gebhart/patrepeval huggingface dataset:
Circulatory miR-34a as an RNA-based, noninvasive biomarker for brain aging (2011)

MicroRNAs in blood samples have been identified as an important class of biomarkers, which can reflect physiological changes from cancer to brain dysfunction. In this report we identify concordant increases in levels of expression of miR-34a in brain and two components of mouse blood samples, peripheral blood mononuclear cells (PBMCs) and plasma, from 2 day old neonates through young adulthood and mid-life to old age at 25 months. Levels of this microRNA's prime target, silent information regulator 1 (SIRT1), in brain and the two blood-derived specimens decrease with age inversely to miR-34a, starting as early as 4 months old, when appreciable tissue aging has not yet begun. Our results suggest that: 1. Increased miR-34a and the reciprocal decrease of its target, SIRT1, in blood specimens are the accessible biomarkers for age-dependent changes in brain; and 2. these changes are predictors of impending decline in brain function, as early as in young adult mice.
Glutamic acid decarboxylase cDNA: nucleotide sequence encoding an enzymatically active fusion protein (1987)

Glutamic acid decarboxylase (GAD;E.C. 4.1.1.15) catalyzes the production of GABA, the major inhibitory neurotransmitter in the mammalian brain. We recently isolated a lambda gt-11 recombinant, lambda-GAD, that contains the cDNA for GAD from feline brain (Kaufman et al., 1986). Interestingly, the beta-galactosidase-GAD fusion protein encoded by lambda GAD is enzymatically active, catalyzing the conversion of glutamate to CO2 and GABA. Here we report the nucleotide sequence of feline GAD cDNA. It consists of 2265 bases, with a continuous open reading frame of 625 codons. The derived sequence contains the sequence Asn-Pro-His-Lys, which is identical to sequence at the pyridoxal phosphate-binding site of porcine DOPA decarboxylase (Bossa et al., 1977). The first ATG sequence in the open reading frame begins at nucleotide residue 118. The 585 codons 3' to this putative initiation site predict an amino acid composition, N-terminal residue, and molecular size consistent with published characterizations of GAD.
Graphene Carbon Nanotube Carpets Grown Using Binary Catalysts for High-Performance Lithium-Ion Capacitors (2017)

Here we show that a versatile binary catalyst solution of Fe<sub>3</sub>O<sub>4</sub>/AlO<sub>x</sub> nanoparticles enables homogeneous growth of single to few-walled carbon nanotube (CNT) carpets from three-dimensional carbon-based substrates, moving past existing two-dimensional limited growth methods. The binary catalyst is composed of amorphous AlO<sub>x</sub> nanoclusters over Fe<sub>3</sub>O<sub>4</sub> crystalline nanoparticles, facilitating the creation of seamless junctions between the CNTs and the underlying carbon platform. The resulting graphene-CNT (GCNT) structure is a high-density CNT carpet ohmically connected to the carbon substrate, an important feature for advanced carbon electronics. As a demonstration of the utility of this approach, we use GCNTs as anodes and cathodes in binder-free lithium-ion capacitors, producing stable devices with high-energy densities (∼120 Wh kg<sup>-1</sup>), high-power density capabilities (∼20,500 W kg<sup>-1</sup> at 29 Wh kg<sup>-1</sup>), and a large operating voltage window (4.3 to 0.01 V).
In Situ X-ray Absorption Spectroscopic Study on LiNi<sub>0.5</sub>Mn<sub>0.5</sub>O<sub>2</sub> Cathode Material during Electrochemical Cycling (2003)

