gebhart/patrepeval huggingface dataset:
A combinatorial genetic library approach to target heterologous glycosylation enzymes to the endoplasmic reticulum or the Golgi apparatus of <i>Pichia pastoris</i> (2010)

To humanize the glycosylation pathway in the yeast Pichia pastoris, we developed several combinatorial genetic libraries and used them to properly localize active eukaryotic mannosidases and sugar transferases. Here we report the details of the fusion of up to 66 N-terminal targeting sequences of fungal type II membrane proteins to 33 catalytic domains of heterologous glycosylation enzymes. We show that while it is difficult to predict which leader/catalytic domain will result in the desired activity, analysis of the fusion protein libraries allows for the selection of the leader/catalytic domain combinations that function properly. This combinatorial approach, together with a high-throughput screening protocol, has allowed us to humanize the yeast glycosylation pathway to secrete human glycoprotein with complex N-glycosylation.
Neurosteroids for the potential protection of humans against organophosphate toxicity (2016)

This article describes the therapeutic potential of neurosteroids as anticonvulsant antidotes for chemical intoxication caused by organophosphate pesticides and nerve agents or gases like sarin and soman. Toxic manifestations following nerve agent exposure, as evident in chemical attacks in Japan and Syria, include hypersecretion, respiratory distress, tremors, convulsions leading to status epilepticus (SE), and death. Benzodiazepines, such as diazepam, are the current anticonvulsants of choice for controlling nerve agent-induced life-threatening seizures, SE, and brain injury. Benzodiazepines can control acute seizures when given early, but they are less effective for delayed treatment of SE, which is characterized by rapid desensitization of synaptic GABA<sub>A</sub> receptors, benzodiazepine resistance, and brain injury. Neurosteroid-sensitive extrasynaptic GABA<sub>A</sub> receptors, however, remain unaffected by such events. Thus, anticonvulsant neurosteroids may produce more effective protection than benzodiazepines against a broad spectrum of chemical agents, even when given late after nerve agent exposure.
A compound-wire loop antenna for circular polarization (1999)

This paper proposes a new loop antenna for circular polarization with a single feed. It is an unloaded loop antenna with a peripheral length of one wavelength and uses a compound-wire loop in which adjacent wires have different cross-sectional structures. This antenna is considered as a transmission line above a ground plane and analyzed as an equivalent circuit in which the different cross-sections of the wires are represented by different characteristic impedances. Using the transmission-line model, the condition for circular polarization is derived in terms of the characteristic impedances and the antenna height. Then, as a simple example, a loop antenna with composite radius and a circular cross-section is designed, and the relations among the antenna height, radius ratio, and the input impedance are investigated. The results are discussed and compared to the results of numerical analysis by the method of moments. Then, providing a proof of the effectiveness of the proposed method, an experiment considering the feeding structure is also described; the results agree well with the theory. © 1999 Scripta Technica, Electron Comm Jpn Pt 1, 82(5): 42–50, 1999
Flat-panel detector-based cone-beam volume CT breast imaging: preliminary phantom study (2001)

The clinical goal of breast imaging is to detect tumor masses when they are as small as possible, preferably less than 10 mm in diameter. Conventional film-screen mammography is the most effective tool for the early detection of breast cancer currently available. However, conventional mammography has relatively low sensitivity to detect small breast cancers (under several millimeters). Specificity and the positive predictive value of mammography remain limited owing to an overlap in the appearance of benign and malignant lesions, and surrounding structure. The limitations accompanying conventional mammography is to be addressed by incorporating a cone beam volume CT reconstruction technique with a recently developed flat panel detector. A computer simulation study has been performed to prove the feasibility of developing a flat panel detector-based cone beam volume CT breast imaging (FPD-CBVCTBI) technique. In this study, a preliminary phantom experiment is conducted to verify the findings in the computer simulation using a prototype flat panel detector-based cone beam volume CT scanner. The results indicate that the FPD-CBVCTBI technique effectively removes structure overlap and significantly improves the detectability of small breast tumors. This suggests that FPD-CBVCTBI is a potentially powerful breast-imaging tool.
Development of a Two-Dimensional Mass Spectrometer Using an Axially Resonant Excitation Linear Ion Trap (2007)

