gebhart/patrepeval huggingface dataset:
Solution Structure of a GA Mismatch DNA Sequence, d(CCATGAATGG)2, Determined by 2D NMR and Structural Refinement Methods (1994)

GA mismatches in DNA have drawn attention because of their special repair mechanisms, stability, and variety of conformations. A symmetric 10-base oligodeoxyribonucleotide duplex, d(CCATGAATGG)2, containing two GA mismatches has been investigated by one- and two-dimensional multinuclear NMR and molecular refinement procedures to ascertain the conformational details of the 5'-pyrimidine-GA-purine-3' sequence. A molecular model established from the NMR results has a B-type right-handed helix with each of the bases retaining the normal anti-glycosidic torsional angles. Type I mismatched base pairs have GNH2-AN7 and GN3-ANH2 (edge-to-edge) hydrogen bonds, while type II base pairs have GN1H-AN1 and GO6-ANH2 (face-to-face) bonds. The conformation at the GA mismatch site has type I GA base pairs and an unusual cross-strand stacking of the adjacent G5 and A6 bases, which causes significant overwinding of the helix at the mismatch site. Unusual shifts of the 31P resonances suggest that the phosphate linkage between G5 and A6 is no longer in the low-energy BI conformation. One-dimensional imino and phosphorus NMR studies were carried out on a number of DNA sequences containing adjacent 5'-GA-3' mismatched base pairs to investigate the sequence dependence of the conformations and base-pairing types. Type I and type II conformations have very different imino proton and 31P NMR spectral patterns that can be used to classify any sequence with adjacent GA mismatches by base-pairing and conformational type. The NMR results indicate that the conformation selected is dictated completely by the flanking sequence: 5'-pyrimidine-GA-purine-3' sequences adopt the type I conformation, while 5'-purine-GA-pyrimidine-3' sequences have the type II conformation.
Synthesis and Pharmacological Characterization of Bivalent Ligands of Epibatidine at Neuronal Nicotinic Acetylcholine Receptors (2004)

Abstract For Abstract see ChemInform Abstract in Full Text.
Integrated-Photonics-Based Architectures for Polarization-Gradient and EIT Cooling of Trapped Ions (2022)

We develop a framework for two advanced trapped-ion cooling schemes, polarization-gradient and electromagnetically-induced-transparency cooling, for 88 Sr + ions using a visible-wavelength integrated-photonics platform and present the design of the key integrated devices.
Synergistic Effect of Cation Composition Engineering of Hybrid Cs1−xFAxPbBr3 Nanocrystals for Self‐Healing Electronics Application (2022)

Mixed-cation hybrid perovskite nanocrystal (HPNC) with high crystallinity, color purity, and tunable optical bandgap offers a practical pathway toward next-generation displays. Herein, a two-step modified hot-injection combined with cation compositional engineering and surface treatment to synthesize high-purity cesium/formamidinium lead bromide HPNCs(Cs<sub>1-x</sub> FA<sub>x</sub> PbBr<sub>3</sub> ) is presented. The optimized Cs<sub>0.5</sub> FA<sub>0.5</sub> PbBr<sub>3</sub> light-emitting devices (LEDs) exhibit uniform luminescence of 3500 cd m<sup>-2</sup> and a prominent current efficiency of 21.5 cd A<sup>-1</sup> . As a proof of concept, a self-healing polymer (SHP) integrated with white LED backlight and laser prototypes exhibited 4 h autonomous self-healing through the synergistic effect of weak reversible imine bonds and stronger H-bonds. First, the SHP-HPNCs-initial and SHP-HPNCs-cut possess high long-term stability and dramatically suppressed lead leakage as low as 0.6 ppm along with a low leakage rate of 1.11 × 10<sup>-5</sup> cm<sup>2</sup> and 3.36 × 10<sup>-5</sup> cm<sup>2</sup> even over 6 months in water. Second, the Cs<sub>0.5</sub> FA<sub>0.5</sub> PbBr<sub>3</sub> HPNCs and SHP-induced shattered-repaired perovskite glass substrate show the lowest lasing threshold values of 1.24 and 8.58 µJ cm<sup>-2</sup> , respectively. This work provides an integrative and in-depth approach to exploiting SHP with intrinsic and entropic self-healing capabilities combined with HPNCs to develop robust and reliable soft-electronic backlight and laser applications.
Gold versus U.S. Common Stocks: Some Evidence on Inflation Hedge Performance and Cyclical Behavior (1983)

