gebhart/patrepeval huggingface dataset:
Nitric Oxide in Health and Disease of the Respiratory System (2004)

During the past decade a plethora of studies have unravelled the multiple roles of nitric oxide (NO) in airway physiology and pathophysiology. In the respiratory tract, NO is produced by a wide variety of cell types and is generated via oxidation of l-arginine that is catalyzed by the enzyme NO synthase (NOS). NOS exists in three distinct isoforms: neuronal NOS (nNOS), inducible NOS (iNOS), and endothelial NOS (eNOS). NO derived from the constitutive isoforms of NOS (nNOS and eNOS) and other NO-adduct molecules (nitrosothiols) have been shown to be modulators of bronchomotor tone. On the other hand, NO derived from iNOS seems to be a proinflammatory mediator with immunomodulatory effects. The concentration of this molecule in exhaled air is abnormal in activated states of different inflammatory airway diseases, and its monitoring is potentially a major advance in the management of, e.g., asthma. Finally, the production of NO under oxidative stress conditions secondarily generates strong oxidizing agents (reactive nitrogen species) that may modulate the development of chronic inflammatory airway diseases and/or amplify the inflammatory response. The fundamental mechanisms driving the altered NO bioactivity under pathological conditions still need to be fully clarified, because their regulation provides a novel target in the prevention and treatment of chronic inflammatory diseases of the airways.
Flow graph machine models in microcode synthesis (1983)

Retargetability of microcode compilers is currently a major issue in microprogramming. We address the issue of local code generation from machine-independent specifications using weakest precondition semantics. The micromachine model used is a flow graph which is an abstract representation of the data paths of the machine. Examples of code generated by a prototype implementation are provided as an illustration of the method.
Targeted radionuclide therapy with 90Y-DOTATOC in patients with neuroendocrine tumors. (2006)

90Y-DOTATOC is a safe and effective treatment for patients with metastatic neuroendocrine tumors.
Oral Transmucosal or Intramuscular Administration of Dexmedetomidine–Methadone Combination in Dogs: Sedative and Physiological Effects (2020)

The aim of this study was to compare the sedative and physiological effects following either oral transmucosal (OTM) or intramuscular administration of dexmedetomidine-methadone combination in healthy dogs. Thirty dogs were randomly assigned to receive a dexmedetomidine-methadone combination either by the OTM (<i>n</i> = 15) or intramuscular (<i>n</i> = 15) route. Sedation was scored 10, 20, and 30 min after drugs administration. Heart rate (HR), non-invasive blood pressure (NIBP), respiratory rate (f<sub>R</sub>), and body rectal temperature were recorded before drugs administration and then every 10 min for 30 min. Propofol dose required for orotracheal intubation was recorded. Sedation scores increased over time within both groups with higher values in intramuscular group (<i>p</i> < 0.05). Within each group, HR decreased significantly compared with baseline <i>(p</i> < 0.001) and was significantly lower in intramuscular group compared with the OTM group (<i>p</i> < 0.001). In both groups, NIBP increased significantly compared with baseline (<i>p</i> < 0.05). In the intramuscular group, f<sub>R</sub> was lower compared with the OTM group at all the observational time points (<i>p</i> < 0.001). Propofol dose was lower in the intramuscular group (<i>p</i> < 0.05). Compared to intramuscular dexmedetomidine-methadone, OTM combination produced lower but effective sedation in healthy dogs.
Preoperative and postoperative levels of plasma protein and amino acid in esophageal and lung cancer patients (1988)

