gebhart/patrepeval huggingface dataset:
H-Ferritin-Regulated MicroRNAs Modulate Gene Expression in K562 Cells (2015)

In a previous study, we showed that the silencing of the heavy subunit (FHC) offerritin, the central iron storage molecule in the cell, is accompanied by a modification in global gene expression. In this work, we explored whether different FHC amounts might modulate miRNA expression levels in K562 cells and studied the impact of miRNAs in gene expression profile modifications. To this aim, we performed a miRNA-mRNA integrative analysis in K562 silenced for FHC (K562shFHC) comparing it with K562 transduced with scrambled RNA (K562shRNA). Four miRNAs, namely hsa-let-7g, hsa-let-7f, hsa-let-7i and hsa-miR-125b, were significantly up-regulated in silenced cells. The remarkable down-regulation of these miRNAs, following FHC expression rescue, supports a specific relation between FHC silencing and miRNA-modulation. The integration of target predictions with miRNA and gene expression profiles led to the identification of a regulatory network which includes the miRNAs up-regulated by FHC silencing, as well as91 down-regulated putative target genes. These genes were further classified in 9 networks; the highest scoring network, "Cell Death and Survival, Hematological System Development and Function, Hematopoiesis", is composed by 18 focus molecules including RAF1 and ERK1/2. We confirmed that, following FHC silencing, ERK1/2 phosphorylation is severely impaired and that RAF1 mRNA is significantly down-regulated. Taken all together, our data indicate that, in our experimental model, FHC silencing may affect RAF1/pERK1/2 levels through the modulation of a specific set of miRNAs and add new insights in to the relationship among iron homeostasis and miRNAs.
Parallel Architecture and Hyperparameter Search via Successive Halving and Classification (2018)

We present a simple and powerful algorithm for parallel black box optimization called Successive Halving and Classification (SHAC). The algorithm operates in $K$ stages of parallel function evaluations and trains a cascade of binary classifiers to iteratively cull the undesirable regions of the search space. SHAC is easy to implement, requires no tuning of its own configuration parameters, is invariant to the scale of the objective function and can be built using any choice of binary classifier. We adopt tree-based classifiers within SHAC and achieve competitive performance against several strong baselines for optimizing synthetic functions, hyperparameters and architectures.
Measurement of Axially Inhomogeneous Permittivity Distributions in Resonant Microwave Cavities (2019)

The cavity perturbation method is a standard technique for material parameter estimation. It typically assumes that the sample consisting of the material under test (MUT) is small. This and other assumptions are violated in in-process measurement scenarios that involve big and inhomogeneous samples. We analyze the limitations of the classical perturbation method and present a new approach toward the measurement of spatially varying material parameters associated with a large sample in a rectangular or a circular cylindrical microwave cavity. The method is based on the measurement of multiple resonance frequencies and quality factors and is validated by numerical and laboratory experiments. It is demonstrated that relative permittivities and conductivities may be measured with typical accuracies on the order of 1%.
Conversion of Neopullulanase- -Amylase from Thermoactinomyces vulgaris R-47 into an Amylopullulanase-Type Enzyme (1998)

TVA I, an alpha-amylase from Thermoactinomyces vulgaris R-47, is a versatile enzyme which hydrolyzes the alpha-(1-->4)-glucosidic linkages of pullulan to produce panose, known as neopullulanase activity, and the alpha-(1-->6)-glucosidic linkages of certain oligosaccharides. We modified the Ala-357, Gln-359, and Tyr-360 residues located in region II, one of the four regions conserved in alpha-amylase family enzymes, and deleted 11 consecutive amino acid residues located after the C-terminus of region II of the TVA I sequence by means of site-directed mutagenesis. The action pattern of the mutated enzyme for pullulan was greatly altered and it hydrolyzed mainly the alpha-(1-->6)-glucosidic linkages of pullulan to produce maltotriose, while the action patterns for starch and maltooligosaccharides were almost identical to those of the wild-type enzyme. This means that the mutated TVA I has lost the neopullulanase activity, and thus can be designated as an amylopullulanase-type enzyme. The kcat/Km value of the mutated enzyme for alpha-(1-->6)-glucosidic linkages was virtually unaltered, while that for alpha-(1-->4)-glucosidic linkages was about 100 times smaller than that of the wild-type enzyme.
Automatic face location for videophone images (2002)