(1983). Gold versus U.S. Common Stocks: Some Evidence on Inflation Hedge Performance and Cyclical Behavior. Financial Analysts Journal: Vol. 39, No. 1, pp. 66-74.
Chuck Palahniuk: belleza entre la carroña (2012)

The findings suggest that Primary care patients often have symptoms they do not discuss, even when a primary sleep disorder exists. The brief SSC checklist, developed in our laboratory, has potential to improve the referral rates of older primary care patients who have sleep disorder.
Acetabular Revision Options (1997)

Management of the Bone Deficient Hip
Insights into the Lattice Structure of Cellulose II From the High Resolution CP/MAS Solid State13C NMR Spectrum of Cellotetraose (1984)

Abstract The chemical shifts and multiplicities of the high-resolution 13C CP/MAS NMR spectrum of cellulose II are quite diagnostic of the lattice structure of this polymorph. Particularly important is the chemical shift of C-1 and its clear splitting into two lines of equal intensity. Similar chemical shifts and multiplicities are seen in the spectrum of cellotetraose. Thus cellotetraose is considered to be a good model for the lattice structure of the polymer. A detailed investigation of the multiplicity of the C-1 resonance of cellotetraose shows that the two peaks are of equal intensity in this case also. Because of the limited number of repeat units in the tetramer, this observation implies that the unit cell contains two independent chains rather than a “double” repeat unit. This gives support for a similar lattice structure, with two independent chains, for cellulose II itself.
A work-efficient parallel breadth-first search algorithm (or how to cope with the nondeterminism of reducers) (2010)

We have developed a multithreaded implementation of breadth-first search (BFS) of a sparse graph using the Cilk++ extensions to C++. Our PBFS program on a single processor runs as quickly as a standar. C++ breadth-first search implementation. PBFS achieves high work-efficiency by using a novel implementation of a multiset data structure, called a "bag," in place of the FIFO queue usually employed in serial breadth-first search algorithms. For a variety of benchmark input graphs whose diameters are significantly smaller than the number of vertices -- a condition met by many real-world graphs -- PBFS demonstrates good speedup with the number of processing cores.
Effects of proton irradiation on InGaAs/AlGaAs multiple quantum well modulators [for free-space optical communication] (2002)

Recently large area multiple quantum well (MQW) optical modulators have been coupled to corner-cube optical retro-reflectors to allow free-space optical communications using a lightweight, low-power device. A pointing/tracking system and laser are required only on one end of the link. Such a system is attractive for ground-to-space links or space-to-space communication between a satellite and a microsat. An important question for these potential spaceborne systems is the radiation tolerance of MQW modulator, which is the principle active component. To investigate this subject, we irradiated three 0.5 cm diameter InGaAs/AlGaAs modulators using a sequence of bombardments of 1 MeV protons. One of the devices was irradiated while under a normal operating reverse bias voltage of 15 V; the other devices were unbiased. After each exposure the electronic, optical and modulation characteristics of the modulators were evaluated. No degradation was observed until a cumulative fluence of 1/spl times/10/sup 14/ protons/cm/sup 2/, equivalent to an ionizing radiation dose of approximately 200 Mrad(Si).
Evaluation of Conducted Noise of Resonant Switched Capacitor Converter (2006)

Conventional switched capacitor converters have an inherent drawback that their efficiency is much decreased as the output current is increased. To solve this problem we presented a novel resonant switched capacitor converter topology that uses a resonant operation instead of the forced charging and discharging operation. Its advantages over a conventional switched capacitor converter are a high efficiency and a low switching noise. In this paper, the operation analysis and steady-state characteristics are briefly reviewed for a boost type switched capacitor converter, and conducted noise characteristics are investigated experimentally
Epigallocatechin gallate (EGCG) suppresses lipopolysaccharide‐induced inflammatory bone resorption, and protects against alveolar bone loss in mice (2015)

Epigallocatechin gallate (EGCG), a major polyphenol in green tea, possesses antioxidant properties and regulates various cell functions. Here, we examined the function of EGCG in inflammatory bone resorption. In calvarial organ cultures, lipopolysaccharide (LPS)-induced bone resorption was clearly suppressed by EGCG. In osteoblasts, EGCG suppressed the LPS-induced expression of COX-2 and mPGES-1 mRNAs, as well as prostaglandin E2 production, and also suppressed RANKL expression, which is essential for osteoclast differentiation. LPS-induced bone resorption of mandibular alveolar bones was attenuated by EGCG in vitro, and the loss of mouse alveolar bone mass was inhibited by the catechin in vivo.
Mechanismus der decarboxylativen Dimerisierung von Maleinsäureanhydrid zu Dimethylmaleinsäureanhydrid unter Einfluss von 2‐Aminopyridin (1984)

