gebhart/patrepeval huggingface dataset:
Identification of candidate epigenetic biomarkers for ovarian cancer detection (2009)

Ovarian cancer ranks the most lethal among gynecologic neoplasms in women. To develop potential biomarkers for diagnosis, we have identified five novel genes (CYP39A1, GTF2A1, FOXD4L4, EBP, and HAAO) that are hypermethylated in ovarian tumors, compared with the non-malignant normal ovarian surface epithelia, using the quantitative methylation-specific polymerase chain reactions. Interestingly enough, multivariate Cox regression analysis has identified hypermethylation of CYP39A1 correlated with an increase rate of relapsing (P=0.032, hazard ratio >1). Concordant hypermethylation in at least three loci was observed in 50 out of 55 (91%) of ovarian tumors examined. The test sensitivity and specificity were assessed to be 96 and 67% for CYP39A1; 95 and 88% for GTF2A1; 93 and 67% for FOXD4L4; 81 and 67% for EBP; 89 and 82% for HAAO, respectively. Our data have identified, for the first time, GTF2A1 alone, or GTF2A1 plus HAAO are excellent candidate biomarkers for detecting this disease. Moreover, the known functions of these gene products further implicate dysregulated transcriptional control, cholesterol metabolism, or synthesis of quinolinic acids, may play important roles in attributing to ovarian neoplasm. Molecular therapies, by reversing the aberrant epigenomes using inhibitory agents or by abrogating the upstream signaling pathways that convey the epigenomic perturbations, may be developed into promising treatment regimens.
Distributed Source Location Estimation Using a Circular Array (1996)

In some real surroundings, signal source localization can more adequately be accomplished with distributed source models. When the signal sources are distributed over an area, we cannot directly use well-known DOA estimation methods, because these methods are established based on the point source assumption. In this paper, we propose a two-dimensional distributed signal source model. Then, we address the estimation of the elevation and azimuth angles of distributed sources based on the proposed model.
TinyLEGO: An Interactive Garbling Scheme for Maliciously Secure Two-party Computation. (2015)

This paper reports on a number of conceptual and technical contributions to the currently very lively field of two-party computation (2PC) based on garbled circuits. Our main contributions are as follows: 1. We propose the notion of an interactive garbling scheme, where the garbled circuit is generated through an interactive protocol between the garbler and the evaluator. The garbled circuit is correct and privacy preserving even if one of the two parties was acting maliciously during garbling. The security notion is game based. 2. We show that an interactive garbling scheme combined with a Universally Composable (UC) secure oblivious transfer protocol can be used in a black-box manner to implement two-party computation (2PC) UC securely against any probabilistic polynomial time static and malicious adversary. The protocol abstracts many recent protocols for implementing 2PC from garbled circuits and will allow future designers of interactive garbling schemes to prove security with the simple game based definitions, as opposed to directly proving UC security for each new scheme. 3. We propose an instantiation of interactive garbling by designing a new protocol in the LEGO family of protocols for efficient garbling against a malicious adversary. The new protocol is based on several new technical contributions and optimizations, for example making it possible to get distinct output to both parties with minimal overhead. The scheme makes black-box usage of a XOR-homomorphic commitment scheme, an authentic, private and oblivious garbling scheme and a 2-correlation-robust and collision-resistant hash function. When comparing our resulting 2PC protocol to previous works in the same setting we see a noticeable reduction in the communication that directly depends on the size of the circuit (e.g. 33% for circuits larger than 501,271 AND gates).
Amino Acid Sequence of Silkworm (Bombyx mori) Hemolymph Antitrypsin Deduced from Its cDNA Nucleotide Sequence: Confirmation of Its Homology with Serpins1 (1990)