The metabolic changes following thoracic surgery in three groups of patients (esophageal cancer, lung cancer, and hiatus hernia) have been studied. Before operation patients with esophageal cancer, but not those with lung cancer, had significantly lower plasma total protein and albumin than patients with hiatus hernia. After surgery plasma albumin and total protein fell in both esophageal cancer and hiatus hernia patients, a development attributed to poor nutrition and restricted calorie diet in these two groups of patients respectively. With the exception of alanine and arginine in lung cancer patients, and free tryptophan in lung and esophageal cancer patients, the preoperative concentrations of all plasma amino acids were similar in both groups of cancer patients and in those with hiatus hernia. After operation the concentrations of glutamine, total tryptophan, alanine, glycine, and arginine fell sharply, whereas those of phenylalanine, lysine, valine, and leucine were slightly or not at all affected by surgery. The immediate postoperative fall of plasma free amino acids is thought to be due to the increased rate of gluconeogenesis. The rise of free fraction of plasma tryptophan after surgery is related to the raised level of plasma free fatty acids and increased secretions of catecholamines, which is believed to follow surgery.
Formal proofs in real algebraic geometry: from ordered fields to quantifier elimination (2012)

This paper describes a formalization of discrete real closed fields in the Coq proof assistant. This abstract structure captures for instance the theory of real algebraic numbers, a decidable subset of real numbers with good algorithmic properties. The theory of real algebraic numbers and more generally of semi-algebraic varieties is at the core of a number of effective methods in real analysis, including decision procedures for non linear arithmetic or optimization methods for real valued functions. After defining an abstract structure of discrete real closed field and the elementary theory of real roots of polynomials, we describe the formalization of an algebraic proof of quantifier elimination based on pseudo-remainder sequences following the standard computer algebra literature on the topic. This formalization covers a large part of the theory which underlies the efficient algorithms implemented in practice in computer algebra. The success of this work paves the way for formal certification of these efficient methods.
EVD-based channel estimation in multicell multiuser MIMO systems with very large antenna arrays (2012)

This paper considers multicell multiuser MIMO systems with very large antenna arrays at the base station. We propose an eigenvalue-decomposition-based approach to channel estimation, that estimates the channel blindly from the received data. The approach exploits the asymptotic orthogonality of the channel vectors in very large MIMO systems. We show that the channel to each user can be estimated from the covariance matrix of the received signals, up to a remaining scalar multiplicative ambiguity. A short training sequence is required to resolve this ambiguity. Furthermore, to improve the performance of our approach, we combine it with the iterative least-square with projection (ILSP) algorithm. Numerical results verify the effectiveness of our channel estimation approach.
A Simple Hydrothermal Route to Large‐Scale Synthesis of Uniform Silver Nanowires (2004)

This paper describes the preparation of uniform silver nanowires by reducing freshly prepared silver chloride with glucose at 180 degrees C for 18 hours in the absence of any surfactants or polymers. Scanning electron microscopy studies indicated that the silver nanowires are about 100 nm in diameter and up to 500 microm in length. High-resolution transmission electron microscopy analyses showed that the silver nanowires grow perpendicularly to the Ag(200) plane. The silver nanowires are believed to grow through a solid-solution-solid process. Some influential factors on the growth of silver nanowires are also discussed.
Synthesis, characterization, and studies on the solid-state crosslinking of functionalized vinyl cinnamate polymers (1998)

Functionalized vinyl cinnamate monomers were synthesized by the reaction between hydroxyethylacrylate (HEA) and substituted cinnamoyl chlorides possessing electron releasing and withdrawing functional groups like chloro, methoxy, and nitro groups at the para position of the aromatic ring. The structures of these monomers were characterized by Fourier transform infrared (FTIR), 1H-, and 13C-NMR spectral techniques. The homopolymers of the synthesized monomers were obtained by the free radical solution polymerization in dimethylformamide (DMF) at 80°C for 12 h using azobisisobutyronitrile (AIBN) as a radical initiator. The sensitivity of these polymers towards light was studied by monitoring the photocrosslinking nature of the polymers by ultraviolet (UV) and FTIR techniques. The effect of the functional groups on the crosslinking efficiency was studied and compared with that of the unsubstituted polymer. The cyclobutane-type addition mechanism involved in the photocrosslinking phenomena was confirmed by the above spectral studies in the functionalized vinyl cinnamate polymers. © 1998 John Wiley & Sons, Inc. J Appl Polym Sci 67: 441–448, 1998
WARTIME TRAUMATIC CEREBRAL VASOSPASM (2006)

