gebhart/patrepeval huggingface dataset:
S -nitrosohemoglobin deficiency: A mechanism for loss of physiological activity in banked blood (2007)

RBCs distribute oxygen to tissues, but, paradoxically, blood transfusion does not always improve oxygen delivery and is associated with ischemic events. We hypothesized that storage of blood would result in loss of NO bioactivity, impairing RBC vasodilation and thus compromising blood flow, and that repleting NO bioactivity would restore RBC function. We report that S-nitrosohemoglobin (SNO-Hb) concentrations declined rapidly after storage of fresh venous blood and that hypoxic vasodilation by banked RBCs correlated strongly with the amounts of SNO-Hb (r(2) = 0.90; P < 0.0005). Renitrosylation of banked blood during storage increased the SNO-Hb content and restored its vasodilatory activity. In addition, canine coronary blood flow was greater during infusion of renitrosylated RBCs than during infusion of S-nitrosothiol-depleted RBCs, and this difference in coronary flow was accentuated by hypoxemia (P < 0.001). Our findings indicate that NO bioactivity is depleted in banked blood, impairing the vasodilatory response to hypoxia, and they suggest that SNO-Hb repletion may improve transfusion efficacy.
From Vulnerable Plaque to Vulnerable Patient (2003)

Atherosclerotic cardiovascular disease results in >19 million deaths annually, and coronary heart disease accounts for the majority of this toll. Despite major advances in treatment of coronary heart disease patients, a large number of victims of the disease who are apparently healthy die suddenly without prior symptoms. Available screening and diagnostic methods are insufficient to identify the victims before the event occurs. The recognition of the role of the vulnerable plaque has opened new avenues of opportunity in the field of cardiovascular medicine. This consensus document concludes the following. (1) Rupture-prone plaques are not the only vulnerable plaques. All types of atherosclerotic plaques with high likelihood of thrombotic complications and rapid progression should be considered as vulnerable plaques. We propose a classification for clinical as well as pathological evaluation of vulnerable plaques. (2) Vulnerable plaques are not the only culprit factors for the development of acute coronary syndromes, myocardial infarction, and sudden cardiac death. Vulnerable blood (prone to thrombosis) and vulnerable myocardium (prone to fatal arrhythmia) play an important role in the outcome. Therefore, the term "vulnerable patient" may be more appropriate and is proposed now for the identification of subjects with high likelihood of developing cardiac events in the near future. (3) A quantitative method for cumulative risk assessment of vulnerable patients needs to be developed that may include variables based on plaque, blood, and myocardial vulnerability. In Part I of this consensus document, we cover the new definition of vulnerable plaque and its relationship with vulnerable patients. Part II of this consensus document focuses on vulnerable blood and vulnerable myocardium and provide an outline of overall risk assessment of vulnerable patients. Parts I and II are meant to provide a general consensus and overviews the new field of vulnerable patient. Recently developed assays (eg, C-reactive protein), imaging techniques (eg, CT and MRI), noninvasive electrophysiological tests (for vulnerable myocardium), and emerging catheters (to localize and characterize vulnerable plaque) in combination with future genomic and proteomic techniques will guide us in the search for vulnerable patients. It will also lead to the development and deployment of new therapies and ultimately to reduce the incidence of acute coronary syndromes and sudden cardiac death. We encourage healthcare policy makers to promote translational research for screening and treatment of vulnerable patients.
Analyses of the FlashTrack DNA probe and UTIscreen bioluminescence tests for bacteriuria (1992)

Five hundred urine specimens were selected at random and screened for bacteriuria by a DNA probe method, FlashTrack (Gen-Probe, San Diego, Calif.), and an automated bioluminescence method, UTIscreen (Los Alamos Diagnostics, Los Alamos, N.M.), and the results were compared with those of the semiquantitative plate culture method. The performance of each test versus culturing was evaluated at colony counts of greater than or equal to 10(4), greater than or equal to 5 x 10(4), and greater than or equal to 10(5) CFU/ml. Since the interpretive breakpoint of each test was user selectable, the results were reported as receiver operator characteristic curves. Optimum interpretive breakpoints were determined for each test at each colony count by calculating a performance index that emphasized sensitivity over specificity in a 70:30 ratio. Although both tests had less-than-optimal sensitivities and specificities, the performance of FlashTrack was significantly better than that of UTIscreen at two of the three colony counts (10(4) and 10(5) CFU/ml); however, FlashTrack costs more and is a labor-intensive procedure. Neither method was evaluated for the detection of colony counts of less than 10(4) CFU/ml.
InAs/GaAs quantum dots on GaAs-on-V-grooved-Si substrate with high optical quality in the 1.3 μm band (2015)