A cDNA clone of silkworm (Bombyx mori) larval hemolymph antitrypsin (sw-AT) has been isolated from a fat body cDNA library. The cDNA has an open reading frame which codes a 392-amino acid residue polypeptide comprising a 16-residue signal peptide and a 376-residue mature sw-AT of Mr 41,805. The reactive site of sw-AT for inhibition of bovine trypsin [Sasaki, T. et al. (1987) J. Biochem. 102, 433-441] was identified as Lys343-Val344. Alignment of the sw-AT amino acid sequence with those of 11 members of the serpin superfamily of proteins clearly confirmed the homology of sw-AT with serpins. The amino acid sequence of sw-AT is 56% identical with that of the proteinase inhibitor from a lepidopteron, Manduca sexta [Kanost, M.R. et al. (1989) J. Biol. Chem. 264, 965-972], but the sequence around the reactive site shows no homology and the inhibitory specificity for proteinases is very different.
4-Diphenylphosphanyl-8-methyl-1,5-naphthyridine (2013)

In the title compound, C21H17N2P, the dihedral angles between the 1,5-naphthyridine ring system (r.m.s. deviation = 0.005 Å) and the phenyl rings are 89.18 (8) and 77.39 (8)°. The phenyl rings are almost perpendicular, making a dihedral angle of 88.12 (8)°. The only possible inter-molecular inter-action is a very weak aromatic π-π stacking inter-action [centroid-centroid separation = 3.898 (2) Å].
Mmicular mechanisms of cytochrome <i>c</i> biogenesis: three distinct systems (1998)

The past 10 years have heralded remarkable progress in the understanding of the biogenesis of c-type cytochromes. The hallmark of c-type cytochrome synthesis is the covalent ligation of haem vinyl groups to two cysteinyl residues of the apocytochrome (at a Cys-Xxx-Yyy-Cys-His signature motif). From genetic, genomic and biochemical studies, it is clear that three distinct systems have evolved in nature to assemble this ancient protein. In this review, common principles of assembly for all systems and the molecular mechanisms predicted for each system are summarized. Prokaryotes, plant mitochondria and chloroplasts use either system I or II, which are each predicted to use dedicated mechanisms for haem delivery, apocytochrome ushering and thioreduction. Accessory proteins of systems I and II co-ordinate the positioning of these two substrates at the membrane surface for covalent ligation. The third system has evolved specifically in mitochondria of fungi, invertebrates and vertebrates. For system III, a pivotal role is played by an enzyme called cytochrome c haem lyase (CCHL) in the mitochondrial intermembrane space.
Monitoring battery electrolyte chemistry <i>via</i> in-operando tilted fiber Bragg grating sensors (2021)

Tracking electrolyte chemistry and turbidity by fiber optic sensors.
Impact of Quality-Based Fusion Techniques for Video-Based Iris Recognition at a Distance (2015)

In this paper, we consider the problem of iris recognition in the context of video-based distant acquisition. We propose several systems aiming at improving the poor performance resulting from image degradations (low resolution, blur, and lack of texture) obtained from such acquisitions. Our approach is based on simple super-resolution techniques applied at the pixel level on the different frames of a video, improved by considering some quality criteria. Our main novelty is the introduction of a local quality measure in the fusion scheme. This measure relies on a gaussian mixture model estimation of clean iris texture distribution. It can also be used to compute a global quality measure of the normalized iris image which can be used either for the selection of the best images in a sequence or in the fusion scheme. Extensive experiments on the QFIRE database at different acquisition distances (5, 7, and 11 ft) show the big improvement brought by the use of the global quality for both scenarios. Moreover, the local quality-based fusion scheme further increases the performance due to its ability to consider locally the different parts of the image, and therefore, to discard poorly segmented pixels in the fusion.
Point of View (2004)

*From the Cornell University Medical College Hospital for Special Surgery, New York, New York. The manuscript submitted does not contain information about medical device(s)/drug(s). No funds were received in support of this work. No benefits in any form have been or will be received from a commercial party related directly or indirectly to the subject of this manuscript. Address correspondence and reprint requests to Joseph M. Lane, MD, Cornell University Medical College Hospital for Special Surgery, 535 East 70th Street, New York, NY 10021, USA; E-mail: [email protected]
Carbonic Anhydrase Facilitated CO<sub>2</sub>Diffusion Studied by Means of an Ammonia Sensing Urease Electrode (1989)