Traumatic vasospasm occurred in a substantial number of patients with severe neurotrauma, and clinical outcomes were worse for those with this condition. However, aggressive open surgical and endovascular treatment strategies may have improved outcome. This was the first study to analyze the effects of blast-related injury on the cerebral vasculature.
Interactive design of 3D-printable robotic creatures (2015)

We present an interactive design system that allows casual users to quickly create 3D-printable robotic creatures. Our approach automates the tedious parts of the design process while providing ample room for customization of morphology, proportions, gait and motion style. The technical core of our framework is an efficient optimization-based solution that generates stable motions for legged robots of arbitrary designs. An intuitive set of editing tools allows the user to interactively explore the space of feasible designs and to study the relationship between morphological features and the resulting motions. Fabrication blueprints are generated automatically such that the robot designs can be manufactured using 3D-printing and off-the-shelf servo motors. We demonstrate the effectiveness of our solution by designing six robotic creatures with a variety of morphological features: two, four or five legs, point or area feet, actuated spines and different proportions. We validate the feasibility of the designs generated with our system through physics simulations and physically-fabricated prototypes.
Two Studies of High Performance Attitude Determination Using GPS: Generalizing Wahba's Problem for High Output Rates and Evaluation of Static Accuracy Using a Theodolite (1992)

The sub-centimeter relative positioning capability of GPS is now being applied as a practical means of sensing attitude. Pointing accuracy and throughput (solution output rate) are key performance issues in attitude
determination using GPS. This paper studies both of these elements.
Because attitude determination is inherently a real-time application of GPS , computational cfliciency is the key to obtaining maximum throughput for GPS receiver hardware. New algorithms based on attitude
determination using vector observations (Wahba’s Problem) offer the fastest known way to process GPS carrier phase into full attitude solutions. The vector observations methodology obtains the maximum
likelihood estimate to this non-linear cost function to full accuracy with unprecedented speed. This result paves the way to achieving the highest possible attitude solution output rates.
Absolute pointing accuracy is the other side of the high performance equation. The physical orientation of an antenna array was determined using a high-precision theodolite and standard surveying techniques. This orientation was then compared to the attitude determined from a Trimble VECTOR GPS receiver during a series of overnight runs in a realistic, less-than-ideal multipath environment. To add a further element of realism into the testing, no ground planes were used on the antennas.
Strategies for the induction of immune responses at mucosal surfaces making use of cholera toxin B subunit as immunogen, carrier, and adjuvant. (1994)

The concept of a common mucosal immune system, through which specific antigen-activated lymphocytes from the gut can disseminate immunity both along the intestinal tract and to various other mucosal and glandular tissues, has generated much current interest in the possibility of developing oral vaccines, not only for enteric infections but also for infections in the respiratory and urogenital tracts. However, to date it has proven difficult in practice to stimulate strong mucosal IgA immune responses by either parenteral or oral-mucosal administration of most antigens, and experience with soluble protein antigens has, on the whole, been disappointing. A notable exception in this regard is cholera toxin (CT) and in humans more than in other species, its nontoxic B subunit pentamer moiety (CTB). Based on this, CTB has become an important component in recently developed oral vaccines against cholera as well as against diarrhea caused by enterotoxigenic Escherichia coli producing CT-like heat-labile enterotoxin(s). Since the strong immunogenicity of CT and CTB can, to a large extent, be explained by their ability to bind to receptors on the intestinal mucosal surface, there has recently been much interest in approaches using CTB as an oral delivery carrier system for other vaccine-relevant antigens, and much progress has been made in preparing immunogenic hybrid proteins by coupling various protein or peptide antigens chemically or genetically to CTB. Indeed, in several systems, oral administration of such hybrid antigens has been found to markedly potentiate both intestinal and extraintestinal IgA immune responses against the CTB-coupled antigens and also to elicit substantial circulating antibody responses. Besides the mucosal immunopotentiating effect of either CT or CTB owing to their similar capacity as oral antigen-delivery vehicles, CT, but in most systems tested not CTB, also has strong adjuvant properties for stimulating mucosal IgA immune responses to admixed (not coupled) unrelated antigens after oral immunization. This adjuvant activity appears to be closely linked to the ADP-ribosylating action of CT (and specifically of its A subunit) leading to enhanced cyclic AMP formation in the affected cell, and efforts to eliminate the enterotoxic activity without losing adjuvanticity have so far not met with success.
Harnessing the Anti-Cancer Natural Product Nimbolide for Targeted Protein Degradation (2018)