We have investigated the local electronic and atomic structure of the LiMn0.5Ni0.5O2 electrode during the first charge and discharge process using in situ X-ray absorption spectroscopy (XAS) of the Mn and Ni K-edges. The Ni K-edge structure in the XANES spectrum shifts to higher energy during charge and shifts back reversibly during discharge in the higher voltage region of ∼4 V, whereas the Mn K-edge structure does not appear to exhibit a rigid edge shift. Further Li-ion intercalation during extended discharge in the 1-V plateau leads to the reduction of Mn4+ ions suggesting that the charge compensation in this region is achieved via the reduction of Mn4+ ions to Mn2+. Mn K-edge EXAFS results indicate that a small amount of Li is found in the Ni2+/Mn4+ layers. These Li ions in the transition metal layers are primarily present in the second coordination shell of Mn and not around Ni. Ni K-edge EXAFS fitting results suggest that the oxidation process upon Li deintercalation takes place in two steps: Ni2+ to Ni3+ first, and then Ni3+ to Ni4+.
Cerebrospinal fluid rhinorrhoea: diagnosis and management. (2007)

A cerebrospinal fluid (CSF) rhinorrhoea occurs when there is a fistula between the dura and the skull base and discharge of CSF from the nose. CSF rhinorrhea or liquorrhoea commonly occurs following head trauma (fronto-basal skull fractures), as a result of intracranial surgery, or destruction lesions. A spinal fluid leak from the intracranial space to the nasal respiratory tract is potentially very serious because of the risk of an ascending infection which could produce fulminant meningitis. This article reviewed the causes, diagnosis and treatment of CSF leakage. A PUBMED search of the National Library of Medicine was conducted. CSF leak most commonly occurs following trauma and the majority of cases presenting within the first three months. CSF rhinorrhoea have significantly greater incidence of periorbital haematoma. This suggests that patients with head injuries and features of periorbital haematoma are at greater risk of unobserved dural tear and delayed CSF leakage. In the presence of a skull base fracture on computed tomography and a clinical CSF leak, there is no need for a further confirmatory test. In cases where a confirmatory test is needed, the beta-2 transferrin assay is the test of choice because of its high sensitivity and specificity. A greater proportion of the CSF leaks in the patients resolved spontaneously. CSF fistulae persisting for > 7 days had a significantly increased risk of developing meningitis. Treatment decisions should be dictated by the severity of neurological decline during the emergency period and the presence/absence of associated intracranial lesions. The timing for surgery and CSF drainage procedures must be decided with great care and with a clear strategy.
Food, reproduction and L'ongevity: Is the extended lifespan of calorie‐restricted animals an evolutionary adaptation? (1989)

Calorie restriction results in an increased lifespan and reduced fecundity of rodents. In a natural environment the availability of food will vary greatly. It is suggested that Darwinian fitness will be increased if animals cease breeding during periods of food deprivation and invest saved resources in maintenance of the adult body, or soma. This would increase the probability of producing viable offspring during an extended lifespan. The diversion of limited energy resources from breeding to maintenance of the soma is seen as an evolutionary adaptation, fully compatible with the 'disposable soma' theory of the evolution of ageing.
Cytoplasmic lipid droplets are translocated into the lumen of the <i>Chlamydia trachomatis</i> parasitophorous vacuole (2008)

The acquisition of host-derived lipids is essential for the pathogenesis of the obligate intracellular bacteria Chlamydia trachomatis. Current models of chlamydial lipid acquisition center on the fusion of Golgi-derived exocytic vesicles and endosomal multivesicular bodies with the bacteria-containing parasitophorous vacuole ("inclusion"). In this study, we describe a mechanism of lipid acquisition and organelle subversion by C. trachomatis. We show by live cell fluorescence microscopy and electron microscopy that lipid droplets (LDs), neutral lipid storage organelles, are translocated from the host cytoplasm into the inclusion lumen. LDs dock at the surface of the inclusion, penetrate the inclusion membrane and intimately associate with reticulate Bodies, the replicative form of Chlamydia. The inclusion membrane protein IncA, but not other inclusion membrane proteins, cofractionated with LDs and accumulated in the inclusion lumen. Therefore, we postulate that the translocation of LDs may occur at IncA-enriched subdomains of the inclusion membrane. Finally, the chlamydial protein Lda3 may participate in the cooption of these organelles by linking cytoplasmic LDs to inclusion membranes and promoting the removal of the LD protective coat protein, adipocyte differentiation related protein (ADRP). The wholesale transport of LDs into the lumen of a parasitophorous vacuole represents a unique mechanism of organelle sequestration and subversion by a bacterial pathogen.
Radioresistance of Deinococcus radiodurans: functions necessary to survive ionizing radiation are also necessary to survive prolonged desiccation (1996)

