gebhart/patrepeval huggingface dataset:
Immunological Detection of Thymidine Photoproduct Formation in vivo (1971)

Rabbits immunized with ultraviolet (UV)-irradiated DNA which was complexed to methylated bovine serum albumin as carrier responded by making high titers of antibodies. These were mainly 7S antibodies and reacted only with UV-irradiated DNA, showing no cross reactions with unirradiated native or heat-denatured single-stranded DNA. The reactions were demonstrated in immunofluorescence by showing that rabbit antisera reacted with nuclei of UV-irradiated tissue sections but not with unirradiated tissue nuclei. In complement fixation, antisera reacted only with irradiated purified DNA. Specific antigenic determinants on UV-irradiated DNA were determined by inhibition of immunofluorescence and complement fixation using irradiated thymine and cytosine and the respective nucleosides and nucleotides as inhibitors. Cytosine photoproducts were not inhibitory but thymine photoproducts were partially inhibitory. Irradiated polycytidylic acid was also not inhibitory but irradiated polydeoxythymidylic acid gave complete...
Properties of large-area surface wave plasma (2006)

Property of rectangular structure surface wave plasma was reported. Large-area uniform and high density plasma was produced by the optimization of slot antenna and the shape of dielectric plates. Plasma density and electron temperature for different operation conditions were measured by a Langmuir probe. Profile of plasma density along the vertical direction was modeled by a diffusive model, and the simulation result can be used to interpret qualitatively the measurement value very well.
Human Drg1 is a potassium‐dependent GTPase enhanced by Lerepo4 (2013)

Human Drg1, a guanine nucleotide binding protein conserved in archaea and eukaryotes, is regulated by Lerepo4. Together they form a complex which interacts with translating ribosomes. Here we have purified and characterized the GTPase activity of Drg1 and three variants, a shortened mutant depleted of the TGS domain, a phosphomimicking mutant and a construct with the two combined mutations. Our data reveal that potassium strongly stimulates the GTPase activity, without changing the monomeric status of Drg1 and that this activity is notably reduced in the mutants. The nature of Lerepo4 association has also been investigated. Dissecting the role of the different domains revealed that Dfrp domain is the sole responsible for the Drg1 increase in thermal stability and the four fold stimulation over its catalytic activity. Lerepo4 action leaves Drg1 affinity for nucleotides unaffected, feasibly favoring a switch I reorientation, mainly via the TGS domain. Drg1 displayed a high temperature optimum of activity at 42°C, suggesting the ability of being active under possible heat stress conditions.
Mengenmessung und Dosierung hoch viskoser Flüssigkeiten (1972)

Abstract Mit Ovalradzählern in Sonderbauart sind flüssige Medien hoher Viskosität bis 100 000 mPa · s und höher (1 mPa · s = 1 cP) volumetrisch erfaßbar; das sind z. B. Kunstharze, Dispersionen, Farben, Lacke, Leime, Klebe‐ und Bindemittel sowie Monomere, Polymerisate und sonstige Ausgangsprodukte für die Schaumstoff‐, Farben‐, Lack‐ und Kunststofferzeugung. Erklärt werden das Meßprinzip, der Aufbau sowie die Anwendungsmöglichkeiten dieses Volumenzählers mit Zusatzgeräten für Meß‐, Dosier‐ und Regelzwecke.
Relaxation of time-dependent NBTI variability and separation from RTN (2017)

NBTI and RTN time-dependent variability is described from a defect-centric perspective. It is shown that NBTI induced threshold voltage shift (ΔV <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">TH</sub> ) distribution is governed by a compound Exponential-Poisson process. Using the memoryless properties of Poisson statistics, it is shown that not only the stressed but also the relaxed fraction follows the Exponential-Poisson distribution. Moreover, the relaxed fraction is shown to be independent from the final remaining ΔV <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">TH</sub> . Using the same statistical model, the separation of RTN induced ΔV <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">TH</sub> from NBTI is shown which allows a more accurate estimation of the characteristic distribution parameters. Finally, it is shown that RTN is a wide-sense stationary noise source of which the autocorrelation can be extracted from analysis of NBTI relaxation traces.
Neural stem cells for the treatment of disorders of the enteric nervous system: Strategies and challenges (2006)