Abstract Nimbolide, a terpenoid natural product derived from the Neem tree, impairs cancer pathogenicity across many types of human cancers; however, the direct targets and mechanisms by which nimbolide exerts its effects are poorly understood. Here, we used activity-based protein profiling (ABPP) chemoproteomic platforms to discover that nimbolide reacts with a novel functional cysteine crucial for substrate recognition in the E3 ubiquitin ligase RNF114. Nimbolide impairs breast cancer cell proliferation in-part by disrupting RNF114 substrate recognition, leading to inhibition of ubiquitination and degradation of the tumor-suppressors such as p21, resulting in their rapid stabilization. We further demonstrate that nimbolide can be harnessed to recruit RNF114 as an E3 ligase in targeted protein degradation applications and show that synthetically simpler scaffolds are also capable of accessing this unique reactive site. Our study highlights the utility of ABPP platforms in uncovering unique druggable modalities accessed by natural products for cancer therapy and targeted protein degradation applications.
Fibrin sealant: summary of a conference on characteristics and clinical uses (1995)

The 2-day conference clearly outlined the formulations of products that are being developed or are commercially available in Europe. The major difference between products in the United States and those in Europe is that US manufacturers are preparing fibrin sealant that does not contain aprotinin, epsilon amino caproic acid, or any other type of antifibrinolytic agent, whereas antifibrinolytic agents are included in all such preparations used in Europe. The conference provided no clear consensus that such agents are essential to the efficacy of the product. Although many investigators believe in the clinical benefit of fibrin sealant, most of the studies to demonstrate efficacy have not been performed in a well-controlled fashion. However, fibrin sealant, if found in a controlled trial to have clinical efficacy, could be approved by the FDA for a narrow indication. Opportunities remain for greater exploration of different forms of the product, not only as a hemostatic agent, but as an adjunct to wound healing and as a matrix for delivery of drugs and proteins with other biologic activities.
Unbiased support vector classifiers (2002)

Support Vector Classifiers (SVC) are claimed to provide a natural mechanism for implementing Structural Risk Minimization (SRM), obtaining machines with good generalization capabilities. SVC leads to the optimal hyperplane (maximal margin) criterion for separable datasets but, in the nonseparable case, a functional with an additional term has to be minimized. The particular form of this extra term is such that the minimization can be solved via Quadratic Programming (QP), but, in this case, it represents a rather coarse approximation to the number of errors. We propose an unbiased implementation of SVC by introducing a more appropriate "error counting" term. This way, the number of classification errors is truly minimized (hence the "unbiased" appellative), while the maximal margin solution is obtained in the separable case. QP can no longer be used for solving the new minimization problem, and we apply instead an iterated Weighted Least Squares (WLS) procedure. Computer experiments show that the proposed method is superior to the classical approach in terms of both classification error and machine complexity.
Association between endometriosis and genetic polymorphisms of the estradiol-synthesizing enzyme genes HSD17B1 and CYP19 (2005)

Evidence for association between the Ser312Gly polymorphism in HSD17B1 and endometriosis was found in a Japanese population. The A-allele of HSD17B1 appears to confer higher risk for endometriosis.
Clonal expansion of T lymphocytes in human melanoma metastases after treatment with a hapten-modified autologous tumor vaccine. (1997)