Forty-one ionizing radiation-sensitive strains of Deinococcus radiodurans were evaluated for their ability to survive 6 weeks of desiccation. All exhibited a substantial loss of viability upon rehydration compared with wild-type D. radiodurans. Examination of chromosomal DNA from desiccated cultures revealed a time-dependent increase in DNA damage, as measured by an increase in DNA double-strand breaks. The evidence presented suggests that D. radiodurans' ionizing radiation resistance is incidental, a consequence of this organism's adaptation to a common physiological stress, dehydration.
Soft‐core potentials in thermodynamic integration: Comparing one‐ and two‐step transformations (2011)

Molecular dynamics-based free energy calculations allow the determination of a variety of thermodynamic quantities from computer simulations of small molecules. Thermodynamic integration (TI) calculations can suffer from instabilities during the creation or annihilation of particles. This "singularity" problem can be addressed with "soft-core" potential functions which keep pairwise interaction energies finite for all configurations and provide smooth free energy curves. "One-step" transformations, in which electrostatic and van der Waals forces are simultaneously modified, can be simpler and less expensive than "two-step" transformations in which these properties are changed in separate calculations. Here, we study solvation free energies for molecules of different hydrophobicity using both models. We provide recommended values for the two parameters α(LJ) and β(C) controlling the behavior of the soft-core Lennard-Jones and Coulomb potentials and compare one- and two-step transformations with regard to their suitability for numerical integration. For many types of transformations, the one-step procedure offers a convenient and accurate approach to free energy estimates.
Cyclic Contraction on S- Metric Space (2013)

In this paper we introduced the concepts of cyclic contraction on S- metric space and proved some fixed point theorems on S- metric space. Our presented results are proper generalization of Sedghi et al. [14]. We also give an example in support of our theorem.<br />
Construction of a <i>Vibrio cholerae</i> Vaccine Candidate Using Transposon Delivery and FLP Recombinase-Mediated Excision (2000)

Recent efforts to develop a vaccine against the diarrheal disease cholera have focused on the use of live attenuated strains of the causative organism, Vibrio cholerae. The Ogawa lipopolysaccharide phenotype is expressed by many epidemic strains, and motility defects reduce the risk of reactive diarrhea in vaccine recipients. We therefore converted a motile Inaba(+) vaccine candidate, Peru-2, to a nonmotile Ogawa(+) phenotype using a mariner-based transposon carrying rfbT, the gene required for expression of the Ogawa phenotype. Analysis of 22 nonmotile Peru-2 mutants showed that two were Ogawa(+), and both of these strains had insertions in the flgE gene. It was possible to convert these strains to antibiotic sensitivity by introducing a recombinase that acts on sites flanking the antibiotic marker on the transposon. The resulting strains are competent for colonization in infant mice and may therefore be suitable as vaccine candidates for use either independently or in a combination with strains of different biotypes and serotypes.
Hydrogenation of vegetable oils using mixtures of supercritical carbon dioxide and hydrogen (2001)

Abstract Hydrogenation of vegetable oils under supercritical conditions can involve a homogeneous one‐phase system, or alternatively two supercritical components in the presence of a condensed phase consisting of oil and a solid catalyst. The former operation is usually conducted in flow reactors while the latter mode is more amenable to stirred, batch‐reactor technology. Although many advantages have been cited for the one‐phase hydrogenation of oils or oleochemicals using supercritical carbon dioxide or propane, its ultimate productivity is limited by the oil solubility in the supercritical fluid phase as well as unconventional conditions that affect the hydrogenation. In this study, a dead‐end reactor has been utilized in conjunction with a head‐space consisting of either a binary fluid phase consisting of varying amounts of carbon dioxide mixed with hydrogen or neat hydrogen for comparison purposes. Reaction pressures up to 2000 psi and temperatures in the range of 120–140°C have been utilized with a conventional nickel catalyst to hydrogenate soybean oil. Depending on the chosen reaction conditions, a wide variety of end products can be produced having different iodine values, percentage trans fatty acid content, and dropping points or solid fat indices. Although addition of carbon dioxide to the fluid phase containing hydrogen retards the overall reaction rate in most of the studied cases, the majority of products have low trans fatty acid content, consistent with a nonselective mode of hydrogenation.
Passive tracking exploiting local signal conservation: The white marker phenomenon (2003)

