gebhart/patrepeval huggingface dataset:
EGFR Antibody Conjugated Bimetallic Au@Ag Nanorods for Enhanced SERS-Based Tumor Boundary Identification, Targeted Photoacoustic Imaging and Photothermal Therapy (2016)

The development of multifunctional nanoprobes for simultaneous targeted imaging, tumor boundary identification and photothermal therapy of gastric cancer has become a great challenge. Herein, EGFR monoclonal antibody-conjugated Au@Ag nanorods decorated with DTNB nanoprobes (5,5'-Dithiobis-(2-nitrobenzoic acid)) (EGFR-Au@Ag NR nanotags) were prepared and characterized. Their biocompatibility was analyzed by MTT assay. In vitro studies show that EGFR-Au@Ag NR nanotags own good biocompatibility and capability of targeting and entering into gastric cancer MGC803 cells, silver nano-film layer on the surface of gold nanorods remarkably enhance surfaceenhanced rama spectra (SERS) signal, enhanced photoacoustic imaging efficacy and photothermal conversion efficiency of gold nanorods. In vivo studies show that prepared nanotags could target actively gastric cancer cells at 2 h post-injection, and distributed in the tumor site, exhibited enhanced SERS signals to display clearly tumor boundary, enhanced photoacoustic imaging to display clearly tumor boundary. Under 1 w/cm 2 laser irradiation, tumor growth was remarkably inhibited by local photothermal therapy. In conclusion, high performance EGFR-antibody conjugated Au@Ag nanorod-DTNB nanoprobes exhibit great potential in applications such as targeted photoacoustic imaging, simultaneous tumor boundary identification and selective photothermal therapy of gastric cancer in the near future.
Tuning Hydrogen Sorption Properties of Metal–Organic Frameworks by Postsynthetic Covalent Modification (2009)

Postsynthetic modification is presented as a means to tune the hydrogen adsorption properties of a series of metal-organic frameworks (MOFs). IRMOF-3 (isoreticular metal-organic framework), UMCM-1-NH(2) (University of Michigan crystalline material), and DMOF-1-NH(2) (DABCO metal-organic framework) have been covalently modified with a series of anhydrides or isocyanates and the hydrogen sorption properties have been studied. Both the storage capacities and isosteric heats of adsorption clearly show that covalent postsynthetic modification can significantly enhance the sorption affinity of MOFs with hydrogen and in some cases increase both gravimetric and volumetric uptake of the gas as much as 40 %. The significance of the present study is illustrated by: 1) the nature of the substituents introduced by postsynthetic modification result in different effects on the binding of hydrogen; 2) the covalent postsynthetic modification approach allows for systematic modulation of hydrogen sorption properties; and 3) the ease of postsynthetic modification of MOFs allows a direct evaluation of the interplay between MOF structure, hydrogen uptake, and heat of adsorption. The findings presented herein show that postsynthetic modification is a powerful method to manipulate and better understand the gas sorption properties of MOFs.
Efficacy and safety of teneligliptin in combination with pioglitazone in <scp>J</scp>apanese patients with type 2 diabetes mellitus (2013)

Add-on therapy with teneligliptin was effective and generally well tolerated throughout the study period in Japanese patients with type 2 diabetes mellitus inadequately controlled with pioglitazone monotherapy. This trial was registered with ClinicalTrials.gov (no. NCT01026194).
Modeling predation processes in activated sludge (2009)

