gebhart/patrepeval huggingface dataset:
Structural Analysis and Characterization of Lacticin Q, a Novel Bacteriocin Belonging to a New Family of Unmodified Bacteriocins of Gram-Positive Bacteria (2007)

Lactococcus lactis QU 5 isolated from corn produces a novel bacteriocin, termed lacticin Q. By acetone precipitation, cation-exchange chromatography, and reverse-phase high-performance liquid chromatography, lacticin Q was purified from the culture supernatant of this organism, and its molecular mass was determined to be 5,926.50 Da by mass spectrometry. Subsequent analyses of amino acid and DNA sequences revealed that lacticin Q comprised 53 amino acid residues and that its N-terminal methionine residue was formylated. In contrast to most bacteriocins produced by gram-positive bacteria, lacticin Q had no N-terminal extensions such as leader or signal sequences. It showed 66% and 48% identity to AucA, a hypothetical protein from Corynebacterium jeikeium plasmid pA501, and aureocin A53, a bacteriocin from Staphylococcus aureus A53, respectively. The characteristics of lacticin Q were determined and compared to those of nisin A. Similar to nisin A, lacticin Q exhibited antibacterial activity against various gram-positive bacteria. Lacticin Q was very stable against heat treatment and changes in pH; in particular, it was stable at alkaline pH values, while nisin A was inactivated. Moreover, lacticin Q induced ATP efflux from a Listeria sp. strain in a shorter time and at a lower concentration than nisin A, indicating that the former affected indicator cells in a different manner from that of the latter. The results described here clarified the fact that lacticin Q belongs to a new family of class II bacteriocins and that it can be employed as an alternative to or in combination with nisin A.
Multimode fiber for high-density optical interconnects (2017)

Data centers (DCs) are facing the challenge of delivering more capacity over longer distances. As line rates increase to 25 Gb/s and higher, DCs are being challenged with signal integrity issues due to the long electrical traces that require retiming. In addition, the density of interconnects on the front panel is limited by the size and power dissipation requirements of the pluggable modules. One proposal to overcome these issues is to use embedded optical transceivers in which optical fibers are used to transport data to and from the front panel. These embedded modules will utilize arrays of VCSEL or silicon-photonic transceivers, and in both cases, the capacity may be limited by the density of the optical connections on the chip. To address this constraint, we have prototyped optical fibers in which the glass and coating diameters are reduced to 80 and 125 microns, respectively. These smaller diameters enable twice as many optical interconnects in the same footprint, and this in turn will allow the transceiver arrays to be collinearly located on small chips with dimensions on the order of (5x5mm<sup>2</sup>)<sup>1,2</sup>. We have also incorporated these reduced diameter fibers into small, flexible 8-fiber ribbon cables which can simplify routing constraints inside modules and optical backplanes.
Surface Structure and Morphology of Calcium Carbonate Polymorphs Calcite, Aragonite, and Vaterite:  An Atomistic Approach (1998)

Atomistic simulation techniques have been employed to investigate the effect of molecular adsorption of water on the low-index surfaces of calcite, aragonite, and vaterite. Calculated surface and hydration energies agree with experiment and previous calculations where available. Known experimental surface features are reproduced, i.e., 1 × 1 symmetry and structural features of the calcite {101̄4} surface and bulk termination of the {101̄1} and {112̄0} surfaces. Surface carbonate groups tend to rotate to lie flat in the surface. The morphologies of the hydrated crystals agree with experimentally found morphologies. The bulk lattice energies of the polymorphs reflect their thermodynamic stability.
Kidney biomarkers and differential diagnosis of patients with cirrhosis and acute kidney injury (2013)

Urinary biomarkers of kidney injury are elevated in patients with cirrhosis and AKI due to ATN. Incorporating biomarkers into clinical decision making has the potential to more accurately guide treatment by establishing which patients have structural injury underlying their AKI. Further research is required to document biomarkers specific to HRS.
A method for tapered deep reactive ion etching using a modified Bosch process (2007)