Mechanism of the Decarboxylative Dimerization of Maleic Anhydride to Dimethylmaleic Anhydride under the Influence of 2‐Aminopyridine The mechanism of the decarboxylative dimerization of maleic anhydride to dimethylmaleic anhydride was investigated. It was shwon that imidazo[1,2‐ a ] pyridines play an important role as intermediates in this rather unusual transformation, the key step being a Michael addition of 5 to maleic anhydride.
Genome Sequence of Eubacterium limosum B2 and Evolution for Growth on a Mineral Medium with Methanol and CO2 as Sole Carbon Sources (2022)

<i>Eubacterium limosum</i> is an acetogen that can produce butyrate along with acetate as the main fermentation end-product from methanol, a promising C1 feedstock. Although physiological characterization of <i>E. limosum</i> B2 during methylotrophy was previously performed, the strain was cultured in a semi-defined medium, limiting the scope for further metabolic insights. Here, we sequenced the complete genome of the native strain and performed adaptive laboratory evolution to sustain growth on methanol mineral medium. The evolved population significantly improved its maximal growth rate by 3.45-fold. Furthermore, three clones from the evolved population were isolated on methanol mineral medium without cysteine by the addition of sodium thiosulfate. To identify mutations related to growth improvement, the whole genomes of wild-type <i>E. limosum</i> B2, the 10th, 25th, 50th, and 75th generations, and the three clones were sequenced. We explored the total proteomes of the native and the best evolved clone (n°2) and noticed significant differences in proteins involved in gluconeogenesis, anaplerotic reactions, and sulphate metabolism. Furthermore, a homologous recombination was found in subunit S of the type I restriction-modification system between both strains, changing the structure of the subunit, its sequence recognition and the methylome of the evolved clone. Taken together, the genomic, proteomic and methylomic data suggest a possible epigenetic mechanism of metabolic regulation.
The Spinning Disk Reactor for Polymers and Nanoparticles (2013)

Abstract The preparation of reactive polyurethanes, the photopolymerization, and copolymerization of acrylates in emulsion as well as solution and the precipitation and reactive precipitation to prepare BaSO 4 and silver nanoparticles, respectively, employing a spinning disk reactor (SDR) are summarized. The advantages of an SDR (excellent mass and heat transfer, minimal energy, and material usage, easy scale up as well as flexibility) are discussed. Where experiments are described comparing the SDR with traditional batch processes, known, optimized industrial batch processes are chosen. In all cases, the SDR could be shown to yield equivalent product quality while having procedural advantages. magnified image
Nuclear effects on the transverse momentum spectra of charged particles in pPb collisions at $$\sqrt{s_{_\mathrm {NN}}} =5.02$$ s NN = 5.02 $$\,\text {TeV}$$ TeV (2015)

Transverse momentum spectra of charged particles are measured by the CMS experiment at the CERN LHC in pPb collisions at [Formula: see text][Formula: see text], in the range [Formula: see text][Formula: see text] and pseudorapidity [Formula: see text] in the proton-nucleon center-of-mass frame. For [Formula: see text][Formula: see text], the charged-particle production is asymmetric about [Formula: see text], with smaller yield observed in the direction of the proton beam, qualitatively consistent with expectations from shadowing in nuclear parton distribution functions (nPDF). A pp reference spectrum at [Formula: see text][Formula: see text] is obtained by interpolation from previous measurements at higher and lower center-of-mass energies. The [Formula: see text] distribution measured in pPb collisions shows an enhancement of charged particles with [Formula: see text][Formula: see text] compared to expectations from the pp reference. The enhancement is larger than predicted by perturbative quantum chromodynamics calculations that include antishadowing modifications of nPDFs.
Compressive Sensing for Loss-Resilient Hybrid Wireless Video Transmission (2014)