Predation by protozoa plays an important role in activated sludge. In this work, the kinetics for protozoan predation of active bacteria (X(H)), extracellular polymeric substances (EPS), and intracellular storage products (X(STO)) are added into a previously expanded unified model that describes the dynamics of EPS, X(STO), and soluble microbial products (SMP). The new biomass growth-decay-predation model describes the biomass fractions, soluble organic components, and oxygen-uptake rates considering EPS, X(STO), and predators during dynamic operating conditions in activated sludge. Model calibration using batch experimental data provides the new parameter values for predation processes and insights into mechanisms involving predators. The calibrated value of the maximum specific growth rate for the predators is much slower than for the bacteria, confirming that predators are relatively slow growers. However, the predators and bacteria have similar decay rates and dissolved oxygen affinities. Model testing with results independent of the calibration data shows two things. First, the model and calibrated parameters accurately simulate the independent results when predators are present. Second, eliminating predation by high salinity significantly lowers the OUR, and this is captured by the model.
DNA sequence homology between attB-related sites of Corynebacterium diphtheriae, Corynebacterium ulcerans, Corynebacterium glutamicum, and the attP side of γ-Cornephage (1990)

Chromosomal restriction fragments of Corynebacterium ulcerans and C. diphtheriae, containing an integration site for corynephages of the beta family, show homology on Southern blots. Homologous DNA in also found in the soil isolate C. glutamicum, although this strain is not susceptible to beta-corynephages. Three of these DNA fragments, one for each bacterial strain, and a fragment of gamma-corynephage DNA previously shown to contain the phage integration site, were cloned and sequenced. Alignment of the 3 bacterial sequences shows a very high degree of homology in a stretch of ca 120 nucleotides, whereas the rest of the sequences is generally non-homologous. Within this common bacterial portion, a segment of ca. 96 nucleotides (core sequence) is also highly homologous to the phage sequence. The first half (ca. 50 bp) of the core sequence is identical in all aligned sequences whereas the second half, which is largely occupied by a stem-and-loop structure, contains point mutations peculiar to each clone. The described sequences are likely to be involved in phage integration/excision processes.
Heat Stabilization of the Tissue Proteome: A New Technology for Improved Proteomics (2009)

After tissue or body fluid sampling, proteases and other protein-modifying enzymes can rapidly change composition of the proteome. As a direct consequence, analytical results will reflect a mix of in vivo proteome and ex vivo degradation products. Vital information about the presampling state may be destroyed or distorted, leading to variation between samples and incorrect conclusions. Sample stabilization and standardization of sample handling can reduce or eliminate this problem. Here, a novel tissue stabilization system which utilizes a combination of heat and pressure under vacuum was used to stop degradation in mouse brain tissue immediately after sampling. It was found by biochemical assays that enzymatic activity was reduced to background levels in stabilized samples. Western blot analysis confirmed that post-translational phosphorylations of analyzed proteins were stable and conserved for up to 2 h at room temperature and that peptide extracts were devoid of abundant protein degradation fragments. The combination of reduced complexity and proteolytic inactivation enabled mass spectrometric identification of several neuropeptides and endogenous peptides including modified species at higher levels compared to nonstabilized samples. The tissue stabilizing system ensures reproducible and rapid inactivation of enzymes. Therefore, the system provides a powerful improvement to proteomics by greatly reducing the complexity and dynamic range of the proteome in tissue samples and enables enhanced possibilities for discovery and analysis of clinically relevant protein/peptide biomarkers.
Element-Specific Probe of the Magnetic and Electronic Properties of Dy <i>i</i><i>ncar</i>-Fullerenes (2006)

The magnetic and electronic properties of a single atom and a pair of Dy atoms encapsulated inside fullerene carbon cages have been examined using X-ray absorption spectroscopy (XAS) and X-ray magnetic circular dichroism (XMCD) as well as resonant photoelectron spectroscopy (RESPES) across the Dy M(4,5)-edge. The comparison of the measured XAS spectra with multiplet calculations indicates that the encaged Dy has a 4f( 9) configuration. The presence of Dy 5d spectral weight in the valence band is not detected by RESPES, indicating that Dy is in a formally trivalent state. The evolution of the encaged Dy orbital and spin moments of the 4f orbitals as a function of the applied magnetic field and temperature has been obtained from XMCD measurements. At 6.9 T and 4 K, both the orbital and the spin magnetic moments of the encaged Dy 4f electrons are dramatically smaller than those expected for the free Dy(3+) at saturation.
Super-Resolution With Sparse Mixing Estimators (2010)

