gebhart/patrepeval huggingface dataset:
Motion-compensated hand-held common-path Fourier-domain optical coherence tomography probe for image-guided intervention (2013)

A motion-compensated hand-held common-path Fourier-domain optical coherence tomography imaging probe has been developed for image guided intervention during microsurgery. A hand-held prototype instrument was designed and fabricated by integrating an imaging fiber probe inside a stainless steel needle which is attached to the ceramic shaft of a piezoelectric motor housed in an aluminum handle. The fiber probe obtains A-scan images. The distance information was extracted from the A-scans to track the sample surface distance and a fixed distance was maintained by a feedback motor control which effectively compensated hand tremor and target movements in the axial direction. Graphical user interface, real-time data processing, and visualization based on a CPU-GPU hybrid programming architecture were developed and used in the implantation of this system. To validate the system, free-hand optical coherence tomography images using various samples were obtained. The system can be easily integrated into microsurgical tools and robotics for a wide range of clinical applications. Such tools could offer physicians the freedom to easily image sites of interest with reduced risk and higher image quality.
Serum biomarkers of hepatitis B virus infected liver inflammation: A proteomic study (2003)

Hepatitis B virus (HBV), a serious infectious and widespread human pathogen, represents a major health problem worldwide. Chronic HBV infection has a very high risk of evolving into hepatocellular carcinoma. Although considerable progress was made during the recent past, the pathogenesis of HBV infection is still elusive and a definite diagnosis of HBV infected liver information still relies on biopsy histological test. In this report, we used proteomics technology to globally examine HBV infected serum samples aiming at searching for disease-associated proteins that can be used as serological biomarkers for diagnosis and/or target proteins for pathogenetic study. By comparing with normal and HBV negative serum samples, we found that at least seven proteins were significantly changed in HBV infected sera. These greatly altered proteins were identified to be haptoglobin beta and alpha2 chain, apolipoprotein A-I and A-IV, alpha1-antitrypsin, transthyretin and DNA topoisomerase IIbeta. The alteration of these proteins is displayed not only in quantity but also in patterns (or specificity), which can be correlated with necroinflammatory scores. In particular, apolipoprotein A-I presents heterogeneous change in expression level with different isoforms and alpha1-antitrypsin produces evidently different fragments implying diverse cleavage pathways. These unique phenomena appear specific to HBV infection. A combination simultaneously considering the quantities and isoforms of these proteins could be a useful serum biomarker (or index) for HBV diagnosis and therapy.
A Discourse-Aware Attention Model for Abstractive Summarization of Long Documents (2018)

Arman Cohan, Franck Dernoncourt, Doo Soon Kim, Trung Bui, Seokhwan Kim, Walter Chang, Nazli Goharian. Proceedings of the 2018 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies, Volume 2 (Short Papers). 2018.
MP01-11 TERT PROMOTER MUTATION IN NON-MALIGNANT UROTHELIUM OF BLADDER IS ASSOCIATED WITH RECURRENCE IN PATIENTS WITH NON-MUSCLE INVASIVE BLADDER CARCINOMA (2020)

INTRODUCTION AND OBJECTIVE:TERT promoter mutation (TPM) is frequently found in urothelial carcinoma (UC). TPM is also detected in urine from patients with no evidence of cancer, and is associated w...
Astronomical imaging camera lens for 035–09 µm with variable chromatic correction (1997)

An imaging lens at f/4 is designed to have zoomlike variable chromatic and spherochromatic correction for imagery in each of the astronomical U, B, V, and R bands.
In-service measurements of polarization-mode dispersion and correlation to bit-error rate (2003)

We introduce a nondisruptive in situ polarization-mode dispersion measurement technique using the sidebands of working channels and show that it compares favorably with the standard Mueller matrix method. Using this technique, we observed time correlations between the instantaneous differential group delay and bit-error rate on a 1000-km field-installed 43-Gb/s transmission system.
Nonlinear hydrodynamic analysis of an offshore oscillating water column wave energy converter (2021)

