gebhart/patrepeval huggingface dataset:
Regulator of G-protein Signaling-21 (RGS21) Is an Inhibitor of Bitter Gustatory Signaling Found in Lingual and Airway Epithelia (2012)

The gustatory system detects tastants and transmits signals to the brain regarding ingested substances and nutrients. Although tastant receptors and taste signaling pathways have been identified, little is known about their regulation. Because bitter, sweet, and umami taste receptors are G protein-coupled receptors (GPCRs), we hypothesized that regulators of G protein signaling (RGS) proteins may be involved. The recent cloning of RGS21 from taste bud cells has implicated this protein in the regulation of taste signaling; however, the exact role of RGS21 has not been precisely defined. Here, we sought to determine the role of RGS21 in tastant responsiveness. Biochemical analyses confirmed in silico predictions that RGS21 acts as a GTPase-accelerating protein (GAP) for multiple G protein α subunits, including adenylyl cyclase-inhibitory (Gα(i)) subunits and those thought to be involved in tastant signal transduction. Using a combination of in situ hybridization, RT-PCR, immunohistochemistry, and immunofluorescence, we demonstrate that RGS21 is not only endogenously expressed in mouse taste buds but also in lung airway epithelial cells, which have previously been shown to express components of the taste signaling cascade. Furthermore, as shown by reverse transcription-PCR, the immortalized human airway cell line 16HBE was found to express transcripts for tastant receptors, RGS21, and downstream taste signaling components. Over- and underexpression of RGS21 in 16HBE cells confirmed that RGS21 acts to oppose bitter tastant signaling to cAMP and calcium second messenger changes. Our data collectively suggests that RGS21 modulates bitter taste signal transduction.
An ARIMA-NARX Model to Predict Li-Ion State of Charge for Unknown Charge/Discharge Rates (2019)

State of charge (SOC) prediction for Li-ion batteries is an essential feature of a battery management system (BMS). This paper proposes two Autoregressive Integrated Moving Average (ARIMA) models to independently forecast cell current and voltage, respectively and a Nonlinear Autoregressive neural network (NARX-net) model. The battery parameters corresponding to an unknown higher C-rate are forecasted using the parameters corresponding to known C-rates obtained experimentally using a 3.7V, 3.5Ah Li-ion battery. Four algorithms are then used to train a NARX-net to predict SOC for an unknown higher C-rate, performances of which are compared with the experimentally obtained SOC for C/10. The resulting proposed model combining ARIMA and NARX-net predicts SOC with very low error values.
Characterization of cloned chicken anemia virus DNA that contains all elements for the infectious replication cycle (1991)

Circular double-stranded replication intermediates were identified in low-molecular-weight DNA of cells of the avian leukemia virus-induced lymphoblastoid cell line 1104-X-5 infected with chicken anemia virus (CAV). To characterize the genome of CAV, we cloned linearized CAV DNA into the vector pIC20H. Transfection of the circularized cloned insert into chicken cell lines caused a cytopathogenic effect, which was arrested when a chicken serum with neutralizing antibodies directed against CAV was added. Chickens inoculated at 1 day of age with CAV collected from cell lines transfected with cloned CAV DNA developed clinical signs of CAV. The 2,319-bp cloned CAV DNA contained all the genetic information needed for the complete replication cycle of CAV. The CAV DNA sequence has three partially overlapping major reading frames coding for putative peptides of 51.6, 24.0, and 13.6 kDa. The CAV genome probably contains only one promoter region and only one poly(A) addition signal. Southern blot analysis using oligomers derived from the CAV DNA sequence showed that infected cells contained double- and single-stranded CAV DNAs, whereas purified virus contained only the minus strand. It is the first time that the genome of one of the three known single-stranded circular DNA viruses has been completely analyzed.
AIR COUPLED ACOUSTIC THERMOGRAPHY (ACAT) INSPECTION TECHNIQUE (2008)