The main goal of this review is to summarize the status of the research in the field of stem cells transplantation, as it is applicable to the treatment of gastrointestinal motility. This field of research has advanced tremendously in the past 10 years, and recent data produced in our laboratories as well as others is contributing to the excitement on the use of neural stem cells (NSC) as a valuable therapeutic approach for disorders of the enteric nervous system characterized by a loss of critical neuronal subpopulations. There are several sources of NSC, and here we describe therapeutic strategies for NSC transplantation in the gut. These include using NSC as a relatively nonspecific cellular replacement strategy in conditions where large populations of neurons or their subsets are missing or destroyed. As with many other recent "breakthroughs" stem cell therapy may eventually prove to be overrated. However, at the present time, it does appear to provide the hope for a true cure for many currently intractable diseases of both the central and the peripheral nervous system. Certainly more extensive research is needed in this field. We hope that our review will encourage new investigators in entering this field of research ad contribute to our knowledge of the potentials of NSC and other cells for the treatment of gastrointestinal dysmotility.
Genetic Diversity in the Collaborative Cross Model Recapitulates Human West Nile Virus Disease Outcomes (2020)

ABSTRACTWest Nile virus (WNV) is an emerging neuroinvasive flavivirus that now causes significant morbidity and mortality worldwide. The innate and adaptive immune responses to WNV infection have been well studied in C57BL/6J inbred mice, but this model lacks the variations in susceptibility, immunity, and outcome to WNV infection that are observed in humans, thus limiting its usefulness to understand the mechanisms of WNV infection and immunity dynamics. To build a model of WNV infection that captures human infection outcomes, we have used the Collaborative Cross (CC) mouse model. We show that this model, which recapitulates the genetic diversity of the human population, demonstrates diversity in susceptibility and outcomes of WNV infection observed in humans. Using multiple F1 crosses of CC mice, we identified a wide range of susceptibilities to infection, as demonstrated through differences in survival, clinical disease score, viral titer, and innate and adaptive immune responses in both peripheral tissues and the central nervous system. Additionally, we examined the Oas1b alleles in the CC mice and confirmed the previous finding that Oas1b plays a role in susceptibility to WNV; however, even within a given Oas1b allele status, we identified a wide range of strain-specific WNV-associated phenotypes. These results confirmed that the CC model is effective for identifying a repertoire of host genes involved in WNV resistance and susceptibility. The CC effectively models a wide range of WNV clinical, virologic, and immune phenotypes, thus overcoming the limitations of the traditional C57BL/6J model, allowing genetic and mechanistic studies of WNV infection and immunity in differently susceptible populations.IMPORTANCEMouse models of West Nile virus infection have revealed important details regarding the innate and adaptive immune responses to this emerging viral infection. However, traditional mouse models lack the genetic diversity present in human populations and therefore limit our ability to study various disease outcomes and immunologic mechanisms subsequent to West Nile virus infection. In this study, we used the Collaborative Cross mouse model to more effectively model the wide range of clinical, virologic, and immune phenotypes present upon West Nile virus infection in humans.
Data analysis techniques for measuring spatial inhomogeneity in repolarization using optical transmembrane potentials (2003)

Experimental characterization of the spatial distribution of action potential duration and repolarization times is presented. The signal processing and analysis techniques used in this characterization are described. The data used to test the dispersion of refractoriness hypothesis must meet three requirements: (1) they must be recorded simultaneously at many sites on the heart; (2) spatial resolution must be high; and (3) the data must allow a measurement of both the time of activation and repolarization at each site. The epicardial recordings used were made with an optical technique which provides a signal of the average transmembrane potential of cells in a small volume of cardiac tissue. The optical signals met all three of the above requirements: (1) data were collected from guinea pig hearts from 124 sites in a 1-cm*1-cm region of the anterior left ventricle; (2) each channel recorded activity of cells in a 0.72-mm/sup 2/ area; and (3) the action potential signals can be readily analyzed for depolarization and repolarization times.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
A 4.3 W 977 nm Ytterbium-doped Jacketed-Air-Clad Fiber Amplifier (2004)

