gebhart/patrepeval huggingface dataset:
EXPRESSED SEQUENCE TAG ANALYSIS OF GENE REPRESENTATION IN INSECT PARASITIC NEMATODE HETERORHABDITIS BACTERIOPHORA (2007)

We compared Heterorhabditis bacteriophora GPS11 expressed sequence tags (ESTs) to the ESTs of animal-parasitic, human-parasitic, plant-parasitic, and free-living nematodes. We identified 127 previously nondescribed ESTs of which 119 had homologs in ESTs and 8 had homologs in proteins of free-living nematodes. These ESTs were assigned putative functions in transcription, signal transduction, cell cycle control, metabolism, information processing, and cellular processes, thereby providing better insight into H. bacteriophora metabolism, sex determination, and signal transduction. We also identified 36 H. bacteriophora ESTs that had significant similarities to ESTs of parasitic nematodes, but not to ESTs or proteins of free-living nematodes species. Among these are the ESTs encoding a centrin, an ankyrin-repeat containing protein, and a nuclear hormone receptor. Our analysis also revealed that parasitic nematode-specific ESTs in this H. bacteriophora data set had more homologs in animal-parasitic nematodes than those parasitizing humans or plants.
Isolated Familial Somatotropinomas: Does the Disease Map to 11q13 or to 2p16? (2000)

Ankylosing Spondylitis To the editor:
Skeletal stability after 2-jaw surgery via surgery-first approach in facial asymmetry patients using CBCT (2020)

In facial asymmetry patients, similar results were observed in the postoperative skeletal stability when 2-jaw surgery via surgery-first approach was compared with conventional 2-jaw surgery. However, significant lateral deviation of upper incisor midline was observed. In addition, a shorter average treatment duration was observed. To stabilize the unstable occlusion after surgery, increased wearing of the stent and proactive rubber guidance will be needed.
Suppression of Adipocyte Differentiation by Aldo-keto Reductase 1B3 Acting as Prostaglandin F2α Synthase (2010)

Prostaglandin (PG) F(2alpha) suppresses adipocyte differentiation by inhibiting the function of peroxisome proliferator-activated receptor gamma. However, PGF(2alpha) synthase (PGFS) in adipocytes remains to be identified. Here, we studied the expression of members of the aldo-keto reductase (AKR) 1B family acting as PGFS during adipogenesis of mouse 3T3-L1 cells. AKR1B3 mRNA was expressed in preadipocytes, and its level increased about 4-fold at day 1 after initiation of adipocyte differentiation, and then quickly decreased the following day to a level lower than that in the preadipocytes. In contrast, the mRNA levels of Akr1b8 and 1b10 were clearly lower than that level of Akr1b3 in preadipocytes and remained unchanged during adipogenesis. The transient increase in Akr1b3 during adipogenesis was also observed by Western blot analysis. The mRNA for the FP receptor, which is selective for PGF(2alpha), was also expressed in preadipocytes. Its level increased about 2-fold within 1 h after the initiation of adipocyte differentiation and was maintained at almost the same level throughout adipocyte differentiation. The small interfering RNA for Akr1b3, but not for Akr1b8 or 1b10, suppressed PGF(2alpha) production and enhanced the expression of adipogenic genes such as peroxisome proliferator-activated receptor gamma, fatty acid-binding protein 4 (aP2), and stearoyl-CoA desaturase. Moreover, an FP receptor agonist, Fluprostenol, suppressed the expression of those adipogenic genes in 3T3-L1 cells; whereas an FP receptor antagonist, AL-8810, efficiently inhibited the suppression of adipogenesis caused by the endogenous PGF(2alpha). These results indicate that AKR1B3 acts as the PGFS in adipocytes and that AKR1B3-produced PGF(2alpha) suppressed adipocyte differentiation by acting through FP receptors.
Reduced Thrombocyte Adhesion to Endothelialized Poly 4-Methyl-1-Pentene Gas Exchange Membranes—A First Step Toward Bioartificial Lung Development (2010)