We introduce a class of inverse problem estimators computed by mixing adaptively a family of linear estimators corresponding to different priors. Sparse mixing weights are calculated over blocks of coefficients in a frame providing a sparse signal representation. They minimize an l1 norm taking into account the signal regularity in each block. Adaptive directional image interpolations are computed over a wavelet frame with an O(N logN) algorithm, providing state-of-the-art numerical results.
Freezing and Melting of Salt Hydrates Next to Solid Surfaces Probed by Infrared-Visible Sum Frequency Generation Spectroscopy (2014)

ABSTRACT: Understanding the freezing of salt solutions near solid surfaces is important in many scientific fields. Here we use sum frequency generation (SFG) spectros-copy to study the freezing of a NaCl solution next to a sapphire substrate. During cooling we observe two transitions. The first corresponds to segregation of concentrated brine next to the sapphire surface as we cool the system down to the region where ice and brine phases coexist. At this transition, the intensity of the ice-like peak decreases, suggesting the disruption of hydrogen-bonding by sodium ions. The second transition corre-sponds to the formation of NaCl hydrates with abrupt changes in both the SFG intensity and the sharpness of spectral peaks. The similarity in the position of the SFG peaks with those observed using IR and Raman spectros-
Adaptive Individual Blade Pitch Control to Reduce Platform Pitch Motion of a Floating Offshore Wind Turbine: Preliminary Study (2014)

This paper presents the preliminary study on damping of platform pitch motion of floating offshore wind turbine using adaptive individual blade pitch control. The platform pitch displacement is measured and used to derive the signal to actuate pitch of each blade independently which tries to damp the platform pitch motion. This independent blade pitch control signal is then combined with collective blade pitch control signal which is responsible for regulating the generator speed. The performance of proposed controller is compared with the baseline PID collective pitch controller and adaptive collective pitch controller.
Predicting mechanical properties of ultrahigh temperature ceramics using machine learning (2022)

Abstract Ultrahigh temperature ceramics (UHTCs) have melting points above 3000°C and outstanding strength at high temperatures, thus making them apposite structural materials for high‐temperature applications. Di‐borides, nitride, and carbide compounds—processed via various techniques—have been extensively studied and used in the manufacture of UHTCs. Current analytical models, based on our current but incomplete understanding of the theory, are unable to produce a priori predictions of mechanical properties of UHTCs based on their mixture designs and processing parameters. As a result, researchers have to rely on experiments—which are often costly and time‐consuming—to understand composition–structure–performance links in UHTCs. This study employs machine learning (ML) models (i.e., random forest and artificial neural network models) to predict Young's modulus, flexural strength, and fracture toughness of UHTCs in relation to a wide range of mixture designs, processing parameters, and testing conditions. Outcomes demonstrate that adequately trained ML models can yield reliable predictions, a priori, of the three aforesaid mechanical properties. The prediction performance on Young's modulus is superior to flexural strength and fracture toughness. Next, the ML model with the best prediction performance is utilized to evaluate and rank the impacts of input variables on Young's modulus. Finally, on the basis of such classification of consequential and inconsequential input variables, this study develops an easy‐to‐use, closed‐form analytical model to predict Young's modulus of UHTCs. Overall, this study highlights the ability of data‐driven numerical models to complement, or even replace, time‐consuming experiments, thereby accelerating the development of UHTCs.
Unusually wide co-factor tolerance in a metalloenzyme; divalent metal ions modulate endo-exonuclease activity in T5 exonuclease (2001)