This paper presents a novel technique to automatically locate the face of a person in a videophone image. The proposed technique makes use of the intensity values of both luminance and chrominance components of the image. It detects face location by exploiting the distribution property of these components. The usefulness of face location information is also presented.
Treatment of Work-Related Health Problems in a Work Clinic (1976)

Little is known about patients who chronically express work problems through medical complaints or who develop or exaggerate physical problems to avoid work, the authors say. In 1973 a university-affiliated medical clinic set up a multidisciplinary work clinic to study and treat patients with work-related health problems. In general the clinic's first 18 patients showed emotional immaturity and social or psychiatric dysfunction, often severe. After treatment nine of the 18 returned to work, and two began vocational retraining and later took jobs. The authors believe that because of the close relationship between work and health, medical-care institutions must deal with work problems that patients present.
Response to the Bauserman Critique (1991)

No abstract available for this article.
Acoustic propagation effects in therapeutic ultrasound (2006)

Accurate understanding of ultrasound‐tissue interaction is important for realization of clinically useful therapeutic ultrasound methods and devices. Linear acoustic propagation in homogeneous media, including diffraction and absorption effects, provides a useful first approximation but fails to accurately model many problems of interest. Depending on the therapy regime, other important effects can include cavitation and other gas activity, inhomogeneous tissue structure, finite‐amplitude propagation, temperature‐dependent tissue properties, and irreversible tissue modification. For ablation of soft tissue using ultrasound, prediction of therapeutic effects requires accurate knowledge of space‐ and time‐dependent heat deposition from acoustic absorption. In addition to perfusion losses, acoustically inhomogeneous tissue structure, even in nominally homogeneous organs such as the liver, can modify heating patterns enough to change treatment outcomes. Gas activity due to boiling and tissue property changes due to local ablation, both of which markedly affect treatment, can be approximated by appropriate modification of the initial heat deposition pattern. These issues are illustrated by simulations of ultrasound therapy and comparison with in vivo and in vitro ultrasound ablation experiments.
Mechanical Failure in Colloidal Gels (2015)

When colloidal particles in a dispersion are made attractive, they aggregate into fractal clusters which grow to form a space-spanning network, or gel, even at low volume fractions. These gels are crucial to the rheological behavior of many personal care, food products and dispersion-based paints. The mechanical stability of these products relies on the stability of the colloidal gel network which acts as a scaffold to provide these products with desired mechanical properties and to prevent gravitational sedimentation of the dispersed components. Understanding the mechanical stability of such colloidal gels is thus of crucial importance to predict and control the properties of many soft solids. Once a colloidal gel forms, the heterogeneous structure bonded through weak physical interactions, is immediately subject to body forces, such as gravity, surface forces, such as adhesion to a container walls and shear forces; the interplay of these forces acting on the gel determines its stability. Even in the absence of external stresses, colloidal gels undergo internal rearrangements within the network that may cause the network structure to evolve gradually, in processes known as aging or coarsening or fail catastrophically, in a mechanical instability known as syneresis. \n\n\nStudying gel stability in the laboratory requires model colloidal system which may be tuned to eliminate these body or endogenous forces systematically. Using existing chemistry, I developed several systems to study delayed yielding by eliminating gravitational stresses through density matching and cyclic heating to induce attraction; and to study syneresis by eliminating adhesion to the container walls, altering the contact forces between colloids, and again, inducing gelation through heating. These results elucidate the varied yet concomitant mechanisms by which colloidal gels may locally or globally yield, but then reform due to the nature of the physical, or non-covalent, interactions which form them.
Primary hyperparathyroidism: new concepts in clinical, densitometric and biochemical features (2004)

