gebhart/patrepeval huggingface dataset:
Cloning and Nucleotide Sequence of theβ-d-Glucosidase Gene fromBifidobacterium breveclb, and Expression ofβ-d-Glucosidase Activity inEscherichia coli (1996)

Genomic DNA encoding a beta-D-glucosidase (EC 3.2.1.21), which has beta-D-fucosidase activity, was cloned from Bifidobacterium breve clb. We sequenced a 1.9-kbp cloned DNA fragment that contained a single open reading frame encoding 460 amino acids with a calculated molecular mass of 51,513 Da. A putative ribosome binding site was found 5 bp upstream of the initiation codon. The amino acid sequence of this beta-D-glucosidase from Bifidobacterium breve clb had 46% identity with that of beta-glucosidase from Microbispore bispore. The enzyme of Bifidobacterium breve clb was expressed in Escherichia coli. A cell-free extract prepared from the recombinant strain showed 80 to 90-fold more beta-D-glucosidase activity than that from Bifidobacterium breve clb. The recombinant enzyme was purified to homogeneity from cell-free extracts of the recombinant strain using 4 column chromatographies. The recovery of enzyme from the recombinant strain was about 138-fold-higher than that of Bifidobacterium breve clb. The enzymatic properties were similar to those of Bifidobacterium breve clb. For application of this recombinant enzyme, we attempted to synthesize a disaccharide that seemed to be specifically assimilated by Bifidobacteria using the condensation activity of the enzyme.
Search-based query suggestion (2008)

In this paper, we proposed a unified strategy to combine query log and search results for query suggestion. In this way, we leverage both the users' search intentions for popular queries and the power of search engines for unpopular queries. The suggested queries are also ranked according to their relevance and qualities; and each suggestion is described with a rich snippet including a photo and related description.
A novel computational approach for genome-wide prediction of small RNAs in bacteria (2014)

Abstract Small regulatory RNAs (sRNAs) are the most abundant post-transcriptional regulators in bacteria. They serve ubiquitous roles that control nearly every aspects of bacterial physiology. Identification of important features from sRNAs sequences will guide the computational prediction of new sRNA sequences for a better understanding of the pervasive sRNA-mediated regulation in bacteria. In this study, we have performed systematic analyses of many sequence and structural features that are possibly related to sRNA properties and identified a subset of significant features that effectively discriminate sRNAs sequences from random sequences. we then used a neural network model that integrated these subfeatures on unlabeled testing datasets, and it had achieved a 92.2% recall and 89.8% specificity. Finally, we applied this prediction model for genome-wide identification of sRNAs-encoded genes using a sliding-window approach. We recovered multiple known sRNAs and hundreds of predicted new sRNAs. These candidate novel sRNAs deserve extensive study to better understand the sRNA-mediated regulatory network in bacteria.
Modeling of the Growth Rate during Top Seeded Solution Growth of SiC Using Pure Silicon as a Solvent (2011)

To assist the development of high quality single crystalline SiC ingot using the top seeded solution growth process, we have implemented a numerical model with the aim of giving quantitative outcomes in addition to qualitative information. The major role of the convection patterns on the carbon flux is demonstrated. We also evidence that the carbon solubility in liquid silicon is the actual limiting parameter of the SiC solution growth process. A good agreement between computed and experimental growth rates is obtained as a function of temperature, making simulation an adapted predictive tool for the further development of the process.
<title>Analysis Of Spectral Anomalies In Rapid-Scanning Fourier Transform Time-Resolved Infrared Spectrometry (TRS)</title> (1981)

It has been shown that sample concentration fluctuations in rapid-scanning time-resolved experiments result in anomalies that can easily be misinterpreted as spectral features of transient species.<sup>1</sup> It is also known that these spectral features result from band displacement rather than aliasing. A quantitative explanation of the phenomenon will be presented which will discuss the origin and frequency of these spectral anomalies.
De Novo Design of Potent, Insecticidal Synthetic Mimics of the Spinosyn Macrolide Natural Products (2018)