The quality of wireless video delivery is susceptible to wireless channel instability, including channel fading, interference, noise, and packet loss. To improve the video quality in such wireless channels, analog transmission schemes have been proposed recently. However, the existing analog schemes have two drawbacks in high energy of video signals and loss resilience. To overcome the issues, we propose a new hybrid digital-analog transmission scheme, which jointly uses digital coding and analog coding based on compressive sensing. Digital coding generates the residual signals between the original and the encoded signals to decrease the energy of data for analog coding. Compressive sensing redistributes the energy across whole video packets to increase the resistance to packet loss. We show that our proposed hybrid scheme improves video quality by up to 11.6 dB compared to the existing analog scheme in an erasure wireless channel. In addition, our proposed scheme also improves video quality by 1.5 dB compared to the existing hybrid scheme.
Supplementary Methods from Impact of Screening Test Performance and Cost on Mortality Reduction and Cost-effectiveness of Multimodal Ovarian Cancer Screening (2023)

&lt;p&gt;PDF file - 105K&lt;/p&gt;
MEVO: Multi-environment stereo visual odometry (2014)

The ego motion estimation from an image sequence, commonly known as visual odometry, has been thoroughly studied in recent years. Different solutions have been developed depending on the particular scenario the system interacts in. In highly textured environments point features are abundant and visual odometry approaches focus on complementary steps, such as sparse bundle adjustment or keyframe techniques, to improve the accuracy of the motion estimation. In textureless scenarios, the absence of point features motivates the use of different image features. Lines have proven to be an interesting alternative to points in man-made environments, but very few visual odometry approaches have been developed using these types of features. Moreover, the combination of point and line features has not been considered in the development of real-time visual odometry algorithms. In this paper, we explore the combination of point and line features to robustly compute the six degree of freedom motion transformation between consecutive stereo frames. Additionally, we deal with the problem of line stereo matching, since our approach is based on 3D-2D correspondences to estimate motion. We develop an efficient algorithm to compute the stereo line matching, even in situations where one of the endpoints describing the line segment in the left image is not visible in the right image. Several experiments with synthetic and real image sequences show that a simple but effective combination of point and line features improves the motion estimate compared to approaches using only one type of these features with a slight increase in computational cost.
DNA repair deficiency biomarkers and identification of ER-positive breast cancer patients who may benefit from veliparib/carboplatin: Results from the I-SPY 2 trial. (2015)

521 Background: In the I-SPY 2 TRIAL, HER2- patients were adaptively randomized to receive standard chemotherapy or the PARP inhibitor veliparib with carboplatin (V/C) and chemotherapy. V/C graduated in the triple-negative (TN) subtype, and we’ve previously shown that DNA repair deficiency signatures [BRCAness and PARPi-7] may predict V/C response. Here we combine these signatures into a composite measure of DNA repair deficiency. Methods: 115 HER2- patients (V/C: 71 and concurrent controls: 44) are considered in this analysis. BRCA1/2 germline mutation is assessed by Myriad Genetics. The PARPi-7 and BRCAness signature scores are computed from Agilent 44K array data. A patient is predicted DNA repair deficient if carrying a BRCA1/2 mutation or BRCA-like or PARPi7-high. We modify the I-SPY 2 Bayesian model to include DNA repair deficiency status to estimate the predictive probability of V/C demonstrating superiority to control in a 1:1 randomized phase 3 trial of 300 ‘biomarker-positive’ patients. Our stud...
Reactive Extrusion of Stereocomplexed Poly‐L,D‐lactides: Processing, Characterization, and Properties (2012)

Abstract This work reports a facile route to synthesize homochiral and stereocomplexed polylactide by reactive extrusion. The effect of the polymerization catalyst (combination of tin(II)octanoate and triphenylphosphine) before and after its deactivation is discussed. Poly‐ L ‐lactide (PLLA) exhibits homochiral crystallinity and diblock poly‐ L , D ‐lactide (PDLLA) exhibits stereocomplex crystallinity. The presence of residual monomer leads to a plasticizing effect, reducing glass transition temperature ( T g ). Changes of the tacticity ( L , D ‐tacticity) of the stereocomplex are due to the transesterification reactions between L and D units. Deactivation of the catalyst reduces transesterification reactions and preserves the polylactide stereocomplex upon heating. magnified image
N‐cadherin mediated distribution of β‐catenin alters MAP kinase and BMP‐2 signaling on chondrogenesis‐related gene expression (2005)