The hydrodynamic performance of a floating cylindrical oscillating water column (OWC) wave energy converter is investigated experimentally and numerically. The physical experiment is carried out in a wave flume at Dalian University of Technology. The floating cylindrical OWC device is constrained by springs and only moves vertically. A second-order time-domain Higher-Order Boundary Element Method, based on the perturbation expansion technique, is used to simulate the nonlinear wave interaction with the floating OWC device. The nonlinear terms concerning the pneumatic and viscous damping are introduced to the free surface boundary conditions inside the OWC chamber. The chamber surface elevation and air pressure, the hydrodynamic efficiency, and the vertical displacement of the OWC device are examined in detail. Good agreements are obtained between experimental data and numerical results. Then, the effects of opening ratio, wave steepness, mooring stiffness and chamber draft on the hydrodynamic performance are then investigated. It is found that the optimal opening ratio is between 0.02 and 0.03. The mooring stiffness plays an important role on the hydrodynamic response of the OWC device. The hydrodynamic efficiency and effective frequency bandwidth increase with the mooring stiffness.
Coherently Controlled Nanoscale Molecular Deposition (2000)

Quantum interference effects are shown to provide a means of controlling and enhancing the focusing of a collimated neutral molecular beam onto a surface. The nature of the aperiodic pattern formed can be altered by varying laser field characteristics and the system geometry.
Effects of bovine fatty acid synthase, stearoyl-coenzyme A desaturase, sterol regulatory element-binding protein 1, and growth hormone gene polymorphisms on fatty acid composition and carcass traits in Japanese Black cattle1 (2010)

The quality of fat is an important factor in defining the quality of meat. Fat quality is determined by the composition of fatty acids. Among lipid metabolism-related genes, including fatty acid synthesis genes, several genetic variations have been reported in the bovine fatty acid synthase (FASN), stearoyl-CoA desaturase (SCD), sterol regulatory element-binding protein 1 (SREBP1), and GH genes. In the present study, we evaluated the single and epistatic effects of 5 genetic variations (4 SNP and 1 insertion/deletion) in 4 genes (FASN, SCD, SREBP1, and GH) on the fatty acid composition of the longissimus thoracis muscle and carcass and meat quality traits in 480 commercial Japanese Black cattle. Significant single effects of FASN, SCD, and GH(L127V) polymorphisms on the fatty acid composition of the longissimus thoracis muscle were detected. The A293V polymorphism of SCD had the largest effect on myristic acid (C14:0, P < 0.001), myristoleic acid (C14:1, P < 0.001), stearic acid (C18:0, P < 0.001), oleic acid (C18:1, P < 0.001), and MUFA (P < 0.001). Polymorphisms in the FASN, SCD, and SREBP1 genes showed no effect on any meat yield trait. There were no significant epistatic effects on fatty acid composition among pairs of the 3 genes (FASN, SCD, and SREBP1) involved in fatty acid synthesis. No epistatic interactions (P > 0.1) were detected between FASN and SCD for any carcass trait. When the genotypes of 3 markers (FASN, SCD, and GH(L127V)) were substituted from the lesser effect allele to the greater effect allele, the proportion of C18:1 increased by 4.46%. More than 20% of the genetic variance in the C18:1 level could be accounted for by these 3 genetic markers. The present results revealed that polymorphisms in 2 fatty acid synthesis genes (FASN and SCD) independently influenced fatty acid composition in the longissimus thoracis muscle. These results suggest that SNP in the FASN and SCD genes are useful markers for the improvement of fatty acid composition in commercial Japanese Black cattle.
MEMS gyroscope bias drift cancellation using continuous-time mode reversal (2013)

A continuous-time mode-reversal technique demonstrates reduction of bias drift of a MEMS pendular gyroscope. The technique relies on continuous excitation of two axes of the gyroscope. Forces required to maintain a particular proof-mass trajectory indicate the angular rate. The individual forcers also contain correlated error terms which can be cancelled with an appropriate linear combination. This technique demonstrates an Allan-deviation improvement from 9 deg/hr to 2 deg/hr on a 3.3kHz MEMS vibratory gyroscope.
Designing Aberration-Corrected Solid Unstable Resonators (1994)

In improved method of designing solid unstable resonator of laser diode, shapes of mirrors calculated to yield specified mode. Ray tracing used to compute shape of initially unspecified end mirror, given shape of initially specified end mirror and specified output mode. No need to accept aberrations or suboptimal circular shapes, to make iterative design computations in effort to converge on desired mode, or to assume paraxiality of rays: Angles between rays and optical axis large, cross sections of surfaces noncircular, and computed shape of end mirror exact. End mirror corrects for all aberrations.
Hamming-Distance-Based Binary Representation of Numbers (2018)

Numbers are represented as binary arrays in computer storage. We propose a length-n binary representation of numbers from 0 to 2 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">n</sup> -1 based on Hamming distances such that for any i ∈ {0, ..., 2 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">n</sup> -1}, if a constant number of bits (out of n) are flipped, the normalized L1 distance from the distorted number i <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">error</sub> to i is vanishing when n tends to infinity. More precisely, maxi[(|ierror-i|)/(2 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">n</sup> )]=o([1/(√n)]). A pair of encoder and decoder with O(n) time complexity is presented to establish the Hamming-distance-based bijection between {0,1} <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">n</sup> and {0,1, ..., 2 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">n</sup> -1}.
Progress of Surface Emitting Lasers. (1998)

