gebhart/patrepeval huggingface dataset:
Web-based performance manager system for a Web server (2002)

In order to monitor web service and measure a web server performance, we develop the performance manager system that manages the traffic of a web server using JAVA. Recently, because of increasing web traffic by web growth, the need of traffic management on the web is more demanded. Therefore, the traffic management of web service and the effective management of a web server performance are needed. For this, we have designed interfaces with which users can manage Collection-Request, Analysis-Request, Realtime-Monitoring, Comparison-Analysis with implementing client for performance manager system on network, and implemented the server system that can analyze these requests. Also we have set new performance indicators according to each interface using an existing MIB. With this, we have defined a new message format for communication between the web client and the server system.
Initiator RNA synthesis upon ribonucleotide depletion. Evidence for base substitutions. (1980)

Nearest neighbor frequencies in initiator RNA (iRNA) of a human lymphocyte cell line have been measured in isolated nuclei under conditions where ribonucleotides have been omitted from the incubation. Deoxynucleotides are incorporated in iRNA to a limited extent for the omitted cognate ribonucleotide. In addition, upon omission of a ribonucleotide, changes in the nearest neighbor frequencies also occur indicating base substitution of another ribonucleotide. The base substitutions that have been observed are the incorporation of rA for rG or rU. Substitution for rA has not been observed. When rC is omitted, a change in all nearest neighbor frequencies occurs, suggesting possibly an unusual role for rC. The substitutions demonstrate the unique features of iRNA synthesis and point out possible alterations in iRNA that may occur in vivo when nucleotide pools are altered.
A system for automatic and interactive detection of static objects (2011)

Designing static object detection systems that are able to incorporate user interaction conveys a great benefit in many surveillance applications, since some correctly detected static objects can be considered to have no interest by a human operator. Interactive systems allow the user to include these decisions into the system, making automated surveillance systems more attractive and comfortable to use. In this paper we present a system for the detection of static objects that, based on the detection of a dual background model, classifies pixels by means of a finite-state machine. The state machine provides the meaning for the interpretation of the results obtained from background subtraction and it can be optionally used to integrate user input. The system can thus be used both in an automatic and an interactive manner without requiring any expert knowledge from the user. We successfully validated the system with several public datasets.
PHC-014 Exploratory Analysis of 1,936 SNPs in 225 ADME Genes For Association with Busulfan Clearance in Adult Hematopoietic Stem Cell Recipients (2013)

<h3>Background</h3> Busulfan is used in preparative regimens prior to stem cell transplantation (SCT). There is significant inter-patient variability in busulfan pharmacokinetics (PK) and outcome is related to exposure. To date, only polymorphisms in genes encoding for glutathione-S-transferases have been studied; they could only explain a small portion of the variability in PK. <h3>Purpose</h3> To investigate the role of other genetic variants on busulfan clearance by interrogating 1,936 variants in 225 genes that are involved in drug absorption, distribution, metabolism and excretion (ADME). <h3>Materials and Methods</h3> 62 adult patients who received busulfan were genotyped using the Drug Metabolizing Enzymes and Transporters (DMET) array. Busulfan clearance was estimated with a limited sampling (t = 2.5, 4 hrs) PK model. Individual SNPs were associated with busulfan clearance. Top SNPs and haplotypes were replicated in an independent cohort (n = 78). <h3>Results</h3> In the discovery cohort 7 variants (3 SNPs and 4 haplotypes) explained 64% (adjusted R2) of variance in busulfan clearance (p &lt; 0.001). These genetic variants, located in GSTA5, CYP2C19, CYP39A1 (2 haplotypes), ABCB4, SLC22A4 and SLC7A8, were replicated in the second cohort. One haplotype in GSTA5 (rs4715354 and rs7746993) remained statistically significant (P = 0.025) for correlation with busulfan clearance. <h3>Conclusions</h3> This is the first study using an exploratory pharmacogenetic approach in 225 genes involved in ADME to explain the inter-individual variability in busulfan clearance. The GSTA5 haplotype was significantly correlated with busulfan clearance, both in the discovery and replication cohort. No additional genetic markers involved in drug metabolism and transport appear to be associated with busulfan clearance. No conflict of interest.
Production of interleukin‐13 by human dendritic cells after stimulation with protein allergens is a key factor for induction of T helper 2 cytokines and is associated with activation of signal transducer and activator of transcription‐6 (2003)