This article presents a novel approach to passive tracking of paramagnetic markers during endovascular interventions, exploiting positive contrast of the markers to their background, so-called "white marker tracking." The positive contrast results from dephasing of the background signal with a slice gradient, while near the marker the signal is conserved because a dipole field induced by the marker compensates the dephasing gradient. Theoretical investigation shows that a local gradient induced by the local dipole field will nearly always cancel the dephasing gradient somewhere, regardless of marker composition, gradient strength, orientation, and acquisition parameters. The actual appearance of the white marker is determined by the marker strength, echo-time, slice thickness, and gradient strength, as shown both theoretically and experimentally. The novel concept is demonstrated by tracking experiments in a flow phantom and in pig models and is shown to allow reliable and robust depiction of paramagnetic markers with positive contrast and significant suppression of the background signal.
Heterogeneous reconfigurable architectures for machine learning dataflows (2022)

Abstract This work explores the placement and routing of machine learning applications' dataflow graphs on different heterogeneous coarse‐grained reconfigurable architectures (CGRA). We analyze three different types of processing element (PE) heterogeneity, the first concerning the interconnection pattern, the second being on the kind of operations a single PE can execute, and the last concerning the PE buffer resources. This analysis aim to propose a fair reduction to the overall cost in comparison to the homogeneous CGRA architecture. We compare our results with the homogeneous case and one of the state‐of‐the‐art tools for placement and routing (P&R). Our algorithm executed, on average, 52% faster than VPR 8.1 (Versatile Place and Route), which is an open‐source academic tool designed for the FPGA placement and routing phases, reaching better mapping in 66% of cases and achieving the same results in 26% of cases. Furthermore, a heterogeneous architecture reduces the cost without losing performance in 76% of the cases considering multiplier heterogeneity. We propose a novel heterogeneous buffer architecture that minimizes the buffer resources by 56.3% for K‐means dataflow patterns. We also show that a heterogeneous border chess architecture outperforms a homogeneous one. In addition, our mapping reaches optimal instances of single tree dataflows compared to classical Lee/Choi and H‐trees.
Generation of Accurate Lane-Level Maps from Coarse Prior Maps and Lidar (2015)

While many research projects on autonomous driving and advanced driver support systems make heavy use of highly accurate maps covering large areas, there is relatively little work on methods for automatically generating such maps. These maps require accuracy in both the number of lanes and positioning of every lane, which we call lanelevel maps. Here, we present a method that combines coarse, inaccurate prior maps from OpenStreetMap (OSM) with local sensor information from 3D Lidar and a positioning system. We formulate a probabilistic model of lane structure using such information, and develop a number of tractable inference algorithms. These algorithms leverage the coarse structural information present in OSM, and integrates it with the highly accurate local sensor measurements. The resulting maps have extremely good alignment with manually constructed baseline maps generated for autonomous driving experiments.
Urban ‘Scenes’ and Local Development (2012)

