gebhart/patrepeval huggingface dataset:
Strength-duration properties of human peripheral nerve (1996)

The strength-duration time constant (tau SD) is a property of nodal membrane and, while it depends on a number of factors, its measurement may shed light on axonal properties when taken in conjunction with measurements of axonal excitability. For example, tau SD increases with demyelination as the exposed membrane is enlarged by inclusion of paranodal and internodal membrane, it decreases with hyperpolarization and it increases with depolarization. The present study was undertaken in 20 normal volunteers to compare strength-duration curves for compound sensory and muscle action potentials, to determine the most appropriate curve fitting equation for the data, and to examine the reproducibility of the calculated time constant on different days, for potentials of different amplitude and at different sites along the nerve. Using a computerized threshold-tracking system, stimulus intensity was adjusted to produce an antidromic compound sensory action potential (CSAP) or an orthodromic muscle action potential of 30% of maximum. Stimulus duration was increased every minute in 20 microseconds steps from 20 microseconds to 1 ms. The time constant for compound sensory potentials (665 +/- 182 microsecond) was longer than that for compound EMG potentials (459 +/- 126 microseconds). Weiss's formula, which relates threshold charge to stimulus duration, provided an accurate fit for the experimental data, and the study validated that, using it, relatively few experimental measurements were required to calculate the time constant. In repeated studies on the same subject, time constants usually differed by < 400 microseconds for sensory axons and < 250 microseconds for motor axons. They were identical at different sites along the nerve and did not alter with the size of the compound action potential. These characteristics suggest that the determinations of strength-duration time constant could be suitable for clinical usage.
Approximate Distributed K-Means Clustering over a Peer-to-Peer Network (2008)

Data intensive peer-to-peer (P2P) networks are finding increasing number of applications. Data mining in such P2P environments is a natural extension. However, common monolithic data mining architectures do not fit well in such environments since they typically require centralizing the distributed data which is usually not practical in a large P2P network. Distributed data mining algorithms that avoid large-scale synchronization or data centralization offer an alternate choice. This paper considers the distributed K-means clustering problem where the data and computing resources are distributed over a large P2P network. It offers two algorithms which produce an approximation of the result produced by the standard centralized K-means clustering algorithm. The first is designed to operate in a dynamic P2P network that can produce clusterings by ldquolocalrdquo synchronization only. The second algorithm uses uniformly sampled peers and provides analytical guarantees regarding the accuracy of clustering on a P2P network. Empirical results show that both the algorithms demonstrate good performance compared to their centralized counterparts at the modest communication cost.
Atrial Fibrillation Pathophysiology (2011)

Atrial fibrillation (AF), the most common sustained cardiac arrhythmia, is an important contributor to population morbidity and mortality. An arrhythmia that is particularly common in the elderly, AF is growing in prevalence with the aging of the population. Our understanding of the basic mechanisms that govern AF occurrence and persistence has been increasing rapidly. This article reviews the basic pathophysiology of AF over a broad range of levels, touching on the tissue mechanisms that maintain the arrhythmia, the relationship between clinical presentation and basic mechanisms, ion channel and transporter abnormalities that lead to ectopic impulse formation, basic models and tissue determinants of reentry, ion channel determinants of reentry, the nature and roles of electric and structural remodeling, autonomic neural components, anatomic factors, interactions between atrial and ventricular functional consequences of AF, and the basic determinants of atrial thromboembolism. We then review the potential implications of the basic pathophysiology of the arrhythmia for its management. We first discuss consequences for improved rhythm control pharmacotherapy: targeting underlying conditions, new atrium-selective drug targets, new targets for focal ectopic source suppression, and upstream therapy aiming to prevent remodeling. We then review the implications of basic mechanistic considerations for rate control therapy, AF ablation, and the prevention of thromboembolic events. We conclude with some thoughts about the future of translational research related to AF mechanisms.
PLANETARY POPULATION SYNTHESIS COUPLED WITH ATMOSPHERIC ESCAPE: A STATISTICAL VIEW OF EVAPORATION (2014)