The scope of this effort is to determine the viability of a new heating technique using a noncontact acoustic excitation source. Because of low coupling between air and the structure, a synchronous detection method is employed. Any reduction in the out of plane stiffness improves the acoustic coupling efficiency and as a result, defective areas have an increase in temperature relative to the surrounding area. Hence a new measurement system, based on air‐coupled acoustic energy and synchronous detection is presented. An analytical model of a clamped circular plate is given, experimentally tested, and verified. Repeatability confirms the technique with a measurement uncertainty of +/−6.2 percent. The range of frequencies used was 800–2,000 Hertz. Acoustic excitation and consequent thermal detection of flaws in a helicopter blade is examined and results indicate that air coupled acoustic excitation enables the detection of core damage in sandwich honeycomb structures.
Performance of Ethane/Oxygen Fuel Cells Using Yttrium-Doped Barium Cerate as Electrolyte at Intermediate Temperatures (2007)

Fuel cells having proton conducting membranes comprising doped barium cerate ceramic BaCe0.85Y0.15O3-α (BCY15) as electrolyte and platinum as both anode and cathode electrodes performed well for conversion of ethane to ethylene at 650 and 700 °C. No deterioration in performance occurred during 20 days of operation at 700 °C. The electrolyte was stable, and the membrane remained a single perovskite phase after long-term testing. Current density at maximum power density increased with temperature from 650 to 700 °C at ethane flow rates of 100−200 mL/min. A better seal and consequently a better performance were obtained when the sealant was under compression, achieved by operating the cell in vertical attitude. Power density of 120 mW/cm2 was attained at current densities in the range 300−650 mA/cm2 at 700 °C and ethane flow rate 100 mL/min. There was good agreement between current and change in gaseous composition across the anode. The protonic current arose in two ways: by conversion of hydrogen arising from dehydrogenation of ethane, and by electrochemical conversion of ethane. At 650 °C the former is the major reaction path, while at 700 °C the latter is the major path.
Strontium‐releasing fluorapatite glass‐ceramics: Crystallization behavior, microstructure, and solubility (2017)

The purpose of this work was to investigate the effect of strontium partial replacement for calcium on the crystallization behavior, microstructure and solubility of fluorapatite glass-ceramics. Four glass compositions were prepared with increasing amounts of strontium partially replacing calcium. The crystallization behavior was analyzed by differential scanning calorimetry and X-ray diffraction (XRD). The microstructure was investigated by scanning electron microscopy. The chemical solubility was quantified according to ISO standard 10993-14. The amount of strontium released in solution after incubation in TRIS-HCl or citric acid buffer was measured by atomic absorption spectroscopy. XRD analyses revealed that partially substituted strontium-fluorapatite and strontium-åkermanite crystallized after strontium additions. The lattice cell volume of both phases increased linearly with the amount of strontium in the composition. Strontium additions led to a reduction in crystal size and an increase in crystal number density. The chemical solubility and amount of strontium released in solution increased linearly with the amount of strontium present in the composition in both TRIS-HCl and citric acid buffers. Total amounts of strontium released reached a maximum of 547 ± 80 ppm in TRIS-HCl and 1252 ± 290 ppm in citric acid buffer for the glass composition with the highest amount of strontium. For all strontium-containing compositions, the amount released in TRIS-HCl continued to increase between 70 and 120 h, indicating sustained release rather than burst release. © 2017 Wiley Periodicals, Inc. J Biomater Res Part B: 106B: 1421-1430, 2018.
Newcastle Disease Virus‐Like Particles: Preparation, Purification, Quantification, and Incorporation of Foreign Glycoproteins (2013)

Virus-like particles (VLPs) are large particles, the size of viruses, composed of repeating structures that mimic those of infectious virus. Since their structures are similar to that of viruses, they have been used to study the mechanisms of virus assembly. They are also in development for delivery of molecules to cells and in studies of the immunogenicity of particle-associated antigens. However, they have been most widely used for development of vaccines and vaccine candidates. VLPs can form upon the expression of the structural proteins of many different viruses. This chapter describes the generation and purification of VLPs formed with the structural proteins, M, NP, F, and HN proteins, of Newcastle disease virus (NDV). Newcastle disease virus-like particles (ND VLPs) have also been developed as a platform for assembly into VLPs of glycoproteins from other viruses. This chapter describes the methods for this use of ND VLPs.
5-Oxo-ETE Receptor Antagonists (2013)