New insect pest control agents are needed to meet the demands to feed an expanding global population, to address the desire for more environmentally-friendly insecticide tools, and to fill the loss of control options in some crop-pest complexes due to development of insecticide resistance. The spinosyns are a highly effective class of naturally occurring, fermentation derived insecticides, possessing a very favorable environmental profile. Chemically, the spinosyns are composed of a large complex macrolide tetracycle coupled to two sugars. As a means to further exploit this novel class of natural product-based insecticides, molecular modeling studies coupled with bioactivity-directed chemical modifications were used to define a less complex, synthetically accessible replacement for the spinosyn tetracycle. These studies lead to the discovery of highly insecticidal analogs, possessing a simple tri-aryl ring system as a replacement for the complex macrolide tetracycle.
Unexplained in-vitro fertilization failure: implication of acrosomes with a small reacting region, as revealed by a monoclonal antibody (1992)

To determine the acrosomal characteristics related to in-vitro fertilization (IVF) outcome, spermatozoa from 50 men whose wives had resorted to IVF have been studied by indirect immunofluorescence microscopy with anti-human pro-acrosin monoclonal antibody 4D4 (mAb 4D4), prior to and after incubation in a capacitating medium. The antibody labelled only the acrosomal principal region (APR), revealing its shape (i.e. normal, small or amorphous) and its status (i.e. unreacted, partially or totally reacted). The IVF outcome distinguished: (i) spermatozoa which were able to fertilize at least one oocyte in vitro (group I; n = 25) and (ii) spermatozoa which failed to fertilize any oocyte in vitro (group II; n = 25). The semen characteristics of the two sperm groups, including the acrosome morphology, were similar according to conventional analysis. The mAb 4D4 detected in both the whole and the swim-up sperm cell fractions a lower percentage of normal APR in group II (< 50% for 10 patients in group II versus one patient from group I), which was related to a higher percentage of small APR. Moreover, after 21 h incubation, group II had a lower acrosomal loss index. The spermatozoa of five patients of this infertile group II did not undergo acrosomal modification whereas spermatozoa of all group I patients underwent the acrosomal reaction. The data showed that the relationship between acrosomal anomalies and IVF failure is mainly due to an increased incidence of acrosomes with a reduced size of the region involved in the acrosome reaction. Immunodiagnosis of this acrosomal region by means of mAb 4D4 is informative for IVF outcome.
Towards a piezoelectric vibration-poweredmicrogenerator (2001)

As MEMS and Smart Material technologies advance, embedded and remote applications are becoming more widespread. Powering these systems can be a significant engineering problem, as traditional solutions such as batteries are not always appropriate. An inertial generator is developed that uses thick-film piezoelectric technologies to produce electrical power from vibrations in the environment of the device. The device validates the concept, and produces an output of 3 µW. Predictions show that orders of magnitude increase in power output are possible.
Secure Delta-Publishing of XML Content (2008)

Many content distribution applications are characterized by frequent, incremental updates. Efficiency is not the only requirement in that security is also crucial for a large spectrum of applications. The goal of this work is to develop an approach for efficient and scalable dissemination of XML documents while assuring confidentiality, integrity and completeness without requiring the third-party publishers to be trusted. The key element of our approach to reduce the bandwidth requirements is to use delta messaging. Our approach takes every possible measure to minimize indirect information leakage by making the rest of the structure of XML documents to which clients do not have access oblivious. The experimental results show that our scheme is superior to conventional techniques of securing XML documents when the percentage of updates with respect to original documents is low.
The Membrane-Bound Chemokine CXCL16 Expressed on Follicle-Associated Epithelium and M Cells Mediates Lympho-Epithelial Interaction in GALT (2006)