A cladding pumped jacketed-air-clad ytterbium-doped fiber amplifier operating at 977 nm produced 4.3 W of single-mode output power with 300 mW of input power from a diode seed laser. The small-signal gain was 20 dB.
Optimal multiplexing on a single link: delay and buffer requirements (1997)

This paper is motivated by the need to provide per-session quality of service guarantees in fast packet-switched networks. We address the problem of characterizing and designing scheduling policies that are optimal in the sense of minimizing buffer and/or delay requirements under the assumption of commonly accepted traffic constraints. We investigate buffer requirements under three typical memory allocation mechanisms which represent tradeoffs between efficiency and complexity. For traffic with delay constraints we provide policies that are optimal in the sense of satisfying the constraints if they are satisfiable by any policy. We also investigate the tradeoff between delay and buffer optimality, and design policies that are "good" (optimal or close to) for both. Finally, we extend our results to the case of "soft" delay constraints and address the issue of designing policies that satisfy such constraints in a fair manner. Given our focus on packet switching, we mainly concern ourselves with nonpreemptive policies, but one class of nonpreemptive policies which we consider is based on tracking preemptive policies. This class is introduced and may be of interest in other applications as well.
On aligning shapes (2011)

In this paper, we exploit some global shape properties in an efficient shape matching and retrieval method, which is robust with respect to rigid transformations (translation, rotation, scaling) and some deformations. The retrieval of similar shapes is obtained by normalizing the query shape and the database shapes using the area, the center of mass and the minimum bounding box. Then, an alignment is achieved by overlapping the shape areas. The retrieval of similar shapes is based on a similarity measure defined by the symmetric difference. The experimental results validate the proposed approach.
Characterization of a Novel Cytotoxic Cell‐penetrating Peptide Derived From p14ARF Protein (2007)

The tumor suppressor p14ARF is widely deregulated in many types of cancers and is believed to function as a failsafe mechanism, inhibiting proliferation and inducing apoptosis as cellular response to a high oncogene load. We have found that a 22-amino-acid-long peptide derived from the N-terminal part of p14ARF, denoted ARF(1-22), which has previously been shown to mimic the function of p14ARF, has cell-penetrating properties. This peptide is internalized to the same extent as the cell-penetrating peptide (CPP) TP10 and dose-dependently decreases proliferation in MCF-7 and MDA MB 231 cells. Uptake of the ARF(1-22) peptide is associated with low membrane disturbance, measured by deoxyglucose and lactate dehydrogenase (LDH) leakage, as compared to its scrambled peptide. Also, flow cytometric analysis of annexin V/propidium iodide (PI) binding and Hoechst staining of nuclei suggest that ARF(1-22) induces apoptosis, whereas scrambled or inverted peptide sequences have no effect. The ARF(1-22) peptide mainly translocates cells through endocytosis, and is found intact inside cells for at least 3 hours. To our knowledge, this is the first time a CPP having pro-apoptopic activity has been designed from a protein.
Two cases of Legg–Perthes and intellectual disability in Tricho–Rhino–Phalangeal syndrome type 1 associated with novel TRPS1 mutations (2017)

Tricho–Rhino–Phalangeal syndrome is a rare autosomal dominant genetic disorder caused by mutations in the TRPS1 gene. This malformation syndrome is characterized by distinctive craniofacial features including sparse scalp hair, bulbous tip of the nose, long flat philtrum, thin upper vermilion border, and protruding ears. Skeletal abnormalities include cone‐shaped epiphyses at the phalanges, hip malformations, and short stature. In this report, we describe two patients with the physical manifestations and genotype of TRPS type I but with learning/intellectual disability not typically described as part of the syndrome. The first patient has a novel heterozygous two‐base‐pair deletion of nucleotides at 3198‐3199 (c.3198‐3199delAT) in the TRPS1 gene causing a translational frameshift and subsequent alternate stop codon. The second patient has a 3.08 million base‐pair interstitial deletion at 8q23.3 (113,735,487–116,818,578), which includes the TRPS1 gene and CSMD3 . Our patients have characteristic craniofacial features, Legg–Perthes syndrome, various skeletal abnormalities including cone shaped epiphyses, anxiety (first patient), and intellectual disability, presenting unusual phenotypes that add to the clinical spectrum of the disease.
Benzyl alcohols as accelerators in the photoinitiated cationic polymerization of epoxide monomers (2002)