5-Oxo-ETE is the most powerful eosinophil chemoattractant among lipid mediators. Eosinophil infiltration into the lungs of asthmatics may be responsible for the late phase of inflammatory asthma. We have designed and synthesized a 5-oxo-ETE receptor antagonist, the purpose of which is to prevent eosinophil migration to the lung during an asthma attack and thereby reduce asthma symptoms.
<i>PHOX2B</i> Mutation–confirmed Congenital Central Hypoventilation Syndrome (2006)

Abstract Congenital central hypoventilation syndrome (CCHS) typically presents in the newborn period. A case series of five adults is presented, each heterozygous for a documented polyalanine expansion mutation in the PHOX2B gene and evidence of nocturnal alveolar hypoventilation. All cases had symptoms in childhood, but survived to adulthood without ventilatory support. After identification of physiologic compromise, artificial ventilation was initiated. These adults have the mildest of the CCHS-related PHOX2B polyalanine expansion mutations, coding for only five extra alanines; three of the adults have affected offspring. Report of these cases should lead to a more rapid identification of CCHS presenting in adulthood.
Circular Metal/Semiconductor/Metal Photodetectors (1995)

Metal/semiconductor/metal (MSM) photodetectors with multiple concentric circular electrodes developed. Some electrical characteristics expected superior to those of older MSM photodetectors containing interdigitated straight electrodes. Response times smaller and shorter, and breakdown voltages larger. Decrease in capacitance allows greater signal-detection bandwidth. Important advantage in fiber-optic telecommunication systems, in which photodectors central components in receiver circuits. Increasing bandwidth of such photodetector enables receiver to handle larger number of channels or increased information rate in each channel.
Accelerated Compressed Sensing Based CT Image Reconstruction (2015)

In X-ray computed tomography (CT) an important objective is to reduce the radiation dose without significantly degrading the image quality. Compressed sensing (CS) enables the radiation dose to be reduced by producing diagnostic images from a limited number of projections. However, conventional CS-based algorithms are computationally intensive and time-consuming. We propose a new algorithm that accelerates the CS-based reconstruction by using a fast pseudopolar Fourier based Radon transform and rebinning the diverging fan beams to parallel beams. The reconstruction process is analyzed using a maximum-a-posterior approach, which is transformed into a weighted CS problem. The weights involved in the proposed model are calculated based on the statistical characteristics of the reconstruction process, which is formulated in terms of the measurement noise and rebinning interpolation error. Therefore, the proposed method not only accelerates the reconstruction, but also removes the rebinning and interpolation errors. Simulation results are shown for phantoms and a patient. For example, a 512 × 512 Shepp-Logan phantom when reconstructed from 128 rebinned projections using a conventional CS method had 10% error, whereas with the proposed method the reconstruction error was less than 1%. Moreover, computation times of less than 30 sec were obtained using a standard desktop computer without numerical optimization.
Applying microfabrication to helical vacuum electron devices for THz applications (2009)

A new class of helical THz vacuum electron devices is under development using unconventional applications of microfabrication technology, modern computer modeling, and novel materials. The resulting slow wave circuits consist of a coil of gold wire, smaller in outside diameter than a human hair, supported by a thin diamond sheet and suspended within a diamond box. This configuration will extend the operating range of the helical slow wave circuit into the THz frequency band. Previously, the advantages of the wide bandwidth and high efficiency of the helical slow wave circuit have been available only for operation at frequencies below 50 or 60 GHz because of the difficulty of winding small coils of wire and because it is impossible to transmit a significant beam current through the small aperture offered by the center of the helix. These obstacles are overcome by fabricating the helices lithographically and by passing the electron beam around the outside of the helix. The design and fabrication of a 650 GHz backward wave oscillator (BWO) will be described as well as proposed applications of this technology to traveling wave tubes (TWTs) operating at frequencies as high as 1.0 THz. A THz amplifier, possibly with multioctave bandwidth, would have a wide range of important applications.
Metal-Organic Frameworks with Open Metal Sites for Sensing, Catalysis, and Energy Storage (2018)