We report self-assembled InAs/GaAs quantum dots (QDs) grown on a specially engineered GaAs-on-V-grooved-Si substrate by metal-organic vapor phase epitaxy. Recessed pockets formed on V-groove patterned Si (001) substrates were used to prevent most of the hetero-interfacial stacking faults from extending into the upper QD active region. 1.3 μm room temperature emission from high-density (5.6 × 1010 cm−2) QDs has been obtained, with a narrow full-width-at-half-maximum of 29 meV. Optical quality of the QDs was found to be better than those grown on conventional planar offcut Si templates, as indicated by temperature-dependent photoluminescence analysis. Results suggest great potential to integrate QD lasers on a Si complementary-metal-oxide-semiconductor compatible platform using such GaAs on Si templates.
The Occurrence of Subsequent Malignancy in Patients Presenting with Deep Vein Thrombosis: Results from a Historical Cohort Study (1998)

Our study did not detect an increased risk of subsequent cancer in patients presenting with idiopathic DVT compared to secondary DVT; nor did we detect an increased incidence of cancer in patients with recurrent venous thromboembolism. Further studies are required prior to pursuing a policy of aggressive screening for cancer in patients with idiopathic venous thromboembolism.
Baseband and passband transport systems for interactive video services (1994)

As essentially none of the existing telecommunication networks are capable of providing interactive video services (IVS), network providers have begun to consider the network architecture that is best to deploy. Two approaches have received most of the consideration. Because of the embedded base of broadcast, coax-based cable TV networks and because of the unconfirmed demand for IVS, much attention has been paid to upgrading these networks to provide IVS transport even though extensive modification would be required. These networks are referred to as passband networks because of the use of modulated subcarriers as the signal transport mechanism. The alternative approach under consideration is the use of fiber-to-the-curb transport systems. Because such networks transport IVS directly as baseband signals without subcarrier modulation, they are known as baseband networks. The paper compares the baseband and passband approaches in several areas including: compatibility with the optical transmission medium; compatibility with IVS source/sink equipment; compatibility with the emerging telecommunications interoffice and feeder networks; and the cost of deployment. The recent history in which passband and baseband approaches competed to become the preferred transport mechanism in LAN applications is reviewed. The fact that in that case baseband emerged as the preferred approach has important implications for the selection of the preferred approach in today's IVS applications. The constituent elements and transport requirements of the end-to-end network for delivering IVS are reviewed.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Twitter Trending Topic Classification (2011)

With the increasing popularity of microblogging sites, we are in the era of information explosion. As of June 2011, about 200 million tweets are being generated everyday. Although Twitter provides a list of most popular topics people tweet about known as Trending Topics in real time, it is often hard to understand what these trending topics are about. Therefore, it is important and necessary to classify these topics into general categories with high accuracy for better information retrieval. To address this problem, we classify Twitter Trending Topics into 18 general categories such as sports, politics, technology, etc. We experiment with 2 approaches for topic classification, (i) the well-known Bag-of-Words approach for text classification and (ii) network-based classification. In text-based classification method, we construct word vectors with trending topic definition and tweets, and the commonly used tf-idf weights are used to classify the topics using a Naive Bayes Multinomial classifier. In network-based classification method, we identify top 5 similar topics for a given topic based on the number of common influential users. The categories of the similar topics and the number of common influential users between the given topic and its similar topics are used to classify the given topic using a C5.0 decision tree learner. Experiments on a database of randomly selected 768 trending topics (over 18 classes) show that classification accuracy of up to 65% and 70% can be achieved using text-based and network-based classification modeling respectively.
Evidence for the involvement of TNF and NF‐κB in hippocampal synaptic plasticity (2000)