Abstract Benzyl alcohols display marked accelerating effects on the onium salt photoinitiated cationic ring‐opening polymerizations of epoxide monomers. The participation of radicals in these polymerizations was demonstrated, and a pronounced accelerating effect on the polymerization rate was observed depending on the character of the substituent on the benzene ring of the alcohol. 4‐Methoxybenzyl alcohol was considerably more reactive than benzyl alcohol, whereas the analogous chloro‐ and nitrosubstituted compounds were less reactive. Piperonyl alcohol was even more reactive as an accelerator in these polymerizations. The UV irradiation of an onium salt cationic photoinitiator generates Brönsted acids that initiate the cationic ring‐opening polymerization of the epoxide monomer. In the presence of benzyl alcohol, the usual polymerization mechanism is diverted and proceeds by a more‐rapid activated monomer mechanism. As a result, benzyl ether groups are incorporated at the termini of the polymer chains. Aryl radicals that are also generated by photolysis of the onium salt abstract labile benzyl ether protons, and the benzyl ether radicals that are produced are subsequently oxidized by the onium salt to afford the corresponding benzyl carbocations. This takes place by a chain process. The polymer bound benzyl cations serve as additional sites for the initiation of cationic polymerization. It is proposed that these two mechanisms acting in synergy with one another account for the observed accelerating effect on the polymerization rate. © 2002 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 40: 2298–2309, 2002
Electronic recording system-heart disease prediction system (2015)

In medical field there is a growing need for development of software to be used for practical applications rather than only in research field. Doctors need not only to know the main symptoms in a patient but also the other factors in life and surrounding that lead to disease in the patient. For collecting all the necessary information about the patient the doctors needs to spend a lot of time with the patient asking necessary questions to get the important details. The doctor needs to document all the data for further use and needs to keep track of all the patient details and remedies. The proposed system is intended to develop an Intelligent System using data mining modeling technique, namely, Naive Bayes. It is implemented as Java application in which user answers the predefined questions. It retrieves hidden data from stored database and compares the user values with trained data set. It can answer complex queries for diagnosing heart disease and thus assist healthcare practitioners to make intelligent clinical decisions which traditional decision support systems cannot.
Distributed multi-modal sensor system for searching a foliage-covered region (2011)

We designed and constructed a system that includes aircraft, ground vehicles, and throwable sensors to search a semi-forested region that was partially covered by foliage. The system contained 4 radio-controlled (RC) trucks, 2 aircraft, and 30 SensorMotes (throwable sensors). We also investigated communications links, search strategies, and system architecture. Our system is designed to be low-cost, contain a variety of sensors, and distributed so that the system is robust even if individual components are lost.
All-inside Meniscus Repair (2006)

All-inside meniscus repairs are becoming more common with the invention of meniscal arrows, darts, screws, staples, and other suture devices. With the rising popularity of these new all-inside meniscal repair devices, it is necessary to assess the effectiveness of various all-inside surgical interventions used in the treatment of meniscal tears. We performed an evidence based review of the outcomes of all-inside meniscus repair devices. Seventy-seven percent of identified studies were case series; 10% were retrospective comparative studies; 6.5% were prospective comparative studies; and 6.5% were prospective randomized studies. The failure rates ranged from 0 to 43.5%. We found no substantial differences in the failure rates among various meniscus devices. We also found no substantial differences in failure rates with length of followup. Given the paucity of randomized controlled studies comparing different all-inside meniscal repairs, no definite conclusions can be made regarding the difference in clinical outcomes of various all-inside meniscal repair devices.
MMP dependence of fibroblast contraction and collagen production induced by human mast cell activation in a three-dimensional collagen lattice (2008)