Primary hyperparathyroidism (PHPT) is characterized most commonly now as an asymptomatic disorder with hypercalcaemia and elevated levels of parathyroid hormone (PTH). The elevation in PTH is detected by both the standard immunoradiometric assays (IRMA) and a more recent IRMA that detects only the 1-84 full-length PTH molecule. The serum calcium concentration is usually <1 mg dL(-1) above normal. Recently, another variant of PHPT (normocalcaemic PHPT) has been described in which the serum calcium is normal but the serum PTH is elevated, in the absence of any secondary cause for PTH elevation. Although usually sporadic, PHPT also occurs in inherited syndromes. Skeletal manifestations are appreciated by densitometry showing a typical pattern in which cancellous bone of the lumbar spine is reasonably well preserved whilst the cortical bone of the distal third of the radius is preferentially reduced. Although reduced in incidence, renal stones remain the most common overt complication of PHPT. Other organs are theoretical targets of PHPT such as the neurobehavioural axis and the cardiovascular system. Vitamin D looms as an important determinant of the activity of the PHPT state. The 2002 NIH Workshop on asymptomatic PHPT has led to revised guidelines to help doctors determine who is best advised to have parathyroid surgery and who can be safely followed without surgery. New information about the natural history of PHPT in those who did not undergo surgery has helped to define more precisely who is at-risk for complications. At the NIH workshop, a number of items were highlighted for further investigation such as pharmacological approaches to controlling hypercalcaemia, elevated PTH levels and maintaining bone density.
DEUS: a Discrete Event Universal Simulator (2009)

Currently available discrete event simulation tools exhibit important limitations, either being too specific, or providing only a partial API and possibly not enough scalability. In this paper we introduce our novel general purpose simulator, called DEUS, which aims at becoming one of the reference
Modeling of gallium nitride optoelectronic devices (2000)

The nature of our work in the area of research and development of nitride-based LEDs and laser diodes requires a fast modular tool for numerical simulation and analysis. It is required that the modeling tool reflects the primary physical processes of current injection, quantum well bound state dynamics, quantum well capture, radiative and non-radiative transitions. The model must also have the flexibility to incorporate secondary physical effects, such as induced piezoelectric strain fields due to lattice mismatch. A one-dimensional model with a phenomenological well capture process, similar to that developed by Tessler and Eisenstein, has been implemented. The radiative processes are calculated from first principles, and the material band structures are computed using k (DOT) p theory. The model also features the incorporation of such effects as thermionic emission at heterojunctions, Shockley- Read-Hall recombination, piezoelectric strain fields, and self-consistent calculation of the quantum well bound states with dynamic device operation. The set of equations underlying the model is presented, with particular emphasis on the approximations used to achieve the previously stated goals. A sample structure is analyzed, and representative physical parameters are plotted. Finally, as an example of the modeled secondary physical processes, results showing the effects of incorporating strain-induced piezoelectric fields due to lattice mismatch are given.
<i>Setting up</i>the production process of<i>diatomite</i>-based ceramic foams (2017)

The design of the production process of diatomite-based ceramic foams, starting from different percentages of metakaolin, diatomite, and sodium silicate solution as reactive ingredients and vegetable surfactant and silicon powder as blowing agents, has been set up. The foams were obtained using the double effect of different foaming approaches: mechanical stirring and chemical foaming. Six systems were prepared fixing the amount of diatomite (100%) and adding in the starting mixture of different percentages (0.05, 0.1, 0.25, 0.5, 0.75, and 1 wt%) of silicon metal. Once the optimal percentage of silicon metal (0.05%) is chosen thanks to XRD analysis, other three systems were prepared only changing the amount of diatomite (50, 70, and 100 wt%) in starting formulation. The foam obtained with 100% of diatomite results to be the optimized final formulation, as it shows a hierarchical porosity with a high homogeneity of the matrix at the same time. The results highlighted that the best performances in terms of lightness, high porosity as well as homogenous microstructure were obtained using, with respect to the total amount, 6 wt% of mechanical stirred vegetable surfactant together with 0.05 wt% of Si as physical and chemical blowing agents, respectively.
Immunizations, Newborn Screening, and Capillary Blood Tests (2010)

Designed to accompany the Bright Futures Guidelines for Health Supervision of Infants, Children, and Adolescents, Third Edition, this manual provides authoritative, evidence-based guidance about the most effective ways to deliver preventive services. Ideal for pediatric practice professionals, and as a teaching tool for medical students, residents, and all health professionals who provide well child care. Nationally renowned experts reviewed the scientific medical literature and authored the content which is organized into 4 main sections: History, Observation, and Surveillance Physical Exam Screening Anticipatory Guidance
Correlates of Gay and Lesbian Couples' Relationship Satisfaction and Relationship Dissolution (2003)