This research focuses on applying the new concept of ‘urban scene’ to the metropolitan city of Seoul. In particular, the paper purports to determine the relationship between urban scenes and local development. In so doing, the paper first describes the concept of urban scene and its importance in urban sociology. The paper suggests three dimensions of scenes, legitimacy, theatricality, and authenticity, with specific examples and indicators. The basic argument of the urban scene approach is that we need to put more emphasis on the consumption aspect of the city, especially on cultural consumption. Thus, the city is now a place of consumption rather than a place of residence or production. Based on the theoretical discussion of urban scenes, the research draws a map of ‘Seoul Scenes’ in terms of five different sub-dimensions of urban scenes: traditional, glamour, bohemian, ethnic, and global scenes. To do so, various amenity data were collected for all of the 424 dong’s’ of Seoul, mainly from the Electronic Yellow Pages and the Business Registration Data of the Statistics Bureau. Using the amenity data, five detailed scene maps of the Seoul metropolitan area were drawn using the ARCGIS program. The results show that the part of Seoul north of the Han River (called ‘Kangbuk’ in Korean) is more traditional and the part south of the Han River (‘Kangnam’ in Korean) is more glamorous and global. In the next step, this study analyzes how scenes can influence the values and identities of the residents. By combining the scene map and Seoul Survey data, the research finds that those who live in the scenes with the highest scores, especially glamour, bohemian, and global scenes, have more professional occupations and tend to be more sensitive to cultural consumption. This suggests that the areas with the highest scene scores can better attract the creative class and have a higher possibility of job creation and economic development. Finally, the research discusses the relationship between scenes and housing prices. Using the apartment price data of Seoul city, the research shows that distribution of apartment prices in Seoul is significantly affected by the scene factors.
GNSS-denied geolocalization of UAVs by visual matching of onboard camera images with orthophotos (2021)

Localization of low-cost Unmanned Aerial Vehicles (UAVs) often relies on Global Navigation Satellite Systems (GNSS). GNSS are susceptible to both natural disruptions to radio signal and intentional jamming and spoofing by an adversary. A typical way to provide georeferenced localization without GNSS for small UAVs is to have a downward-facing camera and match camera images to a map. The downward-facing camera adds cost, size, and weight to the UAV platform and the orientation limits its usability for other purposes. In this work, we propose a Monte-Carlo localization method for georeferenced localization of an UAV requiring no infrastructure using only inertial measurements, a camera facing an arbitrary direction, and an orthoimage map. We perform orthorectification of the UAV image, relying on a local planarity assumption of the environment, relaxing the requirement of downward-pointing camera. We propose a measure of goodness for the matching score of an orthorectified UAV image and a map. We demonstrate that the system is able to localize globally an UAV with modest requirements for initialization and map resolution.
The separate and combined impact of the intestinal hormones, GIP, GLP-1, and GLP-2, on glucagon secretion in type 2 diabetes (2011)

Type 2 diabetes mellitus (T2DM) is associated with reduced suppression of glucagon during oral glucose tolerance test (OGTT), whereas isoglycemic intravenous glucose infusion (IIGI) results in normal glucagon suppression in these patients. We examined the role of the intestinal hormones glucose-dependent insulinotropic polypeptide (GIP), glucagon-like peptide-1 (GLP-1), and glucagon-like peptide-2 (GLP-2) in this discrepancy. Glucagon responses were measured during a 3-h 50-g OGTT (day A) and an IIGI (day B) in 10 patients with T2DM [age (mean ± SE), 51 ± 3 yr; body mass index, 33 ± 2 kg/m(2); HbA(1c), 6.5 ± 0.2%]. During four additional IIGIs, GIP (day C), GLP-1 (day D), GLP-2 (day E) and a combination of the three (day F) were infused intravenously. Isoglycemia during all six study days was obtained. As expected, no suppression of glucagon occurred during the initial phase of the OGTT, whereas significantly (P < 0.05) lower plasma levels of glucagon during the first 30 min of the IIGI (day B) were observed. The glucagon response during the IIGI + GIP + GLP-1 + GLP-2 infusion (day F) equaled the inappropriate glucagon response to OGTT (P = not significant). The separate GIP infusion (day C) elicited significant hypersecretion of glucagon, whereas GLP-1 infusion (day D) resulted in enhancement of glucagon suppression during IIGI. IIGI + GLP-2 infusion (day E) resulted in a glucagon response in the midrange between the glucagon responses to OGTT and IIGI. Our results indicate that the intestinal hormones, GIP, GLP-1, and GLP-2, may play a role in the inappropriate glucagon response to orally ingested glucose in T2DM with, especially, GIP, acting to increase glucagon secretion.