The cytokine tumor necrosis factor-α (TNF), well-known for its roles in cellular responses to tissue injury, has recently been shown to be produced in response to physiological activity in neuronal circuits. TNF stimulates receptors in neurons linked to the activation of the transcription factor NF-κB, and recent findings suggest that this signaling pathway can modulate neuronal excitability and vulnerability of neurons to excitotoxicity. Because data indicate that TNF is produced, and NF-κB activated, under conditions associated with learning and memory, we performed experiments in the hippocampal slice preparation aimed at elucidating roles for TNF and NF-κB in modulating synaptic plasticity. Whereas stimulation of Schaffer collateral axons at a frequency of 1 Hz induced long-term depression (LTD) of synaptic transmission in region CA1 of wild-type mice, LTD did not occur in slices from TNF receptor knockout mice. Stimulation at 100 Hz induced long-term potentiation (LTP) in slices from both wild-type mice and mice lacking TNF receptors. Basal transmission was unaltered in mice lacking TNF receptors. Pretreatment of slices from wild-type mice with κB decoy DNA prevented induction of LTD and significantly reduced the magnitude of LTP. Collectively, these data suggest important roles for TNF and signaling pathways that modulate NF-κB activity in regulation of hippocampal synaptic plasticity. Synapse 35:151–159, 2000. © 2000 Wiley-Liss, Inc.
A strategy to reveal high-frequency RFLPs along the human X chromosome. (1984)

Fifteen human X-chromosome-specific DNA fragments, localized to particular regions of that chromosome, were used to search for restriction fragment length polymorphisms. A screening panel prepared by digesting DNA from only two females and one male with 24 restriction enzymes was sufficient to reveal two-allele polymorphisms among one-third of the probes tested. These polymorphisms, as theoretically anticipated, showed minor allele frequencies above 20%, as a rule. Such high-frequency polymorphism allowed identifying females, from pedigrees segregating three X-linked diseases, who were multiply heterozygous for polymorphic loci spread throughout the X chromosome. In addition, two of the 24 enzymes tested with these X-specific probes, Msp I and Taq I, generate fragment sizes in DNA-blotting experiments that, on average, are significantly larger than expected from nearest neighbor predicted recognition site frequencies.
Nurr1 is essential for the induction of the dopaminergic phenotype and the survival of ventral mesencephalic late dopaminergic precursor neurons (1998)

Nurr1 is a member of the nuclear receptor superfamily of transcription factors that is expressed predominantly in the central nervous system, including developing and mature dopaminergic neurons. Recent studies have demonstrated that Nurr1 is essential for the induction of phenotypic markers of ventral mid-brain dopaminergic neurons whose generation is specified by the floor plate-derived morphogenic signal sonic hedgehog (SHH), but the precise role of Nurr1 in this differentiative pathway has not been established. To provide further insights into the role of Nurr1 in the final differentiation pathway, we have examined the fate of dopamine cell precursors in Nurr1 null mutant mice. Here we demonstrate that Nurr1 functions at the later stages of dopamine cell development to drive differentiation of ventral mesencephalic late dopaminergic precursor neurons. In the absence of Nurr1, neuroepithelial cells that give rise to dopaminergic neurons adopt a normal ventral localization and neuronal phenotype characterized by expression of the homeodomain transcription factor and mesencephalic marker, Ptx-3, at embryonic day 11.5. However, these late precursors fail to induce a dopaminergic phenotype, indicating that Nurr1 is essential for specifying commitment of mesencephalic precursors to the full dopaminergic phenotype. Further, as development progresses, these mid-brain dopamine precursor cells degenerate in the absence of Nurr1, resulting in loss of Ptx-3 expression and a concomitant increase in apoptosis of ventral midbrain neurons in newborn null mutant mice. Taken together, these data indicate that Nurr1 is essential for both survival and final differentiation of ventral mesencephalic late dopaminergic precursor neurons into a complete dopaminergic phenotype.
Percutaneous Transluminal Therapy of Occluded Saphenous Vein Grafts (1999)