Abstract In the present work the influence of carbonic anhydrase (CA) on the gaseous exchanges of CO2 and NH3 in a buffered solution has been studied by means of a potentiometric technique involving the use of an urease sensor, whose sensing element was a commercial pNH3 gas sensing electrode. As pointed out in previous works, suitable experimental conditions were chosen in order to have a speed of CO2 diffusion sharply enhanced by CA. In particular the analytical aspect of NH3 production from a buffered urea solution, in the presence and in the absence of CA, is considered. The results obtained in the present work indicate a further possible application of this system to the study of living organism and tangibly support all the previous studies presented on this topic.
Normal values for pancreatic stone protein in different age groups (2015)

This study provides age-specific normal values that may be used to define cut-offs for future trials on PSP. We demonstrate an age-dependent increase of PSP from birth to childhood.
‘Organic metals’: polypyrrole, a stable synthetic ‘metallic’ polymer (1979)

Highly stable, flexible films of polypyrrole with p-type conductivities of 100 Ω–1 cm–1 have been prepared by electrolytic oxidation of the appropriate pyrrole monomers; similarly prepared films of mixtures of pyrrole and N-methylpyrrole have conductivities between 5 × 10–3 and 100 Ω–1 cm–1 depending upon the composition.
MANIPULATING THE POLARIZATION OF TERAHERTZ WAVES WITH METAMATERIAL DEVICES (2014)

As the potential applications of terahertz science and technology become extremely important, there is an increasing demand for improved terahertz optical components. One of such devices on demand is the class of polarization control devices. Recently, metasurfaces have emerged as designer structures with excellent control, design flexibility, and multifaceted functionalities. Metamaterials offer fascinating prospects for manipulating the polarization state of terahertz waves. Here, we discuss different metamaterial device designs that exhibit properties of perfect linear polarization rotation and linear to either linear or circular polarization conversion at narrowband as well as broadband terahertz frequencies.
Time-domain characterization of packaging effects via segmentation technique (1997)

The analysis of a monolithic microwave integrated circuit (MMIC) placed in a surface-mount plastic package is presented. Critical issues such as poor grounding conditions and crosstalk are addressed and discussed. The significance of a full-wave characterization of the component is shown. Results are validated with data available in the literature showing good agreement. A segmentation approach is also proposed to efficiently analyze the problem. The package effects are extracted and can be combined with MMIC parameters at the design stage to predict the performance of the packaged circuit.
[Factors affecting transformation of Agrobacterium tumefaciens and their application on cereals]. (2000)

Agrobacterium tumefaciens mediated genetic transformation is the method most widely used in plant transformation. How to improve its transformation efficiency and extend its host range to include most cereals is what people concern about. There are many factors that influence the transformation efficiency, including the wounding response of plants, attachment of bacteria, induction of virulent gene, DNA repair and replication activity of plant cells, state of explant, etc. Recent research has proved that cerelas can be transformed effectively by A. tumefaciens under suitable conditions. This paper reviewed the recent progress in the two aspects.
Detection of Voids and Contaminants in Polyethylene Insulated Cable Utilizing a Fir Laser Beam (1983)

A prototype cable inspection instrument for the detection of defects in PE and XLPE insulation is described. The operating principle involves the Miescattering of laser illumination at submillimeter wave- lengths that match the size range of defects of interest. This instrument is capable of detecting defects as small as 50 vm inside the insulation, and providing a realtime cable inspection with essentially full coverage during manufacturing. Detectable defects include voids and contaminants within the insulation, and protrusions and skips in the conductor shield. Other applications of this technology will also be discussed.
Effects of GIC on power transformers and power systems (2012)