Metal-Organic Frameworks (MOFs) are a class of coordination polymer in which metal ions and organic electron donors (“linkers”) assemble to form crystalline structures with stable nanoporosity. As a result of well-understood principles governing inorganic coordination chemistry and the rigidity and topology of the linkers, rational design principles have been established that allow MOFs to be designed and synthesized with properties selected for specific applications. Among the thousands of known MOFs, those with incomplete coordination shells around the metal ion (also known as open metal sites, or OMS) exhibit unique properties, including increased uptake of weakly interacting gases such as H 2 and CH 4 , catalytic behavior resulting from substrate coordination to the OMS, and guest-dependent electrical conductivity that provides an avenue to electronic devices and sensors. This presentation will provide an introduction to MOFs and MOFs with OMS, then illustrate their possibilities using examples from our recent research: 1) catalytic cleavage of carbon-oxygen bonds found in lignin using activated H 2 ; 2) colorimetric sensing; and 3) creation of electrically conducting MOFs using redox-active guest molecules such as TCNQ (7,7,8,8-tetracyanoquinodimethane). In each of these examples, guest molecules in the MOF pores interact directly with the OMS, resulting in bond polarization, modification of the electronic structure of the metal ion, and/or charge transfer between the metal ion and the guest. In the case of C-O bond cleavage, chemisorption of substrate ether molecules to Mg(II) ions in the IRMOF-74 series weakens the C-O bond. In addition, the MOF activates H 2 molecules in solution with the substrate, as shown by isotope exchange experiments. Colorimetric sensing is enabled by guest binding to Cu(II) ions in the MOF known as HKUST-1, resulting in new charge-transfer transitions in the visible and near-UV. These perturbations of the electronic structure are relatively minor compared with the binding of TCNQ, a pi acid that bridges between two dimeric copper units in HKUST-1, creating a pathway for charge transport via a hopping mechanism. These results demonstrate that the novel features of MOFs with OMS provide the means to achieve completely new classes of catalysts and materials for chemical sensing and other electronic devices.
Image enhancement towards soft image authentication (2002)

This paper describes an image enhancement technique that can be made to any message authentication code (MAC) to improve its survivability against acceptable signal distortions such as re-compression, etc. This algorithm improves the MAC's error tolerance by transforming the image and creating an error tolerance buffer. As a result, minor acceptable changes in the coefficients (caused by common signal distortions) will not alter the value of the MAC. A change in a coefficient will affect a change in the MAC only if the coefficient change exceeds a given threshold. The performance of this method is analyzed for two types of image manipulation: JPEG compression and image tampering.
Transcriptome Analysis of Pediatric cALL Versus Normal Fetal B Cells Reveals a Novel Signature of the Malignant Phenotype. (2005)

Abstract Differential gene expression profiling of pediatric common acute lymphoblastic leukemia (cALL) versus non-malignant tissues enables identification of aberrantly expressed genes in malignant cells, facilitating discrimination of leukemic from normal cells and possibly revealing specific disease mechanisms. Expression patterns of 29 pediatric cALL samples were analyzed by use of high-density DNA microarrays HG-U133A. Leukemic patients’ bone marrow samples were compared to sorted B cells from cord blood of healthy donors expressing CD19 and CD10 surface antigens. Principal component analysis clearly distinguished leukemia samples from normal controls. Significance analysis of microarrays revealed 723 genes significantly up-regulated, and 617 down-regulated genes in leukemic cells. Independent validation of deregulated genes by RT-PCR was chosen to address enrichment limitations of controls. A comparison to previous publications investigating genetically defined subsets of cALL revealed only 5 – 22% match with our differentially expressed genes. Furthermore, class prediction with only 14 differentially expressed genes correctly classified tumors and controls not included in the training set and hitherto not investigated samples including 3 leukemic tumor lines (NALM-6, CALL-2, 697) as cALL. Interestingly, terminal deoxynucleotidyl-transferase (DNTT) as well as in the context of cALL unknown genes, were found to be the strongest predictive genes for the malignant phenotype signifying the diagnostic value of our approach.
Transplantation of a Human Tissue-Engineered Bowel in an Athymic Rat Model (2017)