We apply hydrodynamic evaporation models to different synthetic planet populations that were obtained from a planet formation code based on the core-accretion paradigm. We investigated the evolution of the planet populations using several evaporation models, which are distinguished by the driving force of the escape flow (X-ray or EUV), the heating efficiency in energy-limited evaporation regimes, or both. Although the mass distribution of the planet populations is barely affected by evaporation, the radius distribution clearly shows a break at approximately 2 R &amp;oplus;. We find that evaporation can lead to a bimodal distribution of planetary sizes and to an "evaporation valley" running diagonally downward in the orbital distance---planetary radius plane, separating bare cores from low-mass planets that have kept some primordial H/He. Furthermore, this bimodal distribution is related to the initial characteristics of the planetary populations because low-mass planetary cores can only accrete small primordial H/He envelopes and their envelope masses are proportional to their core masses. We also find that the population-wide effect of evaporation is not sensitive to the heating efficiency of energy-limited description. However, in two extreme cases, namely without evaporation or with a 100% heating efficiency in an evaporation model, the final size distributions show significant differences; these two scenarios can be ruled out from the size distribution of Kepler candidates.
Trellis-based R-D optimal quantization in H.263+ (2000)

We describe a trellis-based algorithm which enables R-D optimum quantization decisions in the H.263+ video coding standard. The algorithm allows the quantization decisions for all coefficients in a block to be made jointly, and experiments conducted using H.263+ for video coding rates of 40-50 kbps show an average improvement of 3.5% in bitrate relative to implementations which follow the International Telecommunications Union (ITU) Test Model specifications in making quantization decisions.
A rapid procedure for preparing fluorescein-labeled specific antibodies from whole antiserum: its use in analyzing cytoskeletal architecture. (1983)

A rapid method for the direct conjugation of affinity-purified antibodies with fluorescein (termed DCAPA) is described. This procedure involves the immobilization of antibodies as antigen-antibody complexes on nitrocellulose blots, and subsequently the bound antibodies are reacted with fluorescein isothiocyanate. An enriched sample of smooth muscle tropomysin transferred to nitrocellulose paper by the Western blotting procedure has been used as the affinity medium for purification of specific tropomyosin antibody from whole rabbit antiserum. Direct conjugation of the antibody with fluorescein was carried out following the binding of antibody to antigen. Direct conjugation and affinity purification of antibodies directed against tropomyosin was accomplished in 2-3 d using an enriched tropomyosin sample and whole antiserum directed against tropomyosin. The immunofluorescence images obtained with this procedure exhibit distinct advantages with regard to background fluorescence and overall specificity of antibody binding. The usefulness of this direct conjugation method in various experimental protocols is discussed.
Building a dynamic reputation system for DNS (2010)

The Domain Name System (DNS) is an essential protocol used by both legitimate Internet applications and cyber attacks. For example, botnets rely on DNS to support agile command and control infrastructures. An effective way to disrupt these attacks is to place malicious domains on a “blocklist” (or “blacklist”) or to add a filtering rule in a firewall or network intrusion detection system. To evade such security countermeasures, attackers have used DNS agility, e.g., by using new domains daily to evade static blacklists and firewalls. In this paper we propose Notos, a dynamic reputation system for DNS. The premise of this system is that malicious, agile use of DNS has unique characteristics and can be distinguished from legitimate, professionally provisioned DNS services. Notos uses passive DNS query data and analyzes the network and zone features of domains. It builds models of known legitimate domains and malicious domains, and uses these models to compute a reputation score for a new domain indicative of whether the domain is malicious or legitimate. We have evaluated Notos in a large ISP’s network with DNS traffic from 1.4 million users. Our results show that Notos can identify malicious domains with high accuracy (true positive rate of 96.8%) and low false positive rate (0.38%), and can identify these domains weeks or even months before they appear in public blacklists.
Cloning, nucleotide sequence, and expression of the nitroreductase gene from Enterobacter cloacae (1991)