Dendritic cells (DC) are able to induce not only T helper 1 (Th1) but also Th2 immune responses after stimulation with allergens. While DC-derived interleukin (IL)-12 and IL-18 are the key factors for the induction of Th1 cells, early signals being involved in Th2 differentiation are less well characterized so far. To analyse such early signals we used an antigen-specific setting with CD4+ T cells from atopic donors stimulated in the presence of autologous mature DC, which were pulsed with different allergen doses. The addition of increasing amounts of allergen during DC maturation with tumour necrosis factor-alpha, IL-1beta and prostaglandin E2 resulted in enhanced secretion of IL-6 and IL-12 by DC followed by increased production of Th1 (interferon-gamma; IFN-gamma) as well as Th2 (IL-4, IL-5) cytokines by CD4+ T cells. The coculture of allergen-treated DC and CD4+ T cells also led to a dose-dependent expression of active signal transducer and activator of transcription-6 (STAT6), which was visible already after 1 hr. Additionally, rapid phosphorylation of STAT6 was seen in immature DC after stimulation with allergens but not with lipopolysaccharide or human serum albumin. STAT6 phosphorylation was associated with the production of IL-13 by DC. The addition of neutralizing anti-IL-13 antibodies during maturation of DC inhibited STAT6 phosphorylation in CD4+ T cells as well as the production of IL-4, and to a lesser extent of IL-5, while IFN-gamma production was not affected. Addition of exogenous IL-13 enhanced mainly the secretion of IL-4. Taken together, DC-derived IL-13, which is released after exposure to allergens appears to be one of the critical factors for DC to acquire the capability to induce Th2 cytokine production.
Molecular Recognition of RNA by Neomycin and a Restricted Neomycin Derivative (2005)

The preorganized presentation of functional groups in the antibiotic neomycin (green) is exploited to obtain a conformationally restricted aminoglycoside (yellow) by regioselective intramolecular cyclization. X-ray crystallography data show how the natural product and the derivative recognize the RNA target motif that is the binding site of aminoglycoside antibiotics.
LeMoNADe: Learned Motif and Neuronal Assembly Detection in calcium imaging videos (2018)

Neuronal assemblies, loosely defined as subsets of neurons with reoccurring spatio-temporally coordinated activation patterns, or "motifs", are thought to be building blocks of neural representations and information processing. We here propose LeMoNADe, a new exploratory data analysis method that facilitates hunting for motifs in calcium imaging videos, the dominant microscopic functional imaging modality in neurophysiology. Our nonparametric method extracts motifs directly from videos, bypassing the difficult intermediate step of spike extraction. Our technique augments variational autoencoders with a discrete stochastic node, and we show in detail how a differentiable reparametrization and relaxation can be used. An evaluation on simulated data, with available ground truth, reveals excellent quantitative performance. In real video data acquired from brain slices, with no ground truth available, LeMoNADe uncovers nontrivial candidate motifs that can help generate hypotheses for more focused biological investigations.
A new statistical model for Markovian classification of urban areas in high-resolution SAR images (2004)

We propose a classification method suitable for high-resolution synthetic aperture radar (SAR) images over urban areas. When processing SAR images, there is a strong need for statistical models of scattering to take into account multiplicative noise and high dynamics. For instance, the classification process needs to be based on the use of statistics. Our main contribution is the choice of an accurate model for high-resolution SAR images over urban areas and its use in a Markovian classification algorithm. Clutter in SAR images becomes non-Gaussian when the resolution is high or when the area is man-made. Many models have been proposed to fit with non-Gaussian scattering statistics (K, Weibull, Log-normal, Nakagami-Rice, etc.), but none of them is flexible enough to model all kinds of surfaces in our context. As a consequence, we use a mathematical model that relies on the Fisher distribution and the log-moment estimation and which is relevant for one-look data. This estimation method is based on the second-kind statistics, which are detailed in the paper. We also prove its accuracy for urban areas at high resolution. The quality of the classification that is obtained by mixing this model and a Markovian segmentation is high and enables us to distinguish between ground, buildings, and vegetation.
Tailoring Plate-Like Grained ZrB<sub>2</sub> Ceramic via a Strong Magnetic Field Alignment Method Followed by Spark Plasma Sintering (2012)