This paper presents a method for etching tapered sidewalls in silicon using deep reactive ion etching. The method is based on consecutive switching between anisotropic etching using the Bosch process and isotropic dry etching. By controlling the etch depths of the anisotropic and isotropic etch sessions, the sidewall angle can be controlled over a relatively large range. Tapered sidewalls are useful in microfabrication processes such as metal coating of 3D structures (e.g. for electrical connections or vias), mold tool fabrication or as a tool to compensate for reentrant etching. The method was tested and characterized by etching basic test structures in silicon wafers. Based on the investigated anisotropic and isotropic etch depths the sidewall angle could be varied between 0° (straight vertical) and 36°. The sidewall angle was well predicted by a model using the etch depths as parameters. Due to the alternating etch procedure a scalloping pattern is generated on the sidewalls. By frequent switching and short etch sessions this scalloping can be reduced to less than 1 µm. The process represents an easy method to tailor the sidewall angle in deep etching of silicon. The etch scheme is run in a single etch system and can be implemented in ICP systems of most manufactures. The method can also be used in conjunction with the standard Bosch process as demonstrated herein, where the method was applied to compensate for reentrant etching of high out-of-plane mesa-structures.
Gut hormone responses after reconstructive surgery for ulcerative colitis. (1989)

After colectomy, continent ileal reservoirs are an accepted alternative to conventional ileostomy for patients with ulcerative colitis. To assess the effect of these reservoirs on digestive function, circulating and morphologic gut endocrine responses were measured in patients with a continent ileostomy or with a pelvic pouch and compared to patients with conventional ileostomy, with active ulcerative colitis and healthy controls. Eight subjects were studied in each group. Basal and postprandial plasma gastrin, enteroglucagon, neurotensin, vasoactive intestinal polypeptide, insulin, pancreatic glucagon, and pancreatic polypeptide in both groups with ileal reservoirs were equivalent to controls. Basal plasma motilin and postprandial plasma gastric inhibitory polypeptide were raised in ileal reservoir patients, but similar changes also occurred in ulcerative colitis patients and those with conventional ileostomy. In one half of patients, cell populations of enteroglucagon, peptide YY, and neurotensin were decreased in pouch mucosa that corresponded with the presence of mucosal inflammation. On the other hand, with pouch inflammation vasoactive intestinal polypeptide immunoreactive nerves were increased and a proportion of the fibres were moderately coarsened. Mucosal concentrations of vasoactive intestinal polypeptide did not, however, exceed that of controls. After an ileal reservoir sufficient reserve remains for gut hormone release into the circulation, suggesting compensation for the presence of a reservoir and the absence of a colon; circulating hormone changes do occur but are consequent upon previous ulcerative colitis. Reservoirs may show neuromorphologic alterations that appear to be related to mucosal inflammation.
Effect of local heating on restenosis and in-stent neointimal hyperplasia in the atherosclerotic rabbit model: a dose-ranging study (2008)

Moderate heating represents a promising approach to prevent in-stent restenosis via the limitation of the proliferative response without thrombosis induction.
High Electronic Conductance through Double-Helix DNA Molecules with Fullerene Anchoring Groups (2017)

Determining the mechanism of charge transport through native DNA remains a challenge as different factors such as measuring conditions, molecule conformations, and choice of technique can significantly affect the final results. In this contribution, we have used a new approach to measure current flowing through isolated double-stranded DNA molecules, using fullerene groups to anchor the DNA to a gold substrate. Measurements were performed at room temperature in an inert environment using a conductive AFM technique. It is shown that the π-stacked B-DNA structure is conserved on depositing the DNA. As a result, currents in the nanoampere range were obtained for voltages ranging between ±1 V. These experimental results are supported by a theoretical model that suggests that a multistep hopping mechanism between delocalized domains is responsible for the long-range current flow through this specific type of DNA.
Synthesis and Evaluation of 1-Deoxy-<scp>d</scp>-xylulose 5-Phosphate Analogues as Chelation-Based Inhibitors of Methylerythritol Phosphate Synthase (2005)