Ultrasound thrombolysis in thrombus-rich lesions in SVGs offers a very promising therapeutic option.
A Time-Reversal Paradigm for Indoor Positioning System (2015)

In an indoor environment, there commonly exist a large number of multipaths due to rich scatterers. These multipaths make the indoor positioning problem very challenging. The main reason is that most of the transmitted signals are significantly distorted by the multipaths before arriving at the receiver, which causes inaccuracies in the estimation of the positioning features such as the time of arrival (TOA) and the angle of arrival (AOA). On the other hand, the multipath effect can be very constructive when employed in the time-reversal (TR) radio transmission. By utilizing the uniqueness of the multipath profile at each location, TR can create a resonating effect of focusing the energy of the transmitted signal only onto the intended location, which is known as the spatial focusing effect. In this paper, we propose exploiting such a high-resolution focusing effect in the indoor positioning problem. Specifically, we propose a TR indoor positioning system (TRIPS) by utilizing the location-specific characteristic of multipaths. By doing so, we decompose the ill-posed single-access-point (AP) indoor positioning problem into two well-defined subproblems. The first subproblem is to create a database by mapping the physical geographical location with the logical location in the channel impulse response (CIR) space, whereas the second subproblem is to determine the real physical location by matching the estimated CIR with those in the database. To evaluate the performance of our proposed TRIPS, we build a prototype to conduct real experiments. The experimental results show that, with a single AP working in the 5.4-GHz band under the non-line-of-sight (NLOS) condition, our proposed TRIPS can achieve perfect 10-cm localization accuracy with zero-error rate within a 0.9 m by 1 m area of interest.
Threaded Titanium Cages for Lumbar Interbody Fusions (1997)

The Ray titanium fusion cage (Surgical Dynamics, Norwalk, CT) implant method has been found to be an effective, rapid, safe procedure for lumbar spine fusions, demonstrating a high fusion rate and clinical success with rare, serious, or permanent complications.
Digging Digg: Comment Mining, Popularity Prediction, and Social Network Analysis (2009)

Using comment information available from Digg we define a co-participation network between users. We focus on the analysis of this implicit network, and study the behavioral characteristics of users. Using an entropy measure, we infer that users at Digg are not highly focused and participate across a wide range of topics. We also use the comment data and social network derived features to predict the popularity of online content linked at Digg using a classification and regression framework. We show promising results for predicting the popularity scores even after limiting our feature extraction to the first few hours of comment activity that follows a Digg submission.
Fuzzy Logik (1995)

Das englische Wort “fuzzy” bedeutet soviel wie “fusselig, ungeordnet, unscharf”. Die Fuzzy Logik steht damit in Gegensatz zur üblichen Logik, bei der wir es mit scharf umrissenen Begriffen und mit den beiden exakt definierten Zuständen “wahr” und “falsch” zu tun haben, denen die binären Werte “1” und “0” zugeteilt sind.
Subcellular localization of a PhoE‐LacZ fusion protein in E. coli by protease accessibility experiments reveals an inner‐membrane‐spanning form of the protein (1987)

Protease accessibility experiments were employed to localize a PhoE-LacZ hybrid protein, encompassing a large N-terminal fragment of the outer membrane PhoE protein of E. coli, fused to beta-galactosidase, at the subcellular level. In previous studies, this protein was shown to co-fractionate with the outer membrane, whereas immunocytochemical methods suggested a cytoplasmic location. The present results confirm the latter localization. Moreover, it appears that a minor amount of hybrid protein spans the inner membrane, with the PhoE moiety in the periplasm and the beta-galactosidase moiety in the cytoplasm. These membrane-spanning proteins might be responsible for the lethal jamming of the export machinery, observed upon induction of synthesis of the protein.
A novel three‐component system‐based regulatory model for d‐xylose sensing and transport in Clostridium beijerinckii (2014)