T5 5'-3' exonuclease is a member of a homologous group of 5' nucleases which require divalent metal co-factors. Structural and biochemical studies suggest that single-stranded DNA substrates thread through a helical arch or hole in the protein, thus bringing the phosphodiester backbone into close proximity with the active site metal co-factors. In addition to the expected use of Mg(2+), Mn(2+) and Co(2+) as co-factors, we found that divalent zinc, iron, nickel and copper ions also supported catalysis. Such a range of co-factor utilisation is unusual in a single enzyme. Some co-factors such as Mn(2+) stimulated the cleavage of double-stranded closed-circular plasmid DNA. Such endonucleolytic cleavage of circular double-stranded DNA cannot be readily explained by the threading model proposed for the cleavage of substrates with free 5'-ends as the hole observed in the crystal structure of T5 exonuclease is too small to permit the passage of double-stranded DNA. We suggest that such a substrate may gain access to the active site of the enzyme by a process which does not involve threading.
Focus+Context Display of Web Pages: Implementation Alternatives (1997)

This paper describes an outline processor display of Web pages. We attach icons, called zippers, to the HTML heading tags (H1, H2,...), and the user can dynamically include or elide the body of each section by clicking on the zipper. We have implemented zippers in three different ways: zippers that are inserted by a custom-built Web browser and that control the browser&amp;apos;s display engine; zippers that are inserted into the HTML document by a Web proxy and that use the proxy to generate modified HTML reflecting the changed state of the zipper; and zippers that trigger a JavaScript program which redisplays an appropriately modified version of the page. A good way to experience the ideas presented here is to view the outline version of this paper. You will need to use Netscape Navigator 3 or higher.
Associations of Proinflammatory Cytokines With the Risk of Recurrent Stroke (2008)

Inflammatory markers associated with the acute-phase response (IL-6, TNF-alpha, C-reactive protein, and fibrinogen, but not IL-18) are associated with risk of recurrent stroke. These markers are dependent on each other in multivariable models, and once all were included, only TNF-alpha retained a borderline association. Markers of generalized inflammation of the acute-phase response are associated with recurrent stroke, rather than IL-6, C-reactive protein, or fibrinogen in particular.
Search for<mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" display="inline"><mml:mi mathvariant="italic">CP</mml:mi></mml:math>Violation in<mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" display="inline"><mml:mi>τ</mml:mi><mml:mo>→</mml:mo><mml:mspace/><mml:mi mathvariant="italic">K</mml:mi><mml:mi>π</mml:mi><mml:mrow><mml:msub><mml:mrow><mml:mi>ν</mml:mi></mml:mrow><mml:mrow><mml:mi>τ</mml:mi></mml:mrow></mml:msub></mml:mrow></mml:math>Decays (2002)

We search and find no evidence for $\mathrm{CP}$ violation in $\ensuremath{\tau}$ decays into the $K\ensuremath{\pi}{\ensuremath{\nu}}_{\ensuremath{\tau}}$ final state. We provide limits on the imaginary part of the coupling constant $\ensuremath{\Lambda}$ describing a relative contribution of the $\mathrm{CP}$ violating processes with respect to the standard model to be $\ensuremath{-}0.172&lt;\mathrm{Im}(\ensuremath{\Lambda})&lt;0.067$ at $90%$ C.L.
Effects of Propofol and Isoflurane Anesthesia on the Intraocular Pressure and Hemodynamics of Pigs (2010)

To determine the conditions under which anesthetized pigs can be used in acute noninvasive investigations of ocular hydro- and hemodynamics, the intraocular pressure (IOP) of adult pigs was recorded under the following conditions: (1) after intravenous injection of propofol plus ketamine; (2) during inhalation of isoflurane, and (3) 2 h after topical administration of bimatoprost or (4) timolol. Propofol/ketamine and isoflurane induced significant decreases in the IOP. The pulsation of the ophthalmic artery appeared at a significantly higher IOP in animals anesthetized with isoflurane than in those anesthetized with propofol/ketamine. Bimatoprost and timolol did not significantly decrease the IOP within 2 h after topical administration. It is concluded that different techniques for the acute noninvasive investigation of ocular hydro- and hemodynamics are applicable in anesthetized pigs. To test the effects of antiglaucoma agents, investigation periods longer than 2 h are required. We recommend the use of intravenous propofol/ketamine anesthesia rather than isoflurane anesthesia in future experiments using pigs.
17 Case study on bioplastics (2021)