[structures: see text] A series of 1-deoxy-D-xylulose 5-phosphate (DXP) analogues were synthesized and evaluated as inhibitors of E. coli methylerythritol phosphate (MEP) synthase. In analogues 1-4, the methyl group in DXP was replaced by hydroxyl, hydroxylamino, methoxy, and amino moieties, respectively. In analogues 5 and 6, the acetyl moiety in DXP was replaced by hydroxymethyl and aminomethyl groups. These compounds were designed to coordinate to the active site divalent metal in MEP synthase. The carboxylate (1), methyl ester (3), amide (4), and alcohol (5) analogues were inhibitors with IC50's ranging from 0.25 to 1.0 mM. The hydroxamic acid (2) and amino (6) analogues did not inhibit the enzyme.
Filtering of Randomly Sampled, Time-Stamped Measurements (2006)

This paper concerns the filtering of measurements that are taken by networked sensors at non-uniform intervals but that are accurately time-stamped. Traditional digital filtering methods are difficult or impossible to use due to the non-uniform sampling. Two filtering methods are described. Both are based on making an assumption about signal behavior between measurements, such as the signal being constant between measurements. In the first method, a filter is formulated as an ordinary differential equation that is solved incrementally as measurements arrive. In the second method, signal convolution with a continuous time, finite impulse response filter is performed efficiently using a spline representation for the filter response. Examples of the operation both sorts of filters are shown on actual measured data
A Chaos MIMO Transmission Scheme for Channel Coding and Physical-Layer Security (2012)

In recent wireless communication systems, security is ensured mainly in the upper-layer techniques such as a password or a cryptography processing. However, security needs not be restricted to the upper-layer and the addition of physical-layer security also would yield a much more robust system. Therefore, in this paper, we exploit chaos communication and propose a chaos multiple-input multiple-output (MIMO) transmission scheme which achieves physical-layer security and additional channel-coding gain. A chaotic modulation symbol is multiplied to the data to be transmitted at each MIMO antenna to exploit the MIMO antenna diversity, and at the receiver, the joint MIMO detection and chaos decoding is done by maximum likelihood decoding (MLD). The conventional chaos modulation suffers from bit error rate (BER) performance degradation, while the coding gain is obtained in the proposed scheme by the chaos modulation in MIMO. We evaluate the performances of the proposed scheme by an analysis and computer simulations.
Geo‐parsing Messages from Microtext (2011)

Abstract Widespread use of social media during crises has become commonplace, as shown by the volume of messages during the Haiti earthquake of 2010 and Japan tsunami of 2011. Location mentions are particularly important in disaster messages as they can show emergency responders where problems have occurred. This article explores the sorts of locations that occur in disaster‐related social messages, how well off‐the‐shelf software identifies those locations, and what is needed to improve automated location identification, called geo‐parsing. To do this, we have sampled Twitter messages from the February 2011 earthquake in Christchurch, Canterbury, New Zealand. We annotated locations in messages manually to make a gold standard by which to measure locations identified by a Named Entity Recognition software. The Stanford NER software found some locations that were proper nouns, but did not identify locations that were not capitalized, local streets and buildings, or non‐standard place abbreviations and mis‐spellings that are plentiful in microtext. We review how these problems might be solved in software research, and model a readable crisis map that shows crisis location clusters via enlarged place labels.
Die Strukturverfeinerung des Zwei-dimensional Fehlgeordneten Natrium-metaphosphates Na<sub>2</sub>H<sub>2</sub>P<sub>4</sub>O<sub>12</sub> (1964)

Eingegangen am 14. Olctober 1963
Fiber laser driven EUV generation (2005)

Laser-plasma-produced EUV-radiation has been demonstrated using a pulsed fiber laser. Generated radiation is in the spectral range compatible with 13.5-nm EUV lithography. Fiber lasers can overcome power-scaling limitations of current LPP sources for EUV lithography.
Intracoronary stenting for acute and threatened closure complicating percutaneous transluminal coronary angioplasty. (1992)