Low threshold vertical cavity surface emitting lasers (VCSELs) have been developed for future parallel optoelectronics, including optical interconnects. The research field of surface emitting lasers is growing up rapidly and micro-amperes low threshold devices have been realized. The operating wavelength region of surface emitting lasers is now ranging from ultraviolet to infrared. In this paper, the recent progress of surface emitting semiconductor lasers is reviewed.
Dielectric Barrier Discharge Plasma in Coagulation and Sterilization. (2006)

Abstract Rapid loss of blood, in the operating room or trauma, necessitates a need for hastening coagulation Attempts to hasten coagulation include electrocautery based on thermal plasma discharges. Although there have been other effective attempts to prevent further loss of blood via coagulation, tissue damage and dessication can occur as a result of the high temperatures 2. Our group has developed a method to initiate rapid coagulation with dielectric plasma discharge (cold). Initial experiments were performed using fresh blood from volunteers to compare time for coagulation of whole blood exposed to plasma, one minute versus 10 minutes. We tried same experiments on cut cadaver organs such as spleen and placenta which showed evidence of rapid coagulation compared to control without evidence of tissue damage. Our research team has developed a novel method using non-thermal dielectric barrier discharge plasma (DBD plasma) to coagulate blood and sterilize tissues without causing thermal damage. This treatment would be safe to patients because no exposed electrodes are involved and high frequency current (under 10 KHz) is kept below mili-ampere. Our experiments have shown that such plasma treatment hastens blood coagulation and causes simultaneous wound sterilization via a large concentration of chemically active species in plasma that are ions, radicals (O, OH, N) and electronically-excited atoms and molecules. A kinetic model of blood coagulation under influence of DBD plasma was constructed. The model assumes contact flux of positive ions from DBD plasma into the surface of the blood being treated. Once at the surface, these ions recombine, leading to formation of aqueous Hydrogen ions which catalyze the release of Calcium ions into the blood. The addition of Calcium ions to blood speeds up the coagulation process proportionally to the amount of ions added. The model demonstrates thrombin formation in the presence of DBD plasma peaking and occurring within significantly less time compared to thrombin formation without DBD plasma3. Such medically relevant demonstrations and mathematical explanations have allowed us to develop a portable device that may prove useful in situations where control of bleeding is crucial. In addition, because of the potential for simultaneous sterilization, this device may also help to decrease infections. This pioneering technology will find applicability in many clinical situations: sterilization of human tissue surfaces prior to surgery and sterilization of catheters, a well-known cause of morbidity in hospitals.
Monokine mediated release of intracellular iron in tumor target cells in vitro. (1987)

Activated macrophages cocultured with tumor cells mediate intracellular iron release in both lytically-sensitive and lytically-resistant targets. The early inhibition of aconitase and loss of intracellular iron in tumor targets upon coincubation with activated macrophages have been proposed to be causally linked. In this report we demonstrate that release of iron may be monokine mediated. The monokine is rapidly released from murine BCG-activated peritoneal macrophages after endotoxin triggering, reaching peak levels in the supernatant within 2-4 hr. The response of the target depends on both the dose of the monokine administered and the duration of its exposure. The monokine is heat-labile and is retained by ultrafiltration on a YM-10 membrane. Iron-release is not mediated by a cytolytic factor secreted by activated macrophages, nor by a factor which causes reversible lesions in the electron transport chain. The molecular weight of the iron-releasing monokine is approximately 50 kD as determined by HPLC gel filtration on Superose 12.
Modular approach to achieving the next-generation x-ray light source. (2000)

A modular approach to the next-generation light source is described.The "modules" include photocathode, radio-frequency, electron guns and their associated drive-laser systems, linear accelerators, bunch-compression systems, seed laser systems, planar undulatory, two-undulator harmonic generation schemes, high-gain harmonic generation systems (each composed of a modulative section, a dispersive section, and a radiative section), nonlinear higher harmonics, and wavelength shifting.These modules will be heIpfid in distributing the next-generation light source to many more laboratories than the current single-pass, high-gain free-electron laser designs permit, due to both monetary andlor physical space constraints.
Modulation of p300 binding by posttranslational modifications of the C‐terminal activation domain of hypoxia‐inducible factor‐1α (2007)