Through strong magnetic field alignment (SMFA) method followed by spark plasma sintering (SPS), dense tailored ZrB 2 ceramic could be prepared using the plate-like grains as initial material. The measured Lotgering orientation factor f (00l) on the textured top surface (TTS) was high as 0.62 and f (hk0) on the textured side surface (TSS) was 0.65. Vickers hardness measurement showed the anisotropic mechanical property of textured sample. On the TTS, the hardness was 13.4 ± 0.9 GPa, while on the TSS the hardness was 12.0 ± 0.9 GPa.
A Transponder Aggregator with Efficient Use of Filtering Function for Transponder Noise Suppression (2022)

Colorless, directionless, and contentionless reconfigurable optical add/drop multiplexing (CDC-ROADM) provides highly flexible physical layer network configuration. Such CDC-ROADM must operate in multiple wavelength bands which are being increasingly implemented in optical transmission systems. The operation in C+L bands requires switch devices used in CDC-ROADM to also be capable of multiband operation. Recent studies on wavelength division multiplexing (WDM) systems have pointed out the impact of amplified spontaneous emission (ASE) noise generated by signals of different wavelengths, which causes OSNR degradation. Therefore, it is desirable to filter out the ASE noise from different transponders when multiplexing multiple wavelengths at the transmitter side, especially in a system with non-wavelength selective combiners such as directional couplers and multicast switches. The use of transponder aggregators with filtering functions, such as the M x N wavelength selective switch (WSS), is preferable for this filtering. However, the downside of these devices is that it is difficult to provide economical multiband support. Therefore, we propose an economical transponder aggregator configuration by allowing a certain amount of ASE superposition and reducing the number of filtering functions. In this paper, we fabricated a prototype of the proposed transponder aggregator by combining silica-based planar lightwave circuit technology and C+L band WSS, both commercially available, and verified its feasibility through transmission experiments. The novel transponder aggregator is a practical solution for a multiband CDC-ROADM system with improved OSNR performance.
Minimizing Infant Exposure to and Risks from Medications while Breastfeeding (1997)

The advantages of breastfeeding to the mother and newborn are many. Lactating mothers frequently ask about the safety of taking medications and the risk to their newborn. It is well established that all drugs are excreted into breast milk. However, most medications appear in only small amounts within the breast milk. With the availability of numerous resources on drug use while breastfeeding, a medication can be identified as contraindicated or compatible with breastfeeding. By understanding the anatomy of the breast, principles of lactation, and drug passage into breast milk, an approach to minimize the transfer of the medications in the breast milk to the newborn can be developed. The plan should usually support and encourage the mother to continue to breastfeed her infant.
Activity of cefoperazone and two beta-lactamase inhibitors, sulbactam and clavulanic acid, against Bacteroides spp. correlated with beta-lactamase production (1982)