There is some misconception in the electric power industry today that geo - magnetically induced currents (GIC) have caused, and would cause, significant damage to the majority of large and medium power transformers installed on power grids in North America and around the world. The purpose of this paper is to present, both qualitatively and quantitatively, the true effect of GIC on power transformers, based on thorough knowledge of power transformer design and performance. The paper also provides concise explanation of the cases of transformer failure/overheating reported in the published literature to have been caused by GIC currents. The paper demonstrates that, because of the nature of the GIC currents, the great majority of power transformers would not experience much overheating or damage due to even high levels of GIC. Only some specific transformers could suffer some winding damage due to high winding circulating currents if exposed to high levels of GIC. The paper also presents the real issue with GIC; namely, the narrow pulse of the magnetizing current which results from part - cycle, semi - saturation of transformer cores when subjected to high levels of GIC currents. This one current pulse/cycle could cause relays and capacitive components in power systems, such as SVC (s), to trip, which may contribute to grid instability. Also, the current pulse is associated with 2 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">nd</sup> and higher order harmonics. As a result, resonance may occur, differential relays may operate, and stability of the grid may be compromised.
Multiple imputation by chained equations: what is it and how does it work? (2011)

Multivariate imputation by chained equations (MICE) has emerged as a principled method of dealing with missing data. Despite properties that make MICE particularly useful for large imputation procedures and advances in software development that now make it accessible to many researchers, many psychiatric researchers have not been trained in these methods and few practical resources exist to guide researchers in the implementation of this technique. This paper provides an introduction to the MICE method with a focus on practical aspects and challenges in using this method. A brief review of software programs available to implement MICE and then analyze multiply imputed data is also provided.
L’église Saint-Pierre de Chéticamp (2008)

L’auteur passe en revue l’histoire des édifices religieux construits à Chéticamp, village fondé en 1790 : depuis l’érection de la première chapelle, vers 1800, en passant par la construction de deux nouveaux édifices pour accueillir la population croissante, l’église du Platin, vers 1812, et l’église du Buttereau en 1861. De 1892 à 1893, l’abbé Fiset réalise le grand projet de construire l’actuelle église, la quatrième, de Saint-Pierre de Chéticamp, Au fil des ans, elle a connu maintes réparations et rénovations et, pour les Chéticantins, elle demeure depuis plus de cent ans ce monument gigantesque qui rappelle la mémoire de ce prêtre autant que la vaillance et la foi des générations passées.
Design and performance of OAM modes generated using dipole arrays with different feeds (2018)

This paper presents 2 types of 4-element arrays generating mode 1 orbital angular momentum (OAM) radio beams at 73 GHz (E-band) using dipole antennas. We investigate the performance of a corporate feed array that uses 2 T-junction dividers and that of a series feed array which uses only 1. Design details are shown in the paper and both of the arrays are fabricated on 0.127 mm FR4 substrate with relative permittivity of 3.65 and loss tangent of 0.013. Fabricated antennas are measured using an Agilent vector network analyzer for input match and NSI 700S-360 spherical near-field scanner for radiation patterns. The results are compared with ANSYS HFSS at 73 GHz.
Major Depressive Disorder and Bipolar Disorder Predispose Youth to Accelerated Atherosclerosis and Early Cardiovascular Disease (2015)