The "classical" nitroreductases of enteric bacteria are flavoproteins which catalyze the reduction of a variety of nitroaromatic compounds to metabolites which are highly toxic, mutagenic, or carcinogenic. The gene for the nitroreductase Enterobacter cloacae has now been cloned using an antibody specific to this protein. The nucleotide sequence of the structural gene and flanking regions are reported. Sequence analysis indicates that this gene belongs to a gene family of flavoproteins which have not been previously described. Analysis of the 5'-untranslated region reveals the presence of putative regulatory elements which may be involved in the modulation of the expression of this enzyme. The cloned gene was placed under the control of a T7 promoter for overexpression of the protein in Escherichia coli. The expressed recombinant protein was purified to homogeneity and exhibited physical, spectral, and catalytic properties identical to the protein isolated from E. cloacae.
124I-huA33 Antibody PET of Colorectal Cancer (2011)

Good localization of (124)I-huA33 in colorectal cancer with no significant toxicity has been observed. PET-derived (124)I concentrations agreed well with those obtained by well counting of surgically resected tissue and blood, confirming the quantitative accuracy of (124)I-huA33 PET. The HAI route had no advantage over the intravenous route. No clinically significant changes in blood clearance were induced by IVIG.
High-Pressure Homogenization as a Non-Thermal Technique for the Inactivation of Microorganisms (2006)

In the pharmaceutical, cosmetic, chemical, and food industries high-pressure homogenization is used for the preparation or stabilization of emulsions and suspensions, or for creating physical changes, such as viscosity changes, in products. Another well-known application is cell disruption of yeasts or bacteria in order to release intracellular products such as recombinant proteins. The development over the last few years of homogenizing equipment that operates at increasingly higher pressures has also stimulated research into the possible application of high-pressure homogenization as a unit process for microbial load reduction of liquid products. Several studies have indicated that gram-negative bacteria are more sensitive to high-pressure homogenization than gram-positive bacteria supporting the widely held belief that high-pressure homogenization kills vegetative bacteria mainly through mechanical disruption. However, controversy exists in the literature regarding the exact cause(s) of cell disruption by high-pressure homogenization. The causes that have been proposed include spatial pressure and velocity gradients, turbulence, cavitation, impact with solid surfaces, and extensional stress. The purpose of this review is to give an overview of the existing literature about microbial inactivation by high-pressure homogenization. Particular attention will be devoted to the different proposed microbial inactivation mechanisms. Further, the different parameters that influence the microbial inactivation by high-pressure homogenization will be scrutinized.
Expression of Carbonic Anhydrase IX (CA IX), a Hypoxia-Related Protein, Rather Than Vascular-Endothelial Growth Factor (VEGF), a Pro-Angiogenic Factor, Correlates With an Extremely Poor Prognosis in Esophageal and Gastric Adenocarcinomas (2006)

The difference in expression of CA IX and VEGF between intestinal- and diffuse-type adenocarcinomas may possibly explain the different clinical behavior of these tumors. CA IX expression, rather than VEGF positivity in tumors, enables the identification of a subpopulation, characterized by a more aggressive behavior and a poorer prognosis.
The LIFEdb database in 2006 (2005)

LIFEdb (http://www.LIFEdb.de) integrates data from large-scale functional genomics assays and manual cDNA annotation with bioinformatics gene expression and protein analysis. New features of LIFEdb include (i) an updated user interface with enhanced query capabilities, (ii) a configurable output table and the option to download search results in XML, (iii) the integration of data from cell-based screening assays addressing the influence of protein-overexpression on cell proliferation and (iv) the display of the relative expression ('Electronic Northern') of the genes under investigation using curated gene expression ontology information. LIFEdb enables researchers to systematically select and characterize genes and proteins of interest, and presents data and information via its user-friendly web-based interface.
A Laccase Associated with Lignification in Loblolly Pine Xylem (1993)

Peroxidase has been thought to be the only enzyme that oxidizes monolignol precursors to initiate lignin formation in plants. A laccase was purified from cell walls of differentiating xylem of loblolly pine and shown to coincide in time and place with lignin formation and to oxidize monolignols to dehydrogenation products in vitro. These results suggest that laccase participates in lignin biosynthesis and therefore could be an important target for genetic engineering to modify wood properties or to improve the digestibility of forage crops.
TNF receptor-associated factor (TRAF) domain and Bcl-2 cooperate to induce small B cell lymphoma/chronic lymphocytic leukemia in transgenic mice (2004)