We performed a preliminary study on two-dimensional mass spectrometry (1st dimension, precursor ion's m/z; 2nd dimension, fragment ion's m/z) using an axially resonant excitation linear ion trap (AREX LIT) as the source ion trap. The spectrometer, consisting of a source ion trap with mass selectivity, a collision cell, and mass analyzer, is expected to have a duty cycle over 40 times that of conventional tandem mass spectrometers. Because the AREX LIT can eject ions with an efficiency of over 70% and energy dispersion of only a few electron volts, it can obtain a 2D mass spectrum with a good S/N in only 1 s.
Speech enhancement techniques (1988)

Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Twitter Facebook Reddit LinkedIn Tools Icon Tools Reprints and Permissions Cite Icon Cite Search Site Citation James M. Kates, Julian J. Bussgang; Speech enhancement techniques. J. Acoust. Soc. Am. 1 January 1988; 83 (1): 405. https://doi.org/10.1121/1.396211 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAcoustical Society of AmericaThe Journal of the Acoustical Society of America Search Advanced Search |Citation Search
Humoral immune response to plasmid protein pgp3 in patients with Chlamydia trachomatis infection (1994)

We identified, by two-dimensional electrophoretic analysis and microsequencing, a protein of Chlamydia trachomatis elementary bodies which corresponds to the polypeptide (pgp3) encoded by open reading frame 3 (ORF3). Amino acid analysis showed that the first residue (Gly) found in the native protein is the one encoded by the second ORF3 codon, implying a typical bacterial removal of the first Met residue. Relatively large amounts of recombinant pgp3 (r-pgp3) in a stable, water-soluble form were obtained by overexpressing ORF3 in Escherichia coli and purifying the product from periplasmic extracts under nondenaturing conditions. These r-pgp3 preparations allowed specific detection of anti-pgp3 antibodies by enzyme-linked immunosorbent assay. Analysis of a group of 170 sera from healthy blood donors and from patients who were seropositive or -negative for C. trachomatis and Chlamydia pneumoniae showed that an immune response to pgp3 occurs in the majority (ca. 81%) of patients with sexually transmitted diseases who are seropositive for C. trachomatis and generally correlates with the response to cell surface antigens. No reaction between r-pgp3 and C. pneumoniae-positive sera was detected.
Automated Disease Identification With 3-D Optical Imaging: A Medical Diagnostic Tool (2017)

Digital holographic microscopy is an ideal tool for 3-D cell imaging and characterization. It provides a host of cell parameters based on cell morphology and its temporal dynamics or time variation. These parameters can be used to study and quantify cell growth and cell physiology. When coupled with classification algorithms, this technique can also be used to identify and classify cells such as blood cells for automated disease identification. A compact, portable version of this 3-D optical imaging system has the potential to become a device for compact field portable biological data collection, analysis, and cell identification leading to disease diagnosis with mobile devices, low cost instruments for deployment in remote areas with limited access to healthcare to combat disease. In this paper, we present an overview of our reported work on the development of digital holographic microscopes and their applications in 3-D cell imaging, cell parameter extraction and cell classification for potential automated disease identification.
Design and Implementation of a Novel Interior Permanent Magnet Bearingless Slice Motor (2021)

In this article, we present a bearingless motor with a novel segmented dipole interior permanent magnet (IPM) slice rotor. The segmented dipole IPM rotor contains a unique pattern of interior permanent magnets arranged to generate a dipole air gap flux pattern. The magnets are encapsulated within an electrical steel rotor structure. The stator contains a three-phase, four-pole winding for suspension and a three-phase, two-pole winding for rotation. We present analyses of several candidate rotor designs. The analyses indicate that the segmented dipole IPM rotor achieves a reduced tradeoff between force and torque capacity and relatively symmetric force dynamics as compared to prior art designs and alternate topologies. Symmetric and decoupled force dynamics allow a simple force decoupling algorithm to be used. We designed, constructed, and tested a prototype system. We experimentally demonstrate that the prototype system can achieve stable levitation and open-loop rotation.
Study on development of forensic blood substitute: Focusing on bloodstain pattern analysis (2020)