The recently identified CXCL16 has dual functions as a transmembrane adhesion molecule and a soluble chemokine. In this study we found that CXCL16 mRNA and protein were expressed constitutively on the follicle-associated epithelium covering Peyer's patches (PPs), isolated lymphoid follicles, and cecal patches, but minimally on the villous epithelium in the murine gastrointestinal tract. The CXCL16 receptor CXCR6/Bonzo was constitutively expressed on subpopulations of CD4+ and CD8+ T cells isolated from PPs. The expression of CXCR6/Bonzo on the PP T cells was up-regulated after stimulation with anti-CD3 and anti-CD28 mAbs. The activated PP T cells showed chemotactic migration in response to the soluble N-terminal chemokine domain of CXCL16. Furthermore, the activated PP T cells selectively adhered to cells expressing murine CXCL16. To determine the physiological role of CXCL16 in GALT, we first carefully analyzed T cell distribution in PPs. T cells localized not only in the interfollicular region but also at a lesser frequency in the subepithelial dome (SED) and in the germinal center of lymphoid follicles. Consistently, the majority of the adoptive transferred activated T cells migrated into the SED and the interfollicular region. However, the neutralization of CXCL16 specifically reduced the migration of the adoptive, transferred, activated T cells into the SED of PPs. These data suggest that CXCL16 expressed on the follicle-associated epithelium plays an important role in the recruitment and retention of activated T cells in the SED and should, at least partially, be responsible for lymphocyte compartmentalization in GALT.
Ultra-Thin Sensor Systems Integrating Silicon Chips with On-Foil Passive and Active Components (2018)

Hybrid System-in-Foil exploits the complementary benefits of integrating embedded silicon chips with on-foil passive and active electronic components. In this work, the design, fabrication and characterization of three on-foil components, namely a humidity sensor, near field communication antenna and organic thin-film transistors, are investigated.
Hybrid Photovoltaic-Thermoelectric Generator Powered Synchronous Reluctance Motor for Pumping Applications (2019)

The interest in photovoltaic (PV) pumping systems has increased, particularly in rural areas where there is no grid supply available. However, both the performance and the cost of the whole system are still an obstacle for a wide spread of this technology. In this article, a hybrid photovoltaic (PV)-thermoelectric generator (TEG) is investigated for pumping applications. The electric drivetrain comprises a synchronous reluctance motor and an inverter. A control strategy for the drivetrain is employed to execute two main tasks: 1) driving the motor properly to achieve a maximum torque per Ampère condition and 2) maximizing the output power of the PV system at different weather conditions. This means that the conventional DC-DC converter is not used in the proposed system. Moreover, batteries, which are characterized by short life expectancy and high replacement cost, are also not used. It is found that the motor output power and the pump flow rate are increased by about 9.5% and 12% respectively when the hybrid PV-TEG array is used compared to only using PV array. Accordingly, the performance, cost and complexity of the system are improved. Measurements on an experimental laboratory setup are constructed to validate the theoretical results of this work.
Grafted noradrenergic neurons suppress seizure development in kindling-induced epilepsy. (1987)

Norepinephrine-rich cell suspensions, prepared from the locus coeruleus region of rat fetuses, were grafted bilaterally into the hippocampus of rats made hypersensitive to hippocampal kindling by a neurotoxic lesion of the central catecholamine system. The animals with grafts showed a marked suppression of the onset and progression of kindling-induced epilepsy, and this effect was correlated with the degree of graft-derived noradrenergic innervation of the host hippocampal formation. We conclude that grafted neurons can modulate the excitability of epileptic brain regions.
Upmixing and Downmixing Two-channel Stereo Audio for Consumer Electronics (2007)

In this comprehensive study, algorithms for upmixing, downmixing, and joint up/downmixing are examined and compared. Five upmixing algorithms based on signal decorrelation and reverberation are employed to convert two-channel stereo signals to jive-channel signals. For downmixing, methods ranging from mixing with simple gain adjustment to more sophisticated head related transfer function (HRTF) filtering and crosstalk cancellation system (CCS) are utilized to downmix the center channel and the surround channels into the available two frontal loudspeakers. For situations where only two-channel content and loudspeakers are available, a number of up/down mixing schemes are used to simulate a virtual surround environment. Emphasis of comparison is placed on two consumer electronic products: a 5.1 home theater system and a dual-loudspeaker MP3 handset. The effect of loudspeaker spacing on rendering performance is examined. Listening tests are conducted to compare the processing methods in terms of three levels of subjective indices. The results are processed by using the Multi-Analysis Of VAriance (MANOVA) to justify the statistical significance, followed by a multiple regression analysis to correlate the auditory preference with various timbral and spatial attributes.
Role of Fractional Exhaled Nitric Oxide in Predicting Development of Allergic Rhinits in Children with Bronchial Asthma (2012)