A total of 102 isolates of Bacteroides spp. were studied for beta-lactamase production and susceptibility to cefoperazone alone or in combination with either of the beta-lactamase inhibitors sulbactam and clavulanic acid. The geometric mean minimal inhibitory concentration of cefoperazone alone was 31.5 micrograms/ml and when combined with 10 micrograms of sulbactam per ml or 2 micrograms of clavulanic acid per ml was reduced to 5.4 and 9.2 micrograms/ml, respectively. When bacterial suspensions were tested for beta-lactamase production with nitrocefin, 91 (89.2%) of these isolates produced the enzyme. The geometric mean minimal inhibitory concentrations of cefoperazone rose only slightly for isolates with low or intermediate enzyme activity but rose significantly for those with high activity. The addition of EDTA to cefoperazone significantly more frequently enhanced the activity of cefoperazone against beta-lactamase-negative as opposed to beta-lactamase-positive isolates. Furthermore, EDTA resulted in synergistic activity of the cefoperazone-sulbactam combination on beta-lactamase-positive isolates for which the combination had previously not shown a synergistic effect. This study demonstrates the relationship between beta-lactamase production and the resistance of Bacteroides spp. to cefoperazone and shows that inhibition of these enzymes can reverse this resistance.
Image Privacy Prediction Using Deep Neural Networks (2020)

Images today are increasingly shared online on social networking sites such as Facebook, Flickr, and Instagram. Image sharing occurs not only within a group of friends but also more and more outside a user’s social circles for purposes of social discovery. Despite that current social networking sites allow users to change their privacy preferences, this is often a cumbersome task for the vast majority of users on the Web, who face difficulties in assigning and managing privacy settings. When these privacy settings are used inappropriately, online image sharing can potentially lead to unwanted disclosures and privacy violations. Thus, automatically predicting images’ privacy to warn users about private or sensitive content before uploading these images on social networking sites has become a necessity in our current interconnected world. In this article, we explore learning models to automatically predict appropriate images’ privacy as private or public using carefully identified image-specific features. We study deep visual semantic features that are derived from various layers of Convolutional Neural Networks (CNNs) as well as textual features such as user tags and deep tags generated from deep CNNs. Particularly, we extract deep (visual and tag) features from four pre-trained CNN architectures for object recognition, i.e., AlexNet, GoogLeNet, VGG-16, and ResNet, and compare their performance for image privacy prediction. The results of our experiments obtained on a Flickr dataset of 32,000 images show that ResNet yeilds the best results for this task among all four networks. We also fine-tune the pre-trained CNN architectures on our privacy dataset and compare their performance with the models trained on pre-trained features. The results show that even though the overall performance obtained using the fine-tuned networks is comparable to that of pre-trained networks, the fine-tuned networks provide an improved performance for the private class. The results also show that the learning models trained on features extracted from ResNet outperform the state-of-the-art models for image privacy prediction. We further investigate the combination of user tags and deep tags derived from CNN architectures using two settings: (1) Support Vector Machines trained on the bag-of-tags features and (2) text-based CNN. We compare these models with the models trained on ResNet visual features and show that, even though the models trained on the visual features perform better than those trained on the tag features, the combination of deep visual features with image tags shows improvements in performance over the individual feature sets. We also compare our models with prior privacy prediction approaches and show that for private class, we achieve an improvement of ≈ 10% over prior CNN-based privacy prediction approaches. Our code, features, and the dataset used in experiments are available at https://github.com/ashwinitonge/deepprivate.git.
Modeling the induction machine's main inductance as a function of the supply frequency and the magnetizing and the torque building component of the stator current (2009)

According to earlier work and papers by other authors, the main flux path of an induction machine is not only saturated due to the magnetizing current, or in other words “the magnetizing inductance can be modeled as a function of torque”. In addition, at a given magnetizing current, the flux linkage decreases with rising supply frequency. These effects should be considered when using control algorithms based on the main inductance, as for example rotor flux oriented control. In the paper at hand a method is proposed to extend the induction machine's standard fundamental wave model taking regard of the changes of the main inductance in dependence of the magnetizing and the torque building component of the stator current. In addition a method to estimate the required parameters is proposed. Validation is carried out via additional measurements and FEM calculations.
A Vena Cava Filter for the Prevention of Pulmonary Embolism (1963)