Metastatic melanoma patients treated with an autologous DNP-modified tumor cell vaccine develop inflammatory responses in metastatic tumors characterized by infiltration of CD8+ T cells. To further define this immune response, we analyzed T cell receptor beta-chain variable (TCRBV) region repertoire in biopsy specimens and peripheral blood lymphocytes of six patients. After administration of DNP vaccine, a restricted set of TCRBV gene families was found to be expanded compared with prevaccine metastases. In several postvaccine lesions of one patient, obtained over a 2-yr period, TCRBV14+ T cells were clonally expanded and identical T cell clonotypes could be detected. Two major recurring clones were biased toward the use of TCRBJ1S5. Furthermore, T cell lines derived from two such infiltrated skin lesions and, enriched in TCRBV14+ T cells, displayed HLA-class I-restricted lysis of the autologous melanoma cells. Clonal expansion of T cells was demonstrated in the T cell-infiltrated, postvaccine metastasis of a second patient as well. These results indicate that vaccination with autologous, DNP-modified melanoma cells can expand selected clones of T cells at the tumor site and that such clones are potentially destructive to the tumor.
Gene Expression Profiling of Nephrotoxicity from the Sevoflurane Degradation Product Fluoromethyl-2,2-difluoro-1-(trifluoromethyl)vinyl Ether (“Compound A”) in Rats (2005)

The major degradation product of the volatile anesthetic sevoflurane, the haloalkene fluoromethyl-2,2-difluoro-1-(trifluoromethyl)vinyl ether (FDVE or "compound A"), is nephrotoxic in rats. FDVE undergoes complex metabolism and bioactivation, which mediates the nephrotoxicity. Nevertheless, the molecular and cellular mechanisms of FDVE toxification are unknown. This investigation evaluated the gene expression profile of kidneys in rats administered a nephrotoxic dose of FDVE. Male Fischer 344 rats (five per group) received 0.25 mmol/kg intraperitoneal FDVE or corn oil (controls) and were sacrificed after 24 or 72 h. Urine output and kidney histological changes were quantified. Kidney RNA was extracted for microarray analysis using Affymetrix GeneChip Rat Expression Array 230A arrays. Quantitative real-time PCR confirmed the modulation of several genes. FDVE caused significant diuresis and necrosis at 24 h, with normal urine output and evidence of tubular regeneration at 72 h. There were 517 informative genes that were differentially expressed >1.5-fold (p < 0.05) versus control at 24 h, of which 283 and 234 were upregulated and downregulated, respectively. Major classes of upregulated genes included those involved in apoptosis, oxidative stress, and inflammatory response (mostly at 24 h), and regeneration and repair; downregulated genes were generally associated with transporters and intermediary metabolism. Among the quantitatively most upregulated genes were kidney injury molecule, osteopontin, clusterin, tissue inhibitor of metalloproteinase 1, and TNF receptor 12, which have been associated with other forms of nephrotoxicity, and angiopoietin-like protein 4, glycoprotein nmb, ubiquitin hydrolase, and HSP70. Microarray results were confirmed by quantitative real-time PCR. FDVE causes rapid and brisk changes in gene expression, providing potential insights into the mechanism of FDVE toxification, and potential biomarkers for FDVE nephrotoxicity which are more sensitive than conventional measures of renal function.
Threonine 68 phosphorylation by ataxia telangiectasia mutated is required for efficient activation of Chk2 in response to ionizing radiation. (2000)

Eukaryotic cells activate an evolutionarily conserved set of proteins that rapidly induce cell cycle arrest to prevent replication or segregation of damaged DNA before repair is completed. In response to ionizing radiation (IR), the cell cycle checkpoint kinase, Chk2 (hCds1), is phosphorylated and activated in an ataxia telangiectasia mutated (ATM)-dependent manner. Here we show that the ATM protein kinase directly phosphorylates T68 within the SQ/TQ-rich domain of Chk2 in vitro and that T68 is phosphorylated in vivo in response to IR in an ATM-dependent manner. Furthermore, phosphorylation of T68 was required for full activation of Chk2 after IR. Together, these data are consistent with the model that ATM directly phosphorylates Chk2 in vivo and that this event contributes to the activation of Chk2 in irradiated cells.
Heredity and Age-Related Macular Degeneration (1994)

Although selection factors and similar environmental influences might impact our findings, the markedly similar incidence of macular degenerative changes in these monozygotic twins suggests that a substantial genetic component may exist in a potentially large proportion of patients with age-related macular degeneration. Further studies are warranted to define this hereditary influence.