In the 2011 "Expert Panel on Integrated Guidelines for Cardiovascular Health and Risk Reduction in Children and Adolescents," several medical conditions among youth were identified that predispose to accelerated atherosclerosis and early cardiovascular disease (CVD), and risk stratification and management strategies for youth with these conditions were elaborated. Major depressive disorder (MDD) and bipolar disorder (BD) among youth satisfy the criteria set for, and therefore merit inclusion among, Expert Panel tier II moderate-risk conditions. The combined prevalence of MDD and BD among adolescents in the United States is ≈10%, at least 10 times greater than the prevalence of the existing moderate-risk conditions combined. The high prevalence of MDD and BD underscores the importance of positioning these diseases alongside other pediatric diseases previously identified as moderate risk for CVD. The overall objective of this statement is to increase awareness and recognition of MDD and BD among youth as moderate-risk conditions for early CVD. To achieve this objective, the primary specific aims of this statement are to (1) summarize evidence that MDD and BD are tier II moderate-risk conditions associated with accelerated atherosclerosis and early CVD and (2) position MDD and BD as tier II moderate-risk conditions that require the application of risk stratification and management strategies in accordance with Expert Panel recommendations. In this scientific statement, there is an integration of the various factors that putatively underlie the association of MDD and BD with CVD, including pathophysiological mechanisms, traditional CVD risk factors, behavioral and environmental factors, and psychiatric medications.
Crystallographic analysis of family 11 endo-β-1,4-xylanase Xyl1 from<i>Streptomyces</i>sp. S38 (2001)

Family 11 endo-beta-1,4-xylanases degrade xylan, the main constituent of plant hemicelluloses, and have many potential uses in biotechnology. The structure of Xyl1, a family 11 endo-xylanase from Streptomyces sp. S38, has been solved. The protein crystallized from ammonium sulfate in the trigonal space group P321, with unit-cell parameters a = b = 71.49, c = 130.30 A, gamma = 120.0 degrees. The structure was solved at 2.0 A by X-ray crystallography using the molecular-replacement method and refined to a final R factor of 18.5% (R(free) = 26.9%). Xyl1 has the overall fold characteristic of family 11 xylanases, with two highly twisted beta-sheets defining a long cleft containing the two catalytic residues Glu87 and Glu177.
In vitro activation of coagulation by human neutrophil DNA and histone proteins but not neutrophil extracellular traps (2016)

NETosis is a physiologic process in which neutrophils release their nuclear material in the form of neutrophil extracellular traps (NETs). NETs have been reported to directly promote thrombosis in animal models. Although the effects of purified NET components including DNA, histone proteins, and neutrophil enzymes on coagulation have been characterized, the mechanism by which intact NETs promote thrombosis is largely unknown. In this study, human neutrophils were stimulated to produce NETs in platelet-free plasma (PFP) or in buffer using phorbol myristate actetate or calcium ionophore. DNA and histone proteins were also separately purified from normal human neutrophils and used to reconstitute chromatin using a salt-gradient dialysis method. Neutrophil stimulation resulted in robust NET release. In recalcified PFP, purified DNA triggered contact-dependent thrombin generation (TG) and amplified TG initiated by low concentrations of tissue factor. Similarly, in a buffer milieu, DNA initiated the contact pathway and amplified thrombin-dependent factor XI activation. Recombinant human histones H3 and H4 triggered TG in recalcified human plasma in a platelet-dependent manner. In contrast, neither intact NETs, reconstituted chromatin, individual nucleosome particles, nor octameric core histones reproduced any of these procoagulant effects. We conclude that unlike DNA or individual histone proteins, human intact NETs do not directly initiate or amplify coagulation in vitro. This difference is likely explained by the complex histone-histone and histone-DNA interactions within the nucleosome unit and higher-order supercoiled chromatin leading to neutralization of the negative charges on polyanionic DNA and modification of the binding properties of individual histone proteins.
Multiple internal reflection infrared spectroscopy using two-prism coupling geometry: A convenient way for quantitative study of organic contamination on silicon wafers (2000)

A multiple internal reflection infrared monitoring system based on two-prism coupling geometry has been developed for the quantitative measurement of organic contamination on 200 or 300 mm silicon wafers. The method is rapid, simple, and can be carried out nondestructively. Varying the distance between the prisms couplers allows one to perform absolute infrared absorption measurements without the need of a reference wafer. On 300 mm silicon wafers CH2 and CH3 surface concentrations as low as 4×1012 cm−2 can be measured.