Introduction Mechanistic methods for preventing fatal pulmonary infarction due to thromboembolism have challenged the imagination of surgeons since Trendelenberg first proposed pulmonary embolectomy in 1908. 30 Ligation of femoral veins, first proposed by Homans in 1934 11 has been subjected to extensive trial and study and has been found wanting. 4,13,17 Iliofemoral thrombectomy, introduced by Lawen in 1938, 16 is currently experiencing a rebirth of interest and may be effective in acute processes. 5,10 Permanent ligation of the vena cava, also first suggested by Homans 12 in 1944, has most successfully withstood the test of time and has undoubtedly saved many lives. 23 Although some surgeons 15,23 minimize its importance, many patients experience significant postligation ulceration or edema after caval ligation. 26 This has provoked other investigators to continue their search for a better method. Streuter and Paine (1951), 29 Pualwan et al (1954), 24 and Dale (1958) 3 presented
[Changes in serum levels of selenium, zinc and copper in patients on a ketogenic diet using Ketonformula]. (2013)

The decline of the serum selenium concentrations and daily enteral intakes of selenium, zinc, and copper after 6 months on Ketonformula suggested that patients on this ketogenic formula needs close monitoring as well as supplementation of these trace minerals.
ChemInform Abstract: Mn(III)‐Based Oxidative Fragmentation‐Cyclization Reactions of Unsaturated Cyclobutanols. (1994)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Origin and Evolution of a Chimeric Fusion Gene in Drosophila subobscura, D. madeirensis and D. guancheSequence data from this article have been deposited with the EMBL/GenBank Data Libraries under accession nos. AY874360, AY874361, AY874362, AY874363, AY874364, AY874365, AY874366, AY874367, AY874368, AY874369, AY874370, AY874371, AY874372, AY874373, AY874374, AY874375, AY874376, AY874377, AY874378. (2005)

An understanding of the mutational and evolutionary mechanisms underlying the emergence of novel genes is critical to studies of phenotypic and genomic evolution. Here we describe a new example of a recently formed chimeric fusion gene that occurs in Drosophila guanche, D. madeirensis, and D. subobscura. This new gene, which we name Adh-Twain, resulted from an Adh mRNA that retrotransposed into the Gapdh-like gene, CG9010. Adh-Twain is transcribed; its 5' promoters and transcription patterns appear similar to those of CG9010. Population genetic and phylogenetic analyses suggest that the amino acid sequence of Adh-Twain evolved rapidly via directional selection shortly after it arose. Its more recent history, however, is characterized by slower evolution consistent with increasing functional constraints. We present a model for the origin of this new gene and discuss genetic and evolutionary factors affecting the evolution of new genes and functions.
Analysis of treatment process time for real‐time‐image gated‐spot‐scanning proton‐beam therapy (RGPT) system (2019)

We developed a synchrotron-based real-time-image gated-spot-scanning proton-beam therapy (RGPT) system and utilized it to clinically operate on moving tumors in the liver, pancreas, lung, and prostate. When the spot-scanning technique is linked to gating, the beam delivery time with gating can increase, compared to that without gating. We aim to clarify whether the total treatment process can be performed within approximately 30 min (the general time per session in several proton therapy facilities), even for gated-spot-scanning proton-beam delivery with implanted fiducial markers. Data from 152 patients, corresponding to 201 treatment plans and 3577 sessions executed from October 2016 to June 2018, were included in this study. To estimate the treatment process time, we utilized data from proton beam delivery logs during the treatment for each patient. We retrieved data, such as the disease site, total target volume, field size at the isocenter, and the number of layers and spots for each field, from the treatment plans. We quantitatively analyzed the treatment process, which includes the patient load (or setup), bone matching, marker matching, beam delivery, patient unload, and equipment setup, using the data obtained from the log data. Among all the cases, 90 patients used the RGPT system (liver: n = 34; pancreas: n = 5; lung: n = 4; and prostate: n = 47). The mean and standard deviation (SD) of the total treatment process time for the RGPT system was 30.3 ± 7.4 min, while it was 25.9 ± 7.5 min for those without gating treatment, excluding craniospinal irradiation (CSI; head and neck: n = 16, pediatric: n = 31, others: n = 15); for CSI (n = 11) with two or three isocenters, the process time was 59.9 ± 13.9 min. Our results demonstrate that spot-scanning proton therapy with a gating function can be achieved in approximately 30-min time slots.