We have examined the effect of calcium-dependent adhesion, mediated by N-cadherin, on cell signaling during chondrogenesis of multipotential embryonic mouse C3H10T1/2 cells. The activity of chondrogenic genes, type II collagen, aggrecan, and Sox9 were examined in monolayer (non-chondrogenic), and micromass (chondrogenic) cultures of parental C3H10T1/2 cells and altered C3H10T1/2 cell lines that express a dominant negative form of N-cadherin (delta390-T1/2) or overexpress normal N-cadherin (MNCD2-T1/2). Our findings show that missexpression or inhibition of N-cadherin in C3H10T1/2 cells results in temporal and spatial changes in expression of the chondrogenic genes Sox9, aggrecan, and collagen type II. We have also analyzed activity of the serum response factor (SRF), a nuclear target of MAP kinase signaling implicated in chondrogenesis. In semi-confluent monolayer cultures (minimum cell-cell contact) of C3H10T1/2, MNCD2-T1/2, or delta390-T1/2 cells, there was no significant change in the pattern of MAP kinase or bone morphogenetic protein-2 (BMP-2) regulation of SRF. However, in micromass cultures, the effect of MAP kinase and BMP-2 on SRF activity was proportional to the nuclear localization of beta-catenin, a Wnt stabilized cytoplasmic factor that can associate with lymphoid enhancer-binding factor (LEF) to serve as a transcription factor. Our findings suggest that the extent of adherens junction formation mediated by N-cadherin can modulate the potential Wnt-induced nuclear activity of beta-catenin.
Integration und Durchgängigkeit von Information im Produktionsmittellebenszyklus (2010)

Kurzfassung Die effiziente Lösung von Engineering- und Serviceaufgaben während des gesamten Lebenszyklus heutiger Produktionsanlagen setzt einen intensiven Informationstransfer zwischen Mitarbeitern der einzelnen Fachbereiche in Entwicklung, Konstruktion, Inbetriebnahme und Service voraus. Idealerweise dient hierbei das digitale Anlagenabbild als übergreifendes Informationsmodell und begleitet das Produktionssystem entlang seines Lebenszyklus und darüber hinaus für spätere Neukonstruktionen. Die Vernetzung von Lebenszyklusdaten ist jedoch in der Regel lückenhaft. So werden zum Beispiel externe Engineering- und Produktdaten sowie Daten aus der Elektro- und Automatisierungstechnik einschließlich des resultierenden Anlagenverhaltens nur unzureichend in das Informationsmodell der Digitalen Fabrik integriert. Zudem fehlen Werkzeuge, die nach der Inbetriebnahme einen systematischen Abgleich der realen Anlage mit dem digitalen Abbild ermöglichen. Damit entfernt sich aber die reale Anlage von ihrer digitalen Version, und es fehlen aktuelle und konsistente Informationen für Serviceaufgaben sowie für Erweiterungs- und Änderungsprojekte. Die in diesem Artikel vorgestellten Konzepte zielen auf eine verbesserte Durchgängigkeit der Information im Lebenszyklus von Produktionsmitteln unter Berücksichtigung der Notwendigkeit eines stetigen Abgleichs zwischen digitaler und realer Welt ab. Die entwickelten Konzepte werden anhand der Siemens-Modellanlage SmartAutomation veranschaulicht.
Highly Responsive and Thermally Reliable Near‐Infrared Organic Photodiodes Utilizing Naphthalocyanine Molecules Tuned with Axial Ligands (2020)

Abstract Achieving high‐performance near‐infrared (NIR) photodiodes is in great demand for potential applications like biometrics, security, artificial vision, biomedical imaging, etc. Herein, silicon naphthalocyanine (SiNc) small molecule‐based NIR photodiodes with narrowband absorption are presented. The optimized photodiode by varying the axial ligand in the SiNc molecules exhibits a high external quantum efficiency of 76.6% at 795 nm with narrow full width at half maximum of 80 nm, a very low dark current of 1.07 nA cm −2 at a reverse bias of −3 V, and the resultant detectivity of 5.66 × 10 12 Jones. Further increase of the detectivity up to 10 13 Jones is obtained by modulating the applied bias to −1 V, which is among the highest values of organic NIR detectors reported to date. The SiNc‐based photodiodes are further characterized by temporal response, linear dynamic range, etc., and shown to be stable in high humidity for over a month and in a remarkably wide temperature range (−55 to 125 °C). It is highly likely that the developed SiNc‐based photodiodes can be applicable to a wide variety of NIR sensor platforms.