BACKGROUND. Acute closure remains a significant limitation of percutaneous transluminal coronary angioplasty (PTCA) and underlies the majority of ischemic complications. This study details the clinical and angiographic characteristics of a series of patients receiving an intracoronary stent device to manage acute and threatened closure and presents the early clinical results. METHODS AND RESULTS. From October 1989 through June 1991, 115 patients undergoing PTCA received intracoronary stents to treat acute or threatened closure in 119 vessels. Sixty-three percent had multivessel coronary disease, 33 (29%) had undergone prior coronary artery bypass grafting (CABG), and 52 (45%) had had previous PTCA. Using the American College of Cardiology/American Heart Association (ACC/AHA) classification, 15% of lesions were class A, 55% were class B, and 30% were class C. Eight patients were referred with severe coronary dissection and unstable angina after PTCA at other institutions. Acute closure was defined as occlusion of the vessel with TIMI (Thrombolysis in Myocardial Infarction) 0 or 1 flow immediately before stent placement. Threatened closure required two or more of the following criteria: 1) a residual stenosis greater than 50%, 2) TIMI grade 2 flow, 3) angiographic dissection comprising extraluminal dye extravasation and/or a length of greater than 15 mm, 4) evidence of clinical ischemia (either typical angina or ECG changes). Twelve vessels (10%) met the criteria for acute closure, and 87 vessels (73%) satisfied the criteria for threatened closure. Twenty vessels (17%) failed to meet two criteria. Stenting produced optimal angiographic results in 111 vessels (93%), with mean diameter stenosis (+/- 1 SD) reduced from 83 +/- 12% before to 18 +/- 29% after stenting. Overall, in-hospital mortality was 1.7% and CABG was required in 4.2%; Q wave myocardial infarction (MI) occurred in 7% and non-Q wave MI in 9%. Stent thrombosis occurred in nine patients (7.6%). For the 108 patients who presented to the catheterization laboratory without evolving MI, Q wave MI occurred in 4% and non-Q wave MI occurred in 7%. Angiographic follow-up has been performed in 81 eligible patients (76%), and 34 patients (41%) had a lesion of greater than or equal to 50%. CONCLUSIONS. This stent may be a useful adjunct to balloon dilatation in acute or threatened closure. Randomized studies comparing this stent with alternative technologies are required.
Phase I trial of fenretinide lym-x-sorb oral powder in adults with solid tumors and lymphomas. (2011)

Better fenretinide formulations are needed to improve adult patient acceptability and compliance and to achieve the consistent systemic exposures associated with activity in preclinical models.
Association of <i>FOXO3A</i> variation with human longevity confirmed in German centenarians (2009)

The human forkhead box O3A gene (FOXO3A) encodes an evolutionarily conserved key regulator of the insulin-IGF1 signaling pathway that is known to influence metabolism and lifespan in model organisms. A recent study described 3 SNPs in the FOXO3A gene that were statistically significantly associated with longevity in a discovery sample of long-lived men of Japanese ancestry [Willcox et al. (2008) Proc Natl Acad Sci USA 105:13987-13992]. However, this finding required replication in an independent population. Here, we have investigated 16 known FOXO3A SNPs in an extensive collection of 1,762 German centenarians/nonagenarians and younger controls and provide evidence that polymorphisms in this gene were indeed associated with the ability to attain exceptional old age. The FOXO3A association was considerably stronger in centenarians than in nonagenarians, highlighting the importance of centenarians for genetic longevity research. Our study extended the initial finding observed in Japanese men to women and indicates that both genders were likely to be equally affected by variation in FOXO3A. Replication in a French centenarian sample generated a trend that supported the previous results. Our findings confirmed the initial discovery in the Japanese sample and indicate FOXO3A as a susceptibility gene for prolonged survival in humans.
Characterization of a Zinc Finger Gene Disrupted by the t(15;17) in Acute Promyelocytic Leukemia (1991)