Transgenic mice overexpressing in B lymphocytes either Bcl-2 or a TNF receptor-associated factor (TRAF)2 mutant lacking the N-terminal RING and zinc finger domains located at the N terminus of the molecule (TRAF2DN), which mimics TRAF1, developed lymphadenopathy and splenomegaly due to polyclonal B cell expansion. Remarkably, TRAF2DN/Bcl-2 double-transgenic mice contained B cell populations similar to those observed in TRAF2DN mice. However, over time, they developed severe splenomegaly and lymphadenopathy, and most animals also developed leukemia, pleural effusion, and, in some cases, ascites associated with monoclonal and oligoclonal B cell neoplasms. The life span of TRAF2DN/Bcl-2 mice was markedly reduced compared with Bcl-2 and TRAF2DN single-transgenics or wild-type littermates. The expanded B cell population of TRAF2DN/Bcl-2 double-transgenic mice was primarily comprised of small/medium-size noncycling B220(M)/IgM(H)/IgD(L)/CD21(L)/CD23(NULL)/CD11b(+)/CD5+ cells that were Bcl-6-negative, consistent with a B-1 phenotype. The cells also expressed high levels of CD54 and other adhesion molecules. In vitro, these B cells showed comparable proliferation rates to those of wild-type counterparts but exhibited markedly increased survival and were resistant to apoptosis induced by chemotherapeutic agents and glucocorticoids. Histopathologic features were consistent with mouse small B cell lymphoma progressing to leukemia with many similarities to human chronic lymphocytic leukemia. Given that many human chronic lymphocytic leukemias overexpress TRAF1 and Bcl-2, our findings suggest that cooperation between Bcl-2 and TRAF pathways contributes to the development of this type of leukemia.
Avian Influenza Viruses (2003)

Abstract Avian influenza viruses comprise scores of antigenic subtypes in the type A orthomyxovirus family. They are found most prominently in migratory waterfowl and shorebirds and are sporadically transmitted to other avian and mammalian species. The consequences of such transmissions can range from a subclinical infection, which may result in transfer of avian virus genes into the circulating influenza gene pool, to a highly infectious and lethal respiratory disease.
The Effects of Aerobic Exercise Timing on Nocturnal Blood Pressure Dipping in Pre-Hypertensive Individuals (2011)

During the typical nocturnal sleep cycle, BP will "dip" or decrease when compared to diurnal pressure reducing stress on the cardiac system. Compared with a reference group of normotensive dippers, hypertensive non-dippers may experience a much higher relative risk of cardiovascular mortality than normotensive non-dippers and hypertensive dippers. Post exercise hypotension may augment the dipping response, however, exercise timing on sleep pressures has never been elucidated. Therefore, the purpose of this study was to examine how the timing of aerobic exercise affects circadian ambulatory blood pressure and specifically nocturnal blood pressure. METHODS: Six pre-hypertensive subjects, 4 male and 2 female, (mean age 43 ± 4 years) with no reported cardiac disorders and on no antihypertensive medications participated in this study. Following a graded exercise test during visit 1, subjects reported to the laboratory for 3 additional visits to 3 predetermined exercise times at 7am, 1pm, and 7pm in random order to perform 30 min of treadmill exercise at 65% of their VO2max. An Oscar 2™ ambulatory blood pressure cuff was used to monitor blood pressure responses for the 24 hrs immediately following exercise. RESULTS: Aerobic exercise at 7 pm invoked the greatest dip in nocturnal pressure (SBP: 11.9% drop at 7am vs. 8.4% at 1pm vs. 18.0% at 7pm, DBP: 16.8% drop at 7am vs. 11.9% at 1pm vs. 23.1% at 7pm, p<0.05) than exercise in the afternoon or morning time slots. CONCLUSION: Moderate intensity, aerobic exercise in the evening may be the most beneficial epoch of time for greater nocturnal blood pressure dipping for a pre-hypertensive cohort. This study was sponsored by a grant from Appalachian State Office of Student Research (PI, Ben Cartner)
Establishment and characterization of a unique human cell line that proliferates dependently on GM‐CSF, IL‐3, or erythropoietin (1989)