D-Xylose is the most abundant fermentable pentose in nature and can serve as a carbon source for many bacterial species. Since D-xylose constitutes the major component of hemicellulose, its metabolism is important for lignocellulosic biomass utilization. Here, we report a six-protein module for D-xylose signaling, uptake and regulation in solvent-producing Clostridium beijerinckii. This module consists of a novel 'three-component system' (a putative periplasmic ABC transporter substrate-binding protein XylFII and a two-component system LytS/YesN) and an ABC-type D-xylose transporter XylFGH. Interestingly, we demonstrate that, although XylFII harbors a transmembrane domain, it is not involved in D-xylose transport. Instead, XylFII acts as a signal sensor to assist the response of LytS/YesN to extracellular D-xylose, thus enabling LytS/YesN to directly activate the transcription of the adjacent xylFGH genes and thereby promote the uptake of D-xylose. To our knowledge, XylFII is a novel single transmembrane sensor that assists two-component system to respond to extracellular sugar molecules. Also of significance, this 'three-component system' is widely distributed in Firmicutes, indicating that it may play a broad role in this bacterial phylum. The results reported here provide new insights into the regulatory mechanism of D-xylose sensing and transport in bacteria.
A year of hights and lows (2013)

Ask a new parent about their major concerns during baby's first year and you can bet your bottom dollar it is most likely to be sleep and feeding, Kerrie Rhodes relates from experience.
The Pro-Inflammatory Cytokine Cascade (2002)

The production of pro-inflammatory cytokines is a prerequisite for initiating the anti-infectious process, whereas their exacerbated production during severe inflammation may contribute to deleterious consequences. The capacity of interleukin (IL)-l and tumor necrosis factor-alpha (TNF-a) to induce inflammatory mediators contributes to their pro-inflammatory properties. Phospholipase, cyclooxygenase and lipoxygenase are activated by IL-1 and TNF-a leading to the release of prostaglandins, thromboxane, leukotrienes, and platelet activating factor (PAF). Free radicals (superoxide [O − 2 ], nitric oxide [NO]), and proteolytic enzymes are other mediators produced by target cells in response to IL-1 and TNF-a. Other cytokines, including chemokines such as IL-8 or some T-cell derived cytokines, such as lymphotoxin-α are also involved in the cytokine cascade (Fig. 1). Different experimental approaches have demonstrated the contribution of the pro-inflammatory cytokines to the harmful effects observed in sepsis, trauma, burns, hemorrhage, severe surgery and other pathophysiological situations leading to systemic inflammatory response syndrome (SIRS). The injection of recombinant pro-inflammatory cytokines mimics some of the clinical parameters observed in SIRS patients and the use of anti-cytokine antibodies prevents most of the deleterious effects observed in animal models of SIRS. Open image in new window Fig. 1. Schematic representation of the pro-inflammatory cytokine cascade
N-Glycosylation Enhances Presentation of a MHC Class I-Restricted Epitope from Tyrosinase (2009)

We recently demonstrated that the mechanism of processing of an HLA-A*0201-restricted peptide epitope, Tyr(369)(D), derived from the membrane protein tyrosinase, involves retrotranslocation of glycosylated molecules from the endoplasmic reticulum to the cytosol, removal of an N-linked carbohydrate from Asn(371) by peptide N-glycanase, proteolysis by the proteasome and other proteases, and retransport of the resulting peptides into the endoplasmic reticulum for association with HLA-A*0201. Carbohydrate removal results in deamidation of Asn(371) to aspartic acid. The asparagine-containing homolog of this peptide, Tyr(369)(N), is not presented by tyrosinase-expressing cells, and this has been presumed to be due to quantitative glycosylation of Asn(371). Although examining cytosolic intermediates that accumulated in human melanoma cells treated with proteasome inhibitors, we were surprised to find both molecules that had been deglycosylated by peptide N-glycanase and a large number of molecules that had not been previously glycosylated. The failure of Tyr(369)(N) to be processed and presented from these latter molecules may be partially due to a process of deamidation independent of glycosylation. However, we also established that proteasomes degrade tyrosinase molecules that are still glycosylated, giving rise to a set of discrete intermediates that are not observed when unglycosylated molecules are degraded. We propose that Tyr(369)(N) fails to be presented because unglycosylated tyrosinase is degraded rapidly and relatively nonselectively. In contrast, glycosylation alters the selectivity of tyrosinase processing by the proteasome, enhancing the production or survival of Tyr(369)(D).