Bloodstain pattern analysis, one of the areas of forensic science, is performed to analyze the physical characteristics of bloodstains, including their size, shape, and distribution, to reconstruct a crime scene. A bloodstain pattern analyst should obtain through experiments and education the capabilities to both understand the generation mechanisms of bloodstains and identify the characteristics of the bloodstains. Experiments and education about bloodstain pattern analysis are carried out by using human blood taken from subjects, animal blood (porcine or bovine) supplied from butcheries, and blood substitute products developed in other countries. However, these kinds of blood have many limitations in their application due to various problems. The blood substitute developed in the present study is more similar to human blood than other blood substitute products developed in other countries with regard to the physical properties, including viscosity, viscoelasticity, and surface tension, as well as the drip bloodstain patterns depending on the surface and coordinate characteristics of drip stains impact angle. The blood substitute developed in the present study is more practical, because the materials that are used in its preparation are readily available in the market and do not include chemicals that are harmful to the human body, and the blood substitute has luminol reaction functionality and pattern transfer bloodstain (bloodstain fingerprint, bloodstain footprint, etc.) dyeing functionality.
A Fuel-Saving and Pollution-Reducing Dynamic Taxi-Sharing Protocol in VANETs (2010)

Traffic congestion is a serious problem in urban areas of many countries due to the increasing amount of vehicles on surface streets and accompanies fuel-wasting and air-pollution. This problem can be alleviated by adopting a ride-sharing service. The main idea of ride-sharing service is to collect travelers whose travel destinations are nearby into one vehicle. In doing so, we can reduce the amount of vehicles on surface streets and meantime save fuel. In this paper, we focus on the taxi-sharing service and propose a dynamic taxi-sharing system based on Intelligent Transportation Systems (ITS) technology. In the proposed system, we can immediately serve each irregular ride-sharing request and find a fuel-saving taxi for it. The simulation results show that our solution can exactly select a fuel-saving taxi for each ride-sharing request and outperform in responding time, the number of compared taxis, and fuel-saving while comparing with existing solutions.
Method for preparing flexible self-supported electrodes (Procédé de préparation d'électrodes flexibles auto-supportées) (2012)

The present invention relates to a method of preparing flexible self-supported electrodes according to a method implementing refined cellulose fibres as a binder. It also concerns the negative or positive flexible self-supported electrode obtained according to such a method and a Li-ion battery in which at least one electrode is a flexible self-supported electrode. La présente invention concerne un procédé de préparation d'électrodes flexibles autosupportées selon un procédé mettant en œuvre des fibres de cellulose raffinées en tant que liant. Elle concerne également l'électrode flexible autosupportée négative ou positive obtenue selon un tel procédé et une batterie Li-ion dans laquelle au moins une électrode est une électrode flexible autosupportée.
Design and Immunogenicity of a Novel Synthetic Antigen Based on the Ligand Domain of the Plasmodium vivax Duffy Binding Protein (2011)

The Duffy binding protein is considered a leading vaccine candidate against asexual blood-stage Plasmodium vivax. The interaction of P. vivax merozoites with human reticulocytes through Duffy binding protein (DBP) and its cognate receptor is vital for parasite infection. The ligand domain of DBP (DBPII) is polymorphic, showing a diversity characteristic of selective immune pressure that tends to compromise vaccine efficacy associated with strain-specific immunity. A previous study resolved that a polymorphic region of DBPII was a dominant B-cell epitope target of human inhibitory anti-DBP antibodies, which we refer to as the DEK epitope for the amino acids in the SalI allele. We hypothesized that the polymorphic residues, which are not functionally important for erythrocyte binding but flank the receptor binding motif of DBPII, comprise variant epitopes that tend to divert the immune response away from more conserved epitopes. In this study, we designed, expressed, and evaluated the immunogenicity of a novel artificial DBPII allele, termed DEKnull, having nonpolar amino acids in the naturally occurring polymorphic charged residues of the DEK epitope. The DEKnull antigen retained erythrocyte-binding activity and elicited antibodies to shared epitopes of SalI DBPII from which it was derived. Our results confirmed that removal of the dominant variant epitope in the DEKnull vaccine lowered immunogenicity of DBPII, but inhibitory anti-DBPII antibodies were elicited against shared neutralizing epitopes on SalI. Focusing immune responses toward more conserved DBP epitopes may avoid development of a strain-specific immunity and enhance functional inhibition against broader range of DBPII variants.
Preclinical evaluation of a protracted GLP-1/glucagon receptor co-agonist: Translational difficulties and pitfalls (2022)