The translocation t(15;17) associated with acute promyelocytic leukemia results in the fusion of the retinoic acid receptor alpha (RARA) gene to the PML gene. Characterization of PML revealed that it is a putative zinc finger protein and potential transcription factor that is commonly expressed, with at least three major transcription products. PML breakpoints cluster in two regions on either side of an alternatively spliced exon. Although leukemic cells with translocations characteristically express only one fusion product, both PML/RARA (on the 15q+ derivative chromosome) and RARA/PML (on the 17q- derivative) are transcribed.
Functional specificity of a long-range horizontal connection in cat visual cortex: a cross-correlation study (1991)

Anatomical investigations of the visual cortex revealed a regular set of interlaminar connections and long-range horizontal connections. An important component of the intrinsic cortical circuit is the projection from layer 5 to layer 6 over long horizontal distances. Previous work has shown that when layer 5 is locally inactivated, layer 6 cells lose their response in a segment of their receptive fields corresponding to the blocked area in layer 5. It has therefore been proposed that the long receptive fields characteristic of layer 6 cells might be generated by concatenating layer 5 cells with similar orientation preferences. In the present study, we used cross-correlation analysis to examine both source and target cells of the interlaminar connection from layer 5 to layer 6. We found correlated firing between cells separated by up to 4.2 mm, the longest horizontal distance studied. The occurrence of correlated firing depended on the functional properties and on the topographic position of the cells in layer 5 and layer 6. Interactions were only observed if the cells had matching orientation tuning and similar eye preference and if the layer 5 cells lay within the summation area of the layer 6 cells. Both simple and complex cells in layer 6 fired in synchrony with layer 5 cells. In layer 5, mainly standard complex cells, but very few special complex cells, participated in correlated firing with layer 6 cells. These results suggest that cells in layer 6 receive their input from cooriented, coaxially aligned standard complex cells in layer 5. This topographic arrangement and the length summation properties of standard complex cells in layer 5 are well suited to generate long receptive fields in layer 6. Thus, our experiments provide evidence for the functional specialization of a particular component of cortical circuitry.
Estimation of Prandtl numbers in binary mixtures of helium and other noble gases (1994)

This paper describes two different theoretical methods of calculating Prandtl numbers for mixtures of noble gases at moderate temperatures and pressures. In order to limit the scope and length of this work, only binary mixtures containing helium and one other noble gas (neon, argon, krypton, or xenon) were considered during this study. However, with relatively slight modifications, the methods described in this work for calculating Prandtl numbers should be applicable to other binary noble gas systems. In addition, theoretical gas mixture viscosities and thermal conductivities were compared with the corresponding experimentally measured values at 20.0 °C in order to provide a better assessment of the quality of the Prandtl number calculations. The results of this study should be useful to researchers and design engineers involved in optimizing the operation of acoustic refrigeration systems.
Increased Alzheimer pathology in Parkinson's disease related to antimuscarinic drugs (2003)

The hypothesis that blockade of muscarinic receptors is associated with increased Alzheimer-type pathology was investigated in Parkinson's disease. Amyloid plaque densities were more than 2.5-fold higher in cases treated with antimuscarinic medication in the long term compared with untreated or short-term treated cases (p = 0.005 and 0.00005, respectively). Neurofibrillary tangle densities were also highest in chronic compared with untreated or acute-treated groups (p = 0.02 and 0.05, respectively). The findings, if replicated, have potential implications for the use of anticholinergic medication in elderly Parkinson's disease patients.
The Holy Family (1991)

Abstract This chapter emphasizes the qualities and values that a family should practice to be holy. The Reformation era made a very big impact in Augsburg in terms of individual and collective moral behaviour. The Council encouraged every citizen of Augsburg to help make the city a city without sin. The Council believed that the social, economic, and moral order should become the pattern of all people from Augsburg, whatever their social status. The council even published a mandate intensifying sexual discipline, exhorting the citizens to a modest, God-fearing, and sober life, and calling for civic prayer. Moreover, the Council highlighted the importance of discipline and order as the defining characteristics of a pious household.