This chapter is aimed at providing the reader an update insight of the state of the art of bioplastics and of their potential in transitioning to a development model capable of conserving resources. To this end, the “Case study on bioplastics” has been structured to include a description of the families of biopolymers relevant at industrial level and their characteristics, an illustration of the logic behind the design of bioproducts from biopolymers, the collection of a series of case studies and applications of bioproducts within selected value chains and a reflection on the interconnection between the development of biorefineries and the availability of bio-based materials, taking into account the criticality of land use.
The Borg hypothesis (2003)

What if intelligent computing were centered inside humans? Portending an even braver and newer world, it's now possible to insert wires into a person's nerves to control appliances. We can even send such signals over the Internet, where they are decoded by computer and then fed into another person's nervous system. Human bodies are getting more and more plugged in. It's not easy to set aside questions of ethics and choice. It is not even possible. However, in this essay we simply overlook them in order to work toward our hypothesis. To do that, we must take you on a trip into space. Our argument is that if humanity decides to continue human exploration of space, we will sooner or later-probably sooner-be forced to center some intelligent computing inside humans.
Super-resolution using Sparse Representations over Learned Dictionaries: Reconstruction of Brain Structure using Electron Microscopy (2012)

A central problem in neuroscience is reconstructing neuronal circuits on the synapse level. Due to a wide range of scales in brain architecture such reconstruction requires imaging that is both high-resolution and high-throughput. Existing electron microscopy (EM) techniques possess required resolution in the lateral plane and either high-throughput or high depth resolution but not both. Here, we exploit recent advances in unsupervised learning and signal processing to obtain high depth-resolution EM images computationally without sacrificing throughput. First, we show that the brain tissue can be represented as a sparse linear combination of localized basis functions that are learned using high-resolution datasets. We then develop compressive sensing-inspired techniques that can reconstruct the brain tissue from very few (typically 5) tomographic views of each section. This enables tracing of neuronal processes and, hence, high throughput reconstruction of neural circuits on the level of individual synapses.
Compressive sensing hyperspectral imager in the LWIR for chemical plume detection (2022)

An environmentally hardened compressive sensing hyperspectral imager (CS-HSI) operating in the long wave infrared (LWIR) has been developed for low-cost, standoff, wide area early warning of chemical vapor plumes. The CS-HSI employs a single-pixel architecture achieving an order of magnitude cost reduction relative to conventional HSI systems and a favorable pixel fill factor for standoff chemical plume imaging. A low-cost digital micromirror device modified for use in the LWIR is used to spatially encode the image of the scene; a Fabry-Perot tunable filter in conjunction with a single element mercury cadmium telluride photo-detector is used to spectrally resolve the spatially compressed data. A CS processing module reconstructs the spatially compressed spectral data, where both the measurement and sparsity basis functions are tailored to the CS-HSI hardware and chemical plume imaging. An automated target recognition algorithm is applied to the reconstructed hyperspectral data employing a variant of the adaptive cosine estimator for detection of chemical plumes in cluttered and dynamic backgrounds. The approach also offers the capability to generate detection products in compressed space with no CS reconstruction. This detection in transform space can be performed with a computationally lighter minimum variance distortionless response algorithm, resulting in a bandwidth advantage that supports efficient search and confirm modes of operation.
Designing a Tangible Interface for Manager Awareness in Wilderness Search and Rescue (2018)

We present a tangible interface for supporting wilderness search-and-rescue (SAR) managers in maintaining awareness of a large SAR incident, where there are numerous field teams searching for a lost person in a wilderness area. This interface consists of physical and digital representations of the search area and elements of the search activity (e.g., the locations of search teams, weather information, and clues from the field). It is intended to allow SAR managers to inspect information about the response and search area from different perspectives and aid them in planning by allowing them to physically manipulate the representations and explore the data through touch.