Intestinal failure is a serious clinical condition characterized by loss of motility, absorptive function, and malnutrition. Current treatments do not provide the optimal solution for patients due to the numerous resulting complications. A bioengineered bowel that contains the necessary cellular components provides a viable option for patients. In this study, human tissue-engineered bowel (hTEB) was developed using a technique, whereby human-sourced smooth muscle cells were aligned and neoinnervated using human-sourced neural progenitor cells, resulting in the formation of intrinsically innervated smooth muscle sheets. The sheets were then rolled around hollow tubular chitosan scaffolds and implanted in the omentum of athymic rats for neovascularization. Four weeks later, biopsies of hTEB showed vascularization, normal cell alignment, phenotype, and function. During the biopsy procedure, hTEB was transplanted into the same rat's native intestine. The rats gained weight and 6 weeks later, hTEB was harvested for studies. hTEB was healthy in color with normal diameter and with digested food in the lumen, indicating propulsion of luminal content through the hTEB. Histological studies indicated neomucosa with evidence of crypts and villi structures. This study provides proof of concept that hTEB could provide a viable treatment to lengthen the gut for patients with gastrointestinal disorders.
Dynamic Force Analysis of the Carpal Wrist (1997)

Abstract The Carpal Wrist is a novel, parallel-architecture device that exhibits many features desirable in a robotic wrist. Previous static analysis has verified the large, singularity-free workspace and the excellent force-bearing ability of the Carpal Wrist. Here, the parallel structure is shown to be particularly advantageous when considered dynamically due to its lightweight structure and multiple load bearing members. The dynamic equations of motion are derived in closed form by direct application of Lagrange’s equations to the kinematic model. The model assumes a relatively massive tool and includes all gravitational, inertial, and gyroscopic effects. The equations of motion provide closed-form evaluation of the actuation moments based on general tool trajectories.
Antibodies to Citrullinated Human Fibrinogen Synthetic Peptides in Diagnosing Rheumatoid Arthritis (2007)

Since aggressive therapy given early in the rheumatoid arthritis (RA) disease course has the greatest therapeutic potential, early diagnostic tests with both high specificity and sensitivity are desirable. Rheumatoid sera were found to contain antibodies against citrullinated peptides, which are considered to be highly specific markers of RA. In the present work several analogues of the alpha- and beta-chains of fibrin peptides containing different degrees of citrullination have been synthesized and analyzed by ELISA using 111 sera from RA patients. In addition, we have also investigated the synergistic effects of different presentation formats of the synthetic constructs. We have designed chimeric and cyclic peptides that bear different peptide sequences within the same molecule. Our results indicate that the synthesis of peptides bearing fibrinogen and filaggrin domains could be a robust method for the design of useful diagnostic strategies in RA.
Expression cloning of a cDNA for human leukotriene C4 synthase, an integral membrane protein conjugating reduced glutathione to leukotriene A4. (1994)

Leukotriene (LT) C4 synthase, an integral microsomal membrane protein, conjugates LTA4, an epoxide intermediate, to reduced glutathione (GSH) to form a proinflammatory mediator, LTC4. A sensitive fluorescence-linked immunoassay for LTC4 was used to screen a KG-1 cDNA expression library for LTC4 synthase activity after transfection of COS cells and addition of substrate LTA4. Stepwise resolution of 240,000 colonies in 96 pools led to the identification of individual clones with maximal LTC4 synthase activity that contained a 694-bp cDNA insert. This insert was composed of a 54-bp 5' nontranslated region, an ATTAAA polyadenylylation signal, and a poly(A)+ tail. The open reading frame encodes a 16.5-kDa protein with a pI of 11.05. Hybridization with a cDNA probe demonstrated a mRNA transcript of 0.7 kbp in RNAs from human eosinophils and KG-1 cells, which contain LTC4 synthase. The nucleotide and deduced amino acid sequences of the LTC4 synthase cDNA show no significant homology to GSH S-transferases but share 31% overall amino acid identity with 5-lipoxygenase activating protein (FLAP). The identity at the N-terminal two-thirds of these two proteins is 44%, with some regions of near identity. Peptide structural analysis of the deduced LTC4 synthase predicts the presence of three transmembrane domains nearly superimposable on those of FLAP. Moreover, LTC4 synthase is inhibitable by a FLAP inhibitor, MK-886. Therefore, LTC4 synthase is distinct from the known GSH S-transferases by nucleotide and consensus amino acid sequences, and its GSH-conjugating function represents a distinct integral membrane protein belonging to a distinct gene family.