A sample of committed gay and lesbian cohabiting couples engaged in two conversations after being apart for at least 8 hours: (a) an events of the day conversation and (b) a conflict resolution conversation. Physiological data were collected during the conversations and a videotape record was made. Couples viewed the videotapes and rated their affect during the interaction. The video records were coded with a system that categorized specific affects displayed. Models derived from physiology, from the perception of interaction, and from specific affective behavior were related to relationship satisfaction, and to the prediction of relationship dissolution over a 12-year period. Results supported previous findings that satisfaction and stability in gay and lesbian relationships are related to similar emotional qualities as in heterosexual relationships.
Effects of dietary energy levels on growth efficiency and quantity and quality of meat of pigs. 1. The case of pigs kept under individual and controlled feeding conditions. (1990)

肉豚への効率的な飼料の給与法を明らかにするため, LW・D三元交雑豚36頭を3試験区に分け, エネルギー水準は異なるが栄養率を一定とした3種類の飼料, すなわち低栄養区 (TDN70%, CP13.5%), 中栄養区 (TDN74%, CP14.3%) および高栄養区 (TDN78%, CP15.1%) をエネルギー摂取量が同等になるように単飼で制限給餌した場合の発育を調べるとともに, 生体重105kg到達後屠殺して肉量および肉質に関連する特性を測定し, 比較検討した。その結果, 飼料のエネルギー水準が異なっても給与量の調整によってエネルギーおよびその他の栄養素の摂取量を同等にすれば, 飼料要求率こそ大きく異なるものの1日増体量, さらには枝肉中の赤肉量, 脂肪量及び骨量に影響はなかった。飼料のエネルギー水準による影響がみられたのは, 肉質のうち体脂肪の性状のみであって, トウモロコシの高率配合 (70.2%) と動物油脂添加 (2%) によった高栄養区は低栄養区に比べて, 明らかに体脂肪の融点が低下し, 不飽和脂肪酸量が増加した。しかし, 供試飼料によるその程度の脂肪の品質の相違は, 豚の品種差より小さいもので, 軟脂豚発生の要因とはならないものと考えられた。
Reinfection results in accumulation of unintegrated viral DNA in cytopathic and persistent human immunodeficiency virus type 1 infection of CEM cells. (1990)

High levels of unintegrated viral DNA accumulate during human immunodeficiency virus type 1 (HIV-1) infection of CEM T cells. Reinfection of already infected cells is required to attain these levels and reinfection also promotes the development of HIV-induced cytopathology. Rates of virus production, however, are independent of the accumulation of unintegrated viral DNA. Neutralizing antibody added soon after infection reduced viral DNA levels without appreciably affecting the production of cell-free viral p24 antigen or reverse transcriptase activity. Only 50 pM AZT were required to reduce the accumulation of unintegrated viral DNA by 50% in contrast to the 25 nM required to inhibit virus production by 50%. Cytopathology, as measured by number of syncytia in infected cell cultures, was correlated with highly elevated levels of unintegrated viral DNA. The minimal levels of unintegrated viral DNA present constitutively in the persistently infected HCEM cell line were consonant with the absence of cytopathic effects in these cells. These data demonstrate that inhibiting the reinfection of already infected cells modulates cytopathic HIV-1 infection to a form that is persistent and noncytopathic.
Reductive Coupling and Reductive Demethoxylation of Aromatic Dimethylacetals with SmI2/Trifluoroacetic Acid, SmI2/BF3•Et2O, or SmI2/H2O (1996)

Methoxy-, chloro-, and alkyl-substituted benzaldehyde dimethyl acetals are reductively coupled to the corresponding 1,2-diaryl-1,2-dimethoxyethane with SmI2 in combination with trifluoroacetic acid (TFA) or BF3•Et2O. Cyano- and methoxycarbonyl-substituted aromatic and also aliphatic acetals undergo reductive demethoxylation affording methyl alkyl ethers in high yields under similar reduction conditions. Aromatic dimethyl acetals are demethoxylated with SmI2 in the presence of H2O.
The Elimination of Fire Hazard Due to Back Fires (1933)

A critical study was made of the operation of a type of back-fire arrester used to reduce the fire hazard of aircraft engines. A flame arrester consisting of a pack or plug of alternate flat and corrugated plates of thin metal was installed in the intake pipe of a gasoline engines; an auxiliary spark plug inserted in the intake manifold permitted the production of artificial back fires at will. It was found possible to design a plug which prevented all back fires from reaching the carburetor.
Metabolites of the higher fungi. Part 24. Cytochalasin N, O, P, Q, and R. New cytochalasins from the fungus Hypoxylon terricola Mill (1989)