Posttranslational modifications of hypoxia-inducible factor-1alpha (HIF-1alpha) influence HIF-mediated transcription, likely by affecting binding to p300/cAMP-response element-binding protein (CBP). To systematically analyze the HIF-1alpha-p300/CBP interaction, we developed a fluorescence polarization-based binding assay, employing fluorescein-labeled peptides derived from the C-terminal transactivation domain (C-TAD) of HIF-1alpha. After optimized for effectively capturing p300/CBP, the assay was utilized for evaluating direct effects of posttranslational modifications of the HIF-1alpha C-TAD on p300 binding. The results demonstrated that asparagine hydroxylation and S-nitrosylation of HIF-1alpha decrease p300 binding, while its phosphorylation does not affect p300 binding, which was reconfirmed by competitive inhibition analyses using mutant peptides.
Detecting and Receiving Phase-Modulated Signals With a Rydberg Atom-Based Receiver (2019)

The recent developments of Rydberg atom-based sensors with the ability to measure phase have made it possible to receive digital phase-modulated signals. In this letter, we demonstrate the reception of binary phase-shift keying, quadrature phase-shift keying, and quadrature amplitude modulation signals with an atom-based receiver. We present measured values of error vector magnitude as a function of symbol rate for various modulation schemes and discuss the bandwidth of a Rydberg atom-based receiver system. The results show that we can now interrogate ensembles of atoms to such extent that we can use them to receive data from a phase-modulated communication signal.
An assessment of the antigenic homogeneity of <i>Edwardsiella ictaluri</i> using monoclonal antibody (1988)

Abstract. Monoclonal antibodies were made against the reference strain of Edwardsiella ictaluri (ATCC 3320). Antibody produced by one of seven anti‐ E. ictaluri hybridomas reacted positively by the immunofluorescent antibody technique against 17 other E. ictaluri isolates. All hybridoma antibodies failed to react with six other bacterial species pathogenic to fish including E. tarda . Ouchterlony tests indicated that four anti‐ E. ictaluri clones produced only one kind of immunoglobulin. Electrophoresis of 14 different E. ictaluri isolates indicated identical protein bands at 36 and 60 kilodaltons (KD) in all isolates except an isolate from Thailand. Using the immunoblot method, channel catfish anti‐ E. ictaluri serum reacted with protein bands at 34 and 60 KD, which indicates that this molecular weight protein in the bacterium may be the dominant immunoprotein.
Genetic dissection of Al tolerance QTLs in the maize genome by high density SNP scan (2014)

High ZmMATE1 expression, controlled either by three copies of the target gene or by an unknown molecular mechanism, is responsible for Al tolerance mediated by qALT6. As Al tolerant alleles at qALT6 are rare in maize, marker-assisted introgression of this QTL is an important strategy to improve maize adaptation to acid soils worldwide.
Electrical Properties of 0.4 cm Long Single-Walled Carbon Nanotubes (2004)

Centimeter scale aligned carbon nanotube arrays are grown from nanoparticle/metal catalyst pads. We find the nanotubes grow both “with” and “against the wind”. A metal underlayer provides in situ electrical contact to these long nanotubes with no post growth processing needed. Using the electrically contacted nanotubes, we study electrical transport of 0.4 cm long nanotubes. The source−drain I−V curves are quantitatively described by a classical, diffusive model. Our measurements show that the outstanding transport properties of nanotubes can be extended to the cm scale and can open the door to large scale integrated nanotube circuits with macroscopic dimensions.
Artificial Neural Network Algorithm for Online Glucose Prediction from Continuous Glucose Monitoring (2010)

The proposed NNM is a reliable solution for the online prediction of future glucose concentrations from CGM data.
Characterization of the Giant Transient Dipole Generated by Photoinduced Electron Transfer in a Carotene−Porphyrin−Fullerene Molecular Triad (2003)

Excitation of a carotenoid (C) porphyrin (P) fullerene (C60) molecular triad yields the porphyrin first excited singlet state, C−1P−C60, which decays via a sequential two-step photoinduced electron-transfer process into a C•+−P−C60•- charge-separated state with a lifetime of 340 ns in 2-methyltetrahydrofuran solution. The transient dc photocurrent method has been used to investigate the dipole moment of the charge-separated state in tetrahydrofuran and 2-methyltetrahydrofuran. The results show formation of a giant dipole with a moment in excess of 150 D, corresponding to separated charges located on the fullerene and carotene moieties of the triad.
Flattened anatomy for interactive segmentation & measurement (2007)

Anