focused toward microwave power applications. In this work, we report DC and RF characteristics of the first E-mode AlGaN/GaN HEMTs fabricated down to 0.2 /spl mu/m gatelength, and having an f/sub t/ reaching 25 GHz. Further improvement of E-mode GaN HEMTs could open potential applications for mixed-signal ICs with a high dynamic range.
Effect of Pimobendan in Dogs with Preclinical Myxomatous Mitral Valve Disease and Cardiomegaly: The EPIC Study—A Randomized Clinical Trial (2016)

Administration of pimobendan to dogs with MMVD and echocardiographic and radiographic evidence of cardiomegaly results in prolongation of preclinical period and is safe and well tolerated. Prolongation of preclinical period by approximately 15 months represents substantial clinical benefit.
Transsphenoidal resection in Cushing's disease: undetectable serum cortisol as the definition of successfuI treatment (1993)

Cushing's disease has not recurred in any patient with an undetectable serum cortisol (< 50 nmol/l) post-operatively. Serum cortisol should be regarded as a tumour marker in Cushing's disease and the aim of transsphenoidal hypophysectomy for Cushing's disease should be to render the immediate post-operative serum cortisol undetectable.
Acute Dehydroepiandrosterone (DHEA) Effects on Sexual Arousal in Postmenopausal Women (2002)

In sum, increases in mental and physical sexual arousal ratings significantly increased in response to an acute dose of DHEA in postmenopausal women.
Nrdp1/FLRF is a ubiquitin ligase promoting ubiquitination and degradation of the epidermal growth factor receptor family member, ErbB3 (2002)

The epidermal growth factor receptor (EGFR/ErbB) family of receptor tyrosine kinases plays fundamental roles in the regulation of cell survival, proliferation, and differentiation. Here, we present evidence that ErbB3 is degraded by proteasomes, and that Nrdp1 (referred to as FLRF in mice) associates with ErbB3 and stimulates its ubiquitination and degradation by proteasomes. Nrdp1 mRNAs are expressed in a variety of human tissues. The N-terminal half of Nrdp1 possesses an atypical RING finger domain, which is required for enhancing ErbB3 degradation. Its C-terminal half by itself associates with ErbB3 and raises ErbB3 levels in cells, probably by acting as a dominant-negative form of Nrdp1. In cell-free systems, Nrdp1 has ubiquitin ligase (E3) activity and ubiquitinates ErbB3, as well as itself, in the presence of the ubiquitin-carrier protein (E2), UbcH5. These data indicate that Nrdp1 is a RING finger-type of ubiquitin ligase, which promotes degradation of ErbB3 by proteasomes and, thus, may be an important factor influencing cell growth.
Gene therapy with poxvirus vectors. (2005)

Poxviruses represent a heterogenous group of DNA viruses that have been utilized to express a multitude of foreign genes. An improved understanding of the virally encoded genes involved in regulating the host immune response has led to specially designed vectors with varying levels of immune induction. Vaccinia virus is the prototypical recombinant poxvirus and can generate potent antibody and T-cell responses. This property has led to the use of recombinant vaccinia viruses as a vaccine against HIV and cancer. The isolation of viruses that do not replicate in mammalian cells provides a source of recombinant vectors for when transient gene expression may be required for a longer period of time. The identification of molecular mediators of host immunity, such as cytokines, co-stimulatory molecules and chemokines, provides another method for manipulating innate and adaptive immune responses to recombinant poxvirus vectors and expressed transgenes. This review focuses on the current status of recombinant poxviruses as vectors for gene therapy of human disease.