We have established a novel cell line, designated as TF-1, from a patient with erythroleukemia, which showed complete growth dependency on granulocyte-macrophage colony-stimulating factor (GM-CSF) or on interleukin-3 (IL-3) and carried a homogeneous chromosomal abnormality (54X). Erythropoietin (EPO) also sustained the short-term growth of TF-1, but did not induce erythroid differentiation. These three hematopoietic growth factors acted on TF-1 synergistically. Transforming growth factor-beta and interferons inhibited the factor-dependent growth of TF-1 cells in a dose-dependent fashion, and monocyte-colony stimulating factor and interkeukin-1 enhanced the GM-CSF-dependent growth of TF-1. Ultrastructural studies revealed some very immature features in this cell line. Although TF-1 cells do not express glycophorin A or carbonyl anhydrase I, the morphological and cytochemical features, and the constitutive expression of globin genes, indicate the commitment of TF-1 to erythroid lineage. When induced to differentiate, TF-1 entered two different pathways. Specifically, hemin and delta-aminolevulinic acid induced hemoglobin synthesis, whereas TPA induced dramatic differentiation of TF-1 into macrophage-like cells. In summary, TF-1 is a cell line of immature erythroid origin that requires GM-CSF, IL-3, or EPO for its growth and that has the ability to undergo differentiation into either more mature erythroid cells or into macrophage-like cells. TF-1 is a useful tool for analyzing the human receptors for IL-3, GM-CSF, and EPO or the signal transduction of these hemopoietic growth factors.
Lipoic acid rescues DBA mice from early-onset age-related hearing impairment (2008)

We fed DBA mice with alpha-lipoic acid (100 mg/kg body weight/day), beginning 2, 4, or 8 weeks after birth. Hearing thresholds were measured weekly. At 12 weeks after birth, control mice not fed with alpha-lipoic acid showed significant hearing decreases at all frequencies. In contrast, mice fed with alpha-lipoic acid beginning at 2 weeks after birth showed significantly better hearing at all frequencies. Mice fed with alpha-lipoic acid beginning at 4 and 8 weeks after birth also showed significantly better hearing than control mice after they were fed with alpha-lipoic acid. The stria vascularis of mice fed with alpha-lipoic acid showed reduced 8-oxoguanine residues in DNA and cytoplasm compared with that of control mice. Western blotting showed that the level of hypoxia-inducible factor-1alpha was lower in mice fed with alpha-lipoic acid than in control mice. From these results, we suggest that alpha-lipoic acid prevented early-onset hearing impairment in DBA mice.
Plerixafor and G-CSF versus placebo and G-CSF to mobilize hematopoietic stem cells for autologous stem cell transplantation in patients with multiple myeloma (2009)

This phase 3, multicenter, randomized (1:1), double-blind, placebo-controlled study evaluated the safety and efficacy of plerixafor with granulocyte colony-stimulating factor (G-CSF) in mobilizing hematopoietic stem cells in patients with multiple myeloma. Patients received G-CSF (10 microg/kg) subcutaneously daily for up to 8 days. Beginning on day 4 and continuing daily for up to 4 days, patients received either plerixafor (240 microg/kg) or placebo subcutaneously. Starting on day 5, patients began daily apheresis for up to 4 days or until more than or equal to 6 x 10(6) CD34(+) cells/kg were collected. The primary endpoint was the percentage of patients who collected more than or equal to 6 x 10(6) CD34(+) cells/kg in less than or equal to 2 aphereses. A total of 106 of 148 (71.6%) patients in the plerixafor group and 53 of 154 (34.4%) patients in the placebo group met the primary endpoint (P < .001). A total of 54% of plerixafor-treated patients reached target after one apheresis, whereas 56% of the placebo-treated patients required 4 aphereses to reach target. The most common adverse events related to plerixafor were gastrointestinal disorders and injection site reactions. Plerixafor and G-CSF were well tolerated, and significantly more patients collected the optimal CD34(+) cell/kg target for transplantation earlier compared with G-CSF alone. This study is registered at www.clinicaltrials.gov as #NCT00103662.