During recent years combining GLP-1 and glucagon receptor agonism with the purpose of achieving superior weight loss and metabolic control compared to GLP-1 alone has received much attention. The superior efficacy has been shown by several in preclinical models but has been difficult to reproduce in humans. In this paper, we present the pre-clinical evaluation of NN1177, a long-acting GLP-1/glucagon receptor co-agonist previously tested in clinical trials. To further investigate the contribution from the respective receptors, two other co-agonists (NN1151, NN1359) with different GLP-1-to-glucagon receptor ratios were evaluated in parallel. In the process of characterizing NN1177, species differences and pitfalls in traditional pre-clinical evaluation methods were identified, highlighting the translational challenges in predicting the optimal receptor balance in humans. In diet-induced obese (DIO) mice, NN1177 induced a dose-dependent body weight loss, primarily due to loss of fat mass, and improvement in glucose tolerance. In DIO rats, NN1177 induced a comparable total body weight reduction, which was in contrast mainly caused by loss of lean mass, and glucose tolerance was impaired. Furthermore, despite long half-lives of the three co-agonists, glucose control during steady state was seen to depend on compound exposure at time of evaluation. When evaluated at higher compound exposure, glucose tolerance was similarly improved for all three co-agonists, independent of receptor balance. However, at lower compound exposure, glucose tolerance was gradually impaired with higher glucagon receptor preference. In addition, glucose tolerance was found to depend on study duration where the effect of glucagon on glucose control became more evident with time. To conclude, the pharmacodynamic effects at a given GLP-1-to-glucagon ratio differs between species, depends on compound exposure and study length, complicating the identification of an optimally balanced clinical candidate. The present findings could partly explain the low number of clinical successes for this dual agonism.
Control of PWM Voltage Inverters in the Pulse Dropping Region (1996)

This article explores in detail the operation of PWM inverters in the pulse dropping or overmodulation region. A discussion of the improvement obtained from the compensated modulation technique (CMT) method when compared to the previous approximate approach demonstrates an improvement in accuracy. A review of space vector overmodulation techniques reveals the similarities and differences with sine wave overmodulation. Finally, simulation and experimental results demonstrate the CMT's accuracy and controlled transition throughout the operating regions of V/Hz and current regulated PWM inverters.
<i>Mycobacterium tuberculosis</i> produces pili during human infection (2007)

Mycobacterium tuberculosis is responsible for nearly 3 million human deaths worldwide every year. Understanding the mechanisms and bacterial factors responsible for the ability of M. tuberculosis to cause disease in humans is critical for the development of improved treatment strategies. Many bacterial pathogens use pili as adherence factors to colonize the host. We discovered that M. tuberculosis produces fine (2- to 3-nm-wide), aggregative, flexible pili that are recognized by IgG antibodies contained in sera obtained from patients with active tuberculosis, indicating that the bacilli produce pili or pili-associated antigen during human infection. Purified M. tuberculosis pili (MTP) are composed of low-molecular-weight protein subunits encoded by the predicted M. tuberculosis H37Rv ORF, designated Rv3312A. MTP bind to the extracellular matrix protein laminin in vitro, suggesting that MTP possess adhesive properties. Isogenic mtp mutants lost the ability to produce Mtp in vitro and demonstrated decreased laminin-binding capabilities. MTP shares morphological, biochemical, and functional properties attributed to bacterial pili, especially with curli amyloid fibers. Thus, we propose that MTP are previously unidentified host-colonization factors of M. tuberculosis.
Tetravalent platinum complexes with ammine/amine carrier ligand configuration: circumvention of platinum resistance in vivo. (1994)