Polymeric materials used in biomedical devices, bioartificial organs, or for the fabrication of tissue engineering scaffolds should completely prevent the activation of the coagulation system and subsequent clot formation. Surface endothelialization is considered an important tool to optimize the blood compatibility of synthetic materials, as a functional endothelial cell layer on an artificial material may help control hemostasis and, therefore, provide a solution to improve the biocompatibility of these materials. Here we report on the endothelialization of poly 4-methyl-1-pentene (PMP) gas exchange membranes using human cord blood-derived late outgrowth endothelial colony forming cells. We achieved complete endothelialization of PMP membranes; and when seeded and cultivated on the membrane, cord blood-derived late outgrowth endothelial colony forming cells maintained both endothelial characteristics and functionality. Endothelialization resulted in significantly lower platelet adhesion and activation compared with unseeded membranes. Of importance, the endothelial layer had no major impact on gas permeability of PMP membranes. This study is a first promising step toward the development of a biofunctionalized surface for the use in gas exchange devices with blood contacting surfaces and a straightforward approach toward a long-term bio-hybrid lung replacement system.
Recent advancements in the discovery of protein–protein interaction inhibitors of replication protein A (2016)

Due to the relatively high rate of DNA damage that can occur during cell cycle progression, the DNA damage response (DDR) pathway is critical for the survival of eukaryotic cells. Replication protein A (RPA) is an essential cell cycle checkpoint protein that mediates the initiation of the DDR by binding to single-stranded DNA (ssDNA) and recruiting response partners <i>via</i> protein-protein interactions (PPIs). This important role of RPA in initiating the DDR and cell survival has led to interest within the scientific community to investigate RPA as a potential cancer drug discovery target. To this end, RPA inhibitors have been explored <i>via</i> a variety of methods. This review summarizes the structure and function of RPA and highlights recent efforts to discover inhibitors of RPA-protein interactions.
Visual to Sound: Generating Natural Sound for Videos in the Wild (2017)

As two of the five traditional human senses (sight, hearing, taste, smell, and touch), vision and sound are basic sources through which humans understand the world. Often correlated during natural events, these two modalities combine to jointly affect human perception. In this paper, we pose the task of generating sound given visual input. Such capabilities could help enable applications in virtual reality (generating sound for virtual scenes automatically) or provide additional accessibility to images or videos for people with visual impairments. As a first step in this direction, we apply learning-based methods to generate raw waveform samples given input video frames. We evaluate our models on a dataset of videos containing a variety of sounds (such as ambient sounds and sounds from people/animals). Our experiments show that the generated sounds are fairly realistic and have good temporal synchronization with the visual inputs.
Log-periodic temporal apertures for grating lobe suppression in k-space tomography (2020)

Millimeter-wave (mmW) imaging receivers have demonstrated the ability to sense radio-frequency (RF) waves using traditional phased antenna array techniques, and, through a coherent photonic up-conversion process, image these waves using free-space optical systems. Building upon the idea of coherent up-conversion, k-space tomography extends the functionality of the millimeter-wave imaging receiver as a two-dimensional spatial processing unit to three-dimensional sensing with the addition of frequency detection. In this configuration, an arrayed waveguide grating, or temporal aperture, is implemented following the photonic up-conversion of RF signals received by the phased array. These waveguides of varying length add a spectral beam-forming network to the existing spatial beam-forming of the mmW-imaging receiver. The introduction of three-dimensional phase information to the imaging system disrupts the ability to directly image the RF signal distribution on a photo-detector array, requiring the application of tomographic algorithms to reconstruct the power distribution of the received signals. In order to receive and properly recover the spatial-spectral distribution of RF sources, the antenna array and temporal array must be sampled adequately to avoid introduction of grating artifacts into the system response. Grating lobes, an artifact of regular spacing of elements within a grating, restrict the alias-free field of regard for antenna arrays, or the free spectral range for time-delay based arrays, thus limiting the spatial-spectral monitoring of RF sources via the k-space imaging modality. To alleviate this constraint, we present a non-uniform log-periodic array sampling for the k-space tomographic time-delay based aperture, greatly increasing the free spectral range of the system while maintaining the number of existing channels.
Inhibition of yeast ribonucleotide reductase by Sml1 depends on the allosteric state of the enzyme (2016)

Sml1 is an intrinsically disordered protein inhibitor of Saccharomyces cerevisiae ribonucleotide reductase (ScRR1), but its inhibition mechanism is poorly understood. RR reduces ribonucleoside diphosphates to their deoxy forms, and balances the nucleotide pool. Multiple turnover kinetics show that Sml1 inhibition of dGTP/ADP- and ATP/CDP-bound ScRR follows a mixed inhibition mechanism. However, Sml1 cooperatively binds to the ES complex in the dGTP/ADP form, whereas with ATP/CDP, Sml1 binds weakly and noncooperatively. Gel filtration and mutagenesis studies indicate that Sml1 does not alter the oligomerization equilibrium and the CXXC motif is not involved in the inhibition. The data suggest that Sml1 is an allosteric inhibitor.
Compensation of frequency-selective I/Q imbalances in wideband receivers: models and algorithms (2002)

To achieve satisfactory performance in analog I/Q (inphase/quadrature) processing-based wireless receivers, the matching of amplitudes and phases of the I and Q branches becomes vital. In practice, there is always some imbalance and the image attenuation produced by the analog processing remains finite. Especially in wideband receivers, where the existence of strong image band signals makes the attenuation requirements extremely stringent, analog processing is incapable of providing adequate image rejection. We derive a general frequency-dependent signal model for an imbalanced analog front-end and present two alternative methods utilizing digital processing to enhance the analog front-end image rejection. Based on the obtained results, the proposed methods provide adequate image signal rejection with very few assumptions, even in the difficult cases of frequency-selective and/or time-varying imbalances.
Penning Ion Trap (2016)

This document contains recommendations for terminology in mass spectrometry. Development of standard terms dates back to 1974 when the IUPAC Commission on Analytical Nomenclature issued recommendations on mass spectrometry terms and definitions. In 1978, the IUPAC Commission on Molecular Structure and Spectroscopy updated and extended the recommendations and made further recommendations regarding symbols, acronyms, and abbreviations. The IUPAC Physical Chemistry Division Commission on Molecular Structure and Spectroscopy’s Subcommittee on Mass Spectroscopy revised the recommended terms in 1991 and appended terms relating to vacuum technology. Some additional terms related to tandem mass spectrometry were added in 1993 and accelerator mass spectrometry in 1994. Owing to the rapid expansion of the field in the intervening years, particularly in mass spectrometry of biomolecules, a further revision of the recommendations has become necessary. This document contains a comprehensive revision of mass spectrometry terminology that represents the current consensus of the mass spectrometry community.
Joint Local Correlation and Global Contextual Information for Unsupervised 3D Model Retrieval and Classification (2021)

Unsupervised 3D model analysis has attracted tremendous attentions with the increasing growth of 3D model data and the extensive human annotations. Many effective methods have been designed to address the 3D model analysis with labeled information, while rare methods devote to unsupervised deep learning due to the difficulty of mining reliable information. In this paper, we propose a novel unsupervised deep learning method named joint local correlation and global contextual information (LCGC) for 3D model retrieval and classification, which mines the reliable triplet set and uses triplet loss to optimize the deep neural network. Our method proposes two schemes: 1) Local self-correlation information learning, which adopts the intra and inter information to construct the view-level triplet set. 2) Global neighbor contextual information learning, which employs the neighbor contextual information to explore the reliable relations among 3D models and construct the model-level triplet set. The above schemes encourage that the selected triple set can been used to improve the discrimination of learned features. Extensive evaluations on two large-scale datasets, ModelNet40 and ShapeNet55, have demonstrated the effectiveness of our proposed method.
Discovery of a 5H-Benzo[4,5]cyclohepta[1,2-b]pyridin-5-one (MK-2461) Inhibitor of c-Met Kinase for the Treatment of Cancer (2011)

c-Met is a transmembrane tyrosine kinase that mediates activation of several signaling pathways implicated in aggressive cancer phenotypes. In recent years, research into this area has highlighted c-Met as an attractive cancer drug target, triggering a number of approaches to disrupt aberrant c-Met signaling. Screening efforts identified a unique class of 5H-benzo[4,5]cyclohepta[1,2-b]pyridin-5-one kinase inhibitors, exemplified by 1. Subsequent SAR studies led to the development of 81 (MK-2461), a potent inhibitor of c-Met that was efficacious in preclinical animal models of tumor suppression. In addition, biochemical studies and X-ray analysis have revealed that this unique class of kinase inhibitors binds preferentially to the activated (phosphorylated) form of the kinase. This report details the development of 81 and provides a description of its unique biochemical properties.
Design of a Wideband Surface Mountable Suspended Integrated Strip-Line Technology (2020)

This paper presents a low-loss surface mountable suspended integrated strip-line (SISL) technology. A DC-20 GHz thru transmission line and an eleventh-order generalized Chebyshev lowpass filter (LPF), with a cutoff frequency of 18 GHz, are simulated, fabricated, and measured to demonstrate the first-ever surface mountable suspended strip-line designs. Measured results of the thru line show less than 1 dB of insertion loss and greater than 10 dB of return loss across the 20 GHz bandwidth. Moreover, measured results of the LPF show less than 1 dB of insertion loss and greater than 10 dB return loss across the 18 GHz passband, as well as greater than 30 dB of suppression above 19 GHz. The proposed SMT SISL technology also has advantages of compact size, light-weight, low cost, and elimination of the extended circuit to be a multi-layer board following the trend to reduce the size, weight, power, and cost (SWaP-C).
A method for improving resolution of a scanning electron microscope for inspection of nanodevices (2011)

A method for improving the resolution of a scanning electron microscope (SEM) designed for inspection of
nanodevices was developed. The trade-off between the resolution and depth of focus of the SEM was quantitatively
evaluated by a method based on information passing capacity. It was theoretically and experimentally shown that
depth of focus is enhanced under observation conditions with increased pixel size. Furthermore, increasing depth of
focus is effective in obtaining high-resolution images because increasing the pixel size of the formed SEM image
maintained the focal plane of the electron beam. The maximum axial magnetic field and the focal length of the objective
lens in the SEM optics needed to obtain a resolution of 0.9 nm were determined theoretically. The maximum axial
magnetic field can be strengthened by improving the immersion lens in the SEM optics in terms of geometry and
material composition. The focal length was reduced by adopting the immersion lens and by dynamically controlling the
electron beam by deflectors as well as optical correctors. This method will be applied in developing apparatuses for
R&D purposes as well as for improving the yield of the production process for integrated circuits.
Measures of vibrational localization on point-driven flat-panel loudspeakers (2016)

Previous publications on flat-panel, or distributed-mode, loudspeakers generally assume that a localized driving force is able to spread energy evenly across the surface of a panel. However, investigations have shown that panel vibrations remain localized around the driving point at high frequencies, and this paper presents a deeper investigation into this phenomenon. Energy spreading will only occur when the panel is actuated in a frequency region with a low density of modes, as many modes actuated together will combine to form a band-limited delta function at the location of the driving force. A quantitative measure of localization is introduced, based on the ratio of the energy contained in a small region around the driving point to the energy contained in the entire panel. Simulations demonstrate that the frequency cutoff for localized vibrational behavior is dependent on the damping rate of the modes and the location of the driver. Experiments validate this theory by analyzing the vibrational behavior of a plate subject to small inertial drivers at various locations with a laser vibrometer.
New routes to organofluorine compounds based on ketenes and the radical transfer of xanthates (2006)

New routes to organofluorine derivatives based mostly on the powerful xanthate radical transfer technology are described. A special emphasis is placed on the synthesis of trifluoromethyl-substituted structures, including trifluromethyl ketones and fluorinated aromatic and heteroaromatic substances of interest to the pharmaceutical and agrochemical industries.
A 4096-Neuron 1M-Synapse 3.8PJ/SOP Spiking Neural Network with On-Chip STDP Learning and Sparse Weights in 10NM FinFET CMOS (2018)

A 4096-neuron, 1M-synapse SNN in 10nm FinFET CMOS achieves a peak throughput of 25.2GSOP/s at 0.9V, peak energy efficiency of 3.8pJ/SOP at 525mV, and 2.3μW/neuron operation at 450mV. The SNN skips zero-valued activations for up to 9.4× lower energy. Fine-grained sparse weights reduce memory by up to 16×. On-chip STDP trains RBMs to de-noise MNIST digits and to reconstruct natural scene images with RMSE of 0.036. A 50% sparse weight MLP classifies MNIST digits with 97.9% accuracy at 1.7μJ/classification.
The Effect of Drag Reducing Agents on Corrosion in Multiphase Flow (1998)

Abstract The effect of drag reducing agents (DRA) on corrosion and flow regime has been studied in a 10 cm diameter, 18 m long plexiglass flow loop in 50% oil/water mixtures with carbon dioxide gas. Superficial liquid velocities between 0.1 and 1 m/s and gas velocities between 1 and 10 m/s respectively were studied. The corrosion rate was measured for stratified, slug and annular flow. The height of liquid film, slug velocity, and slug frequency were obtained from the video image using a super-VHS camera. The DRA effectiveness was examined for DRA concentrations between 0 and 75 ppm. Flow regimes maps were determined with 25 and 75 ppm DRA. These results were compared to the flow regime map with no DRA. The results indicate that the transition from stratified to slug flow is obtained at a higher superficial liquid velocities. This resulted in much lower corrosion rates due to the elimination of the highly turbulent slugs. The corrosion rate for stratified and annular flow did not generally reduce with adding DRA concentrations. For slug flow, the slug frequency decreased with the addition of 50 ppm DRA. This led to decrease of corrosion rate by almost 50%.
Oncogenic Forms of p53 Inhibit p53-Regulated Gene Expression (1992)

Mutant forms of the gene encoding the tumor suppressor p53 are found in numerous human malignancies, but the physiologic function of p53 and the effects of mutations on this function are unknown. The p53 protein binds DNA in a sequence-specific manner and thus may regulate gene transcription. Cotransfection experiments showed that wild-type p53 activated the expression of genes adjacent to a p53 DNA binding site. The level of activation correlated with DNA binding in vitro. Oncogenic forms of p53 lost this activity. Moreover, all mutants inhibited the activity of coexpressed wild-type p53, providing a basis for the selection of such mutants during tumorigenesis.
Correlation of Torque and Elbow Injury in Professional Baseball Pitchers (2010)

This study provides information that supports existing theories about how and why certain injuries occur during the throwing motion in baseball. The late cocking phase appears to be the critical point in the pitching motion, where higher levels of torque at the shoulder and elbow can result in increased risk of injury. Manipulation of pitching mechanics to alter these torque levels or using these measures to identify pitchers at risk may help decrease injury rates.
Experimental Model Identification and Controller Design of a Vapor Compression Cycle for Electronics Cooling (2010)

In this paper dynamic identification of the evaporator dynamics in a vapor compression cycle (VCC) subjected to imposed heat flux is studied. The imposed heat flux boundary condition at the evaporator represents a specific application of the VCC for electronics cooling. However, different models and control algorithms than traditional VCCs are required. First principle models are highly nonlinear and, hence, not practical for system control. A dynamic model identification of the refrigerant temperature at the exit of the evaporator, refrigerant pressure, and temperature of the heating element is performed by varying the expansion valve opening. It is shown that single-input single-output (SISO) identification is not sufficient to capture the dynamics of the evaporator, due to the coupling of the dynamics in the entire system. Including the effect of incoming mass flow rate into the evaporator to the model significantly improves the identification and prediction of the evaporator dynamics. Finally, a SISO controller based on the identified model, is designed and tested experimentally. The control objective is to maintain the temperature of the heating element below a set point, subjected to changes in heat flux.
Rapid Communication: Minimally Invasive Urologic Surgery Curricula (2007)

This standardized curriculum overview for minimally invasive urologic surgery is an initial attempt to define one aspect of a urology training program. We hope these curricula will serve as a basis for further discussion and development of a comprehensive urology training program.