Mast cell-fibroblast interactions may contribute to fibrosis in asthma and other disease states. Fibroblast contraction is known to be stimulated by coculture with the human mast cell line, HMC-1, or by mast cell-derived agents. Matrix metalloproteinases (MMPs) can also mediate contraction, but the MMP-dependence of mast cell-induced fibroblast contractility is not established, and the consequences of mast cell activation within the coculture system have not been fully explored. We demonstrate that activation of primary human mast cells (pHMC) with IgE receptor cross-linking, or activation of HMC-1 with C5a, enhanced contractility of human lung fibroblasts in a three-dimensional collagen lattice system. This enhanced contractility was inhibited by the pan-MMP antagonist, batimastat, and was transferrable in the conditioned medium of activated mast cells. Exogenously added MMPs promoted gel contraction by mediating the proteolytic activation of latent transforming growth factor-beta (TGF-beta). Consistent with this, fibroblast contraction induced by mast cell activation was enhanced by addition of excess latent TGF-beta to the cultures. Batimastat inhibited this response, suggesting that MMPs capable of activating latent TGF-beta were released following mast cell activation in coculture with fibroblasts. Collagen production was also stimulated by activated mast cells in an MMP-dependent manner. MMP-2 and MMP-3 content of the gels increased in the presence of activated mast cells, and inhibition of these enzymes blocked the contractile response. These findings demonstrate the MMP dependence of mast cell-induced fibroblast contraction and collagen production.
Data from UBE1L causes lung cancer growth suppression by targeting cyclin D1 (2023)

&lt;div&gt;Abstract&lt;p&gt;UBE1L is the E1-like ubiquitin-activating enzyme for the IFN-stimulated gene, 15-kDa protein (ISG15). The UBE1L-ISG15 pathway was proposed previously to target lung carcinogenesis by inhibiting cyclin D1 expression. This study extends prior work by reporting that UBE1L promotes a complex between ISG15 and cyclin D1 and inhibited cyclin D1 but not other G&lt;sub&gt;1&lt;/sub&gt; cyclins. Transfection of the UBE1L-ISG15 deconjugase, ubiquitin-specific protein 18 (UBP43), antagonized UBE1L-dependent inhibition of cyclin D1 and ISG15-cyclin D1 conjugation. A lysine-less cyclin D1 species was resistant to these effects. UBE1L transfection reduced cyclin D1 protein but not mRNA expression. Cycloheximide treatment augmented this cyclin D1 protein instability. UBE1L knockdown increased cyclin D1 protein. UBE1L was independently retrovirally transduced into human bronchial epithelial and lung cancer cells. This reduced cyclin D1 expression and clonal cell growth. Treatment with the retinoid X receptor agonist bexarotene induced UBE1L and reduced cyclin D1 immunoblot expression. A proof-of-principle bexarotene clinical trial was independently examined for UBE1L, ISG15, cyclin D1, and Ki-67 immunohistochemical expression profiles in pretreatment versus post-treatment tumor biopsies. Increased UBE1L with reduced cyclin D1 and Ki-67 expression occurred in human lung cancer when a therapeutic bexarotene intratumoral level was achieved. Thus, a mechanism for UBE1L-mediated growth suppression was found by UBE1L-ISG15 preferentially inhibiting cyclin D1. Molecular therapeutic implications are discussed. [Mol Cancer Ther 2008;7(12):3780–8]&lt;/p&gt;&lt;/div&gt;
Structural basis for the targeting of complement anaphylatoxin C5a using a mixed L-RNA/L-DNA aptamer (2015)

L-Oligonucleotide aptamers (Spiegelmers) consist of non-natural L-configured nucleotides and are of particular therapeutic interest due to their high resistance to plasma nucleases. The anaphylatoxin C5a, a potent inflammatory mediator generated during complement activation that has been implicated with organ damage, can be efficiently targeted by Spiegelmers. Here, we present the first crystallographic structures of an active Spiegelmer, NOX-D20, bound to its physiological targets, mouse C5a and C5a-desArg. The structures reveal a complex 3D architecture for the L-aptamer that wraps around C5a, including an intramolecular G-quadruplex stabilized by a central Ca(2+) ion. Functional validation of the observed L-aptamer:C5a binding mode through mutational studies also rationalizes the specificity of NOX-D20 for mouse and human C5a against macaque and rat C5a. Finally, our structural model provides the molecular basis for the Spiegelmer affinity improvement through positional L-ribonucleotide to L-deoxyribonucleotide exchanges and for its inhibition of the C5a:C5aR interaction.