Purpose Fractional exhaled nitric oxide (FeNO) has been widely reported as a marker for airway inflammationin, and FeNO have shown increased levels in the non-asthmatic patients with other atopy related diseases, such as rhinitis. Bronchial hyperresponsiveness is a characteristic feature of asthma, which is often associated with airway inflammationin allergic rhinitis. It has been suggested that asthma is associated with rhinitis, which is a link between the upper and the lower airways, beyond allergy associated inflammation in the respiratory tract. To evaluate the usefulness of FeNO measurement, as a risk factor of allergic and nonallergic rhinitis in children with asthma. Methods Fifty-three children included in this study were diagnosed as asthma from April through August 2005 in the Department of Pediatrics, Kyung Hee University School of Medicine. They conducted FeNO monitoring, total eosinophil count and serum immunoglobulin E at that time. We put a question to the participants' parents about the doctor diagnosed participants' manifestations (sneezing, nasal congestion, nasal itching, rhinorrhea), via a telephone interview survey or at the outpatient department in July 2011. Statistical analyses were performed using IBM SPSS ver. 18.0. Results The overall prevalence of rhinitis, among the 53 children, was 67.9%. The means of FeNO differed significantly between the two groups, being higher in children who have rhinitis symptoms and lower in asymptomatic children. (mean±SD, 29.4±24.6 to 13.6±11.8 parts per billion; P=0.003; T-test) Conclusion To take the measurement of FeNO value in asthmatics may be a tool in the predictor of the causes of rhinitis.
Antisense oligonucleotide therapy in a humanized mouse model of MECP2 duplication syndrome (2021)

Many intellectual disability disorders are due to copy number variations, and, to date, there have been no treatment options tested for this class of diseases. <i>MECP2</i> duplication syndrome (MDS) is one of the most common genomic rearrangements in males and results from duplications spanning the methyl-CpG binding protein 2 (<i>MECP2</i>) gene locus. We previously showed that antisense oligonucleotide (ASO) therapy can reduce MeCP2 protein amount in an MDS mouse model and reverse its disease features. This MDS mouse model, however, carried one transgenic human allele and one mouse allele, with the latter being protected from human-specific <i>MECP2</i>-ASO targeting. Because MeCP2 is a dosage-sensitive protein, the ASO must be titrated such that the amount of MeCP2 is not reduced too far, which would cause Rett syndrome. Therefore, we generated an "<i>MECP2</i> humanized" MDS model that carries two human <i>MECP2</i> alleles and no mouse endogenous allele. Intracerebroventricular injection of the <i>MECP2</i>-ASO efficiently down-regulated MeCP2 expression throughout the brain in these mice. Moreover, <i>MECP2</i>-ASO mitigated several behavioral deficits and restored expression of selected MeCP2-regulated genes in a dose-dependent manner without any toxicity. Central nervous system administration of <i>MECP2</i>-ASO is therefore well tolerated and beneficial in this mouse model and provides a translatable approach that could be feasible for treating MDS.
Synthesis and antibacterial activity of silver nanoparticles with different sizes G. A. Martinez-Castanon Æ N. Nino-Martinez Æ F. Martinez-Gutierrez Æ J. R. Martinez-Mendoza Æ (2008)

Silver nanoparticles with different sizes (7, 29, and 89 nm mean values) were synthesized using gallic acid in an aqueous chemical reduction method. The nanoparticles were characterized using transmis- sion electron microscopy (TEM), dynamic light scattering (DLS), X-ray diffraction (XRD), and ultravi- olet-visible (UV-Vis) absorption spectroscopy; the antibacterial activity was assessed using the standard microdilution method, determining the minimum inhib- itory concentration (MIC) according to the National Committee for Clinical Laboratory Standards. From the microscopies studies (TEM) we observed that silver nanoparticles have spherical (7 and 29 nm) and pseudospherical shape (89 nm) with a narrow size distribution. The sizes of the silver nanoparticles were controlled by varying some experimental conditions. It was found that the antibacterial activity of the nanopar- ticles varies when their size diminishes.
Impact of previous depression on the risk of suicide among prostate cancer patients (2023)

The absolute risk of suicide is low following a prostate cancer diagnosis. Time since diagnosis and a history of depression was associated with the highest risk of suicide. Healthcare professionals should be aware of an increased risk of suicide among men with previous depression, especially in the immediate aftermath of the diagnosis.
Hypoxia-Inducible Factor-Dependent Expression of Angiopoietin-Like 4 by Conjunctival Epithelial Cells Promotes the Angiogenic Phenotype of Pterygia. (2017)

Our results support the development of therapies targeting both ANGPTL4 and VEGF for the treatment of patients with pterygia.
Variational Discriminator Bottleneck: Improving Imitation Learning, Inverse RL, and GANs by Constraining Information Flow (2018)

Adversarial learning methods have been proposed for a wide range of applications, but the training of adversarial models can be notoriously unstable. Effectively balancing the performance of the generator and discriminator is critical, since a discriminator that achieves very high accuracy will produce relatively uninformative gradients. In this work, we propose a simple and general technique to constrain information flow in the discriminator by means of an information bottleneck. By enforcing a constraint on the mutual information between the observations and the discriminator's internal representation, we can effectively modulate the discriminator's accuracy and maintain useful and informative gradients. We demonstrate that our proposed variational discriminator bottleneck (VDB) leads to significant improvements across three distinct application areas for adversarial learning algorithms. Our primary evaluation studies the applicability of the VDB to imitation learning of dynamic continuous control skills, such as running. We show that our method can learn such skills directly from \emph{raw} video demonstrations, substantially outperforming prior adversarial imitation learning methods. The VDB can also be combined with adversarial inverse reinforcement learning to learn parsimonious reward functions that can be transferred and re-optimized in new settings. Finally, we demonstrate that VDB can train GANs more effectively for image generation, improving upon a number of prior stabilization methods.
STUDIES ON THE PATTERN OF CIRCULATING STEROIDS IN THE NORMAL MENSTRUAL CYCLE (1977)

Circadian variations of the plasma levels of dehydroepiandrosterone, 17-hydroxypregnenolone, pregnenolone and testosterone were investigated by radioimmunoassay in 10 normally menstruating women during the periovulatory period. In seven of the subjects it was also possible to estimate androstenedione and dihydrotestosterone levels. Blood was withdrawn continuously over a period of 48 h at a rate of 4 ml/h by means of a non-thrombogenic pump. The circadian rhythm was studied during 13 3-hour sampling periods (36 h) which were identical in all subjects. Dehydroepiandrosterone, 17-hydroxypregnenolone and pregnenolone showed a marked circadian rhythm with highest mean levels in the morning between 06.00 and 0.900 h and lowest mean levels during the night between 21.00 and 24.00 h. The peak levels of individual subjects coincided completely with the highest mean levels in the case of dehydroepiandrosterone, in 9 out of 10 cases with regard to 17-hydroxypregnenolone and in 8 of 10 cases as far as pregnenolone levels were concerned. The lowest individual levels were more dispersed around the means than were the individual peaks. The difference between the highest (morning hours: 06.00-09.00) and lowest (evening hours: 21.00-24.00) geometeric mean values was 404% for 17-hydroxypregnenolone, 163% for dehydroepiandrosterone and 71% for pregnenolone. The mean testosterone levels also exhibited an elevation between 06.00 and 09.00 h which was significant (P less than 0.05). However, the individual peak values were scattered from 21.00 h of the first day to 18.00 h of the second day. The mean concentrations of androstendine showed a significant increase between 06.00 and 18.00 h. The individual peaks were widely dispersed. Hence a uniform circadian rhythm correlated to the levels of the 5-steroids mentioned above could not be demonstrated in the case of testosterone and androstenedione. An analysis of variance indicated no significant differences between sampling periods as far as dihydrotestosterone levels were concerned. The extent and regularity of the circadian variation in the plasma levels of the 5-steroids studied makes it mandatory to standardize very carefully the exact time of blood withdrawal in any longitudinal study. In view of the sharp changes in the plasma levels during the morning hours, it is suggested that sampling during the afternoon period may provide more constant values.