Punctaporonin B, cytochalasin C and D, and five new cytochalasins have been isolated from the culture medium and mycelium of the fungus Hypoxylon terricola. Cytochalasin C is the major metabolite. Cytochalasin N is the 5,6-epoxide of cytochalasin C, and cytochalasins O and P are two epimeric 6-hydroxy analogues. Cytochalasin Q is a 6,7-epoxide and R is a 6,7,13,14-diepoxide. The epoxides formed by cytochalasin C and D are described and the acid- and BF3-induced rearrangement products of cytochalasin N are identified.
Triterpenes with Anti-invasive Activity from Sclerotia of <i>Inonotus obliquus</i> (2017)

The methanolic extract [inhibition (%): 61.2±3.8 (p<0.01) at 100 μg/mL] and its EtOAc-soluble fraction [inhibition (%): 82.5±1.7 (p<0.01) at 100 μg/mL1 from the sclerotia of Inonotus obliquus collected in Japan significantly inhibited invasion of human fibrosarcoma HT1080 cells through matrigel-coated filters. In addition, the methanolic extract significantly inhibited lung tumor formation fifteen days after injection of BI6F10 melanoma cells in mice [inhibition (%) 66.1 ± 12:8 (p < 0.05) at 500 mg/kg/d, p.o.]. Lanostane-type triterpenes were isolated as the common principal constituents from Japanese and Russian . obliquus. Furtheremore, we examine the inhibitory effects of the constituents on the invasion of HT 1080 cells. Interestingly, 3β-hydroxylanosta-8,24-dien- 21-al [inhibition (%) 37.9 ± 3.0 (p < 0.05) at 30 μM] significantly inhibited the invasion, and no cytotoxic effect at 30 μM was observed.
Synthetic Methodology for Asymmetric Ferrocene Derived Bio-conjugate Systems via Solid Phase Resin-based Methodology (2015)

Early detection is a key to successful treatment of most diseases, and is particularly imperative for the diagnosis and treatment of many types of cancer. The most common techniques utilized are imaging modalities such as Magnetic Resonance Imaging (MRI), Positron Emission Topography (PET), and Computed Topography (CT) and are optimal for understanding the physical structure of the disease but can only be performed once every four to six weeks due to the use of imaging agents and overall cost. With this in mind, the development of "point of care" techniques, such as biosensors, which evaluate the stage of disease and/or efficacy of treatment in the clinician's office and do so in a timely manner, would revolutionize treatment protocols.1 As a means to exploring ferrocene based biosensors for the detection of biologically relevant molecules2, methods were developed to produce ferrocene-biotin bio-conjugates described herein. This report will focus on a biotin-ferrocene-cysteine system that can be immobilized on a gold surface.
AdpA, a Central Transcriptional Regulator in the A-Factor Regulatory Cascade That Leads to Morphological Development and Secondary Metabolism in<i>Streptomyces griseus</i> (2005)

A-factor (2-isocapryloyl-3R-hydroxymethyl-gamma-butyrolactone) is a microbial hormone that triggers aerial mycelium formation and secondary metabolism in Streptomyces griseus. A-factor produced in a growth-dependent manner switches on the transcription of adpA encoding a transcriptional activator by binding to the A-factor receptor protein (ArpA), which has bound the adpA promoter, and dissociating the DNA-bound ArpA from the DNA. AdpA then activates a number of genes with various functions required for morphological development and secondary metabolism, forming an AdpA regulon. AdpA, which contains a ThiJ/PfpI/DJ-1-like dimerization domain at its N-terminal portion and an AraC/XylS-type DNA-binding domain at its C-terminal portion, is a representative of a large subfamily of the AraC/XylS family. AdpA binds various positions with respect to the transcriptional start points of the target genes and recruits RNA polymerase to the specific promoter region, and facilitates the isomerization of the RNA polymerase-DNA complex into an open complex competent for transcriptional initiation. The AdpA-binding consensus sequence is 5'-TGGCSNGWWY-3' (S: G or C; W: A or T; Y: T or C; N: any nucleotide). The DNA-binding specificity of AdpA in conjunction with that of other AraC/XylS family members is also discussed.