A platinum(II) and three platinum(IV) ammine/cycloalkylamine homologous series, the latter possessing either chloro, acetato or hydroxo axial ligands, were evaluated for efficacies in mice bearing tumor cells sensitive (leukemia L.1210/0 and reticulosarcoma M5076) or resistant to cisplatin (L1210/DDP) and tetraplatin (L1210/DACH). Within each series, which contained four homologs, potency increased (optimal dose decreased) as alicyclic ring size increased incrementally from cyclopropane to cyclohexane. All analogs were active at maximally tolerated doses against L1210/0 (%T/C = 125-426), with good associated therapeutic ratios of 2 to > 8 that, like the therapeutic index, provided indications of the drug's safety margin. Most complexes had activities that were similar to cisplatin (%T/C = 239) and tetraplatin (%T/C = 310). Antitumor activities were seen for all four platinum(II) complexes against L1210/DDP cells (%T/C = 133-167). In the three platinum(IV) series, on the other hand, only cyclopentane (C5) and cyclohexane (C6) analogs met or exceeded the minimum criterion for activity. These activities were similar to that seen with the positive control agent tetraplatin (%T/C = 133), but higher than that of cisplatin (%T/C = 94). Long-term survivors, which were frequently observed with these complexes in the L1210/0 model, were also seen in the L1210/DDP model, but to a lesser extent. Against L1210/DACH cells, which were sensitive to cisplatin (%T/C = 155), but resistant to tetraplatin (%T/C = 113), the C5 and C6 congeners in the platinum(IV) series were effective with %T/C in the range 148-189, while corresponding members in the platinum(II) series were only marginally active. In the solid M5076 model, complexes C5 in platinum(II) and in the acetato- and hydroxoplatinum(IV) series, and C6 from the hydroxo-platinum(IV) series, were as effective or more effective than cisplatin, which itself gave a tumor growth delay of 27.5 days. In summary, the results indicate that alicyclic ring size and, in the platinum(IV) series, axial ligand, are important modulators of efficacies of ammine/cycloalkylamine platinum congeners in both sensitive and platinum-resistant models. However, the cyclopentylamine or cyclohexylamine carrier ligand with acetato or hydroxo axial ligands in the platinum(IV) configuration are optimal combinations for circumventing both cisplatin and tetraplatin resistances.
A synthetic <i>cryIC</i> gene, encoding a <i>Bacillus thuringiensis</i> δ-endotoxin, confers <i>Spodoptera</i> resistance in alfalfa and tobacco (1996)

Spodoptera species, representing widespread polyphagous insect pests, are resistant to Bacillus thuringiensis delta-endotoxins used thus far as insecticides in transgenic plants. Here we describe the chemical synthesis of a cryIC gene by a novel template directed ligation-PCR method. This simple and economical method to construct large synthetic genes can be used when routine resynthesis of genes is required. Chemically phosphorylated adjacent oligonucleotides of the gene to be synthesized are assembled and ligated on a single-stranded, partially homologous template derived from a wild-type gene (cryIC in our case) by a thermostable pfu DNA ligase using repeated cycles of melting, annealing, and ligation. The resulting synthetic DNA strands are selectively amplified by PCR with short specific flanking primers that are complementary only to the new synthetic DNA. Optimized expression of the synthetic cryIC gene in alfalfa and tobacco results in the production of 0.01-0.2% of total soluble proteins as CryIC toxin and provides protection against the Egyptian cotton leafworm (Spodoptera littoralis) and the beet armyworm (Spodoptera exigua). To facilitate selection and breeding of Spodoptera-resistant plants, the cryIC gene was linked to a pat gene, conferring resistance to the herbicide BASTA.
High-speed, stable and repeatable PMD emulator with tunable statistics (2004)

Using three programmable DGD elements, we experimentally demonstrate a high-speed PMD emulator with tunable statistics and good stability and repeatability. By incorporating in-line polarimeters, a repeatable lookup-table of DGD and 2/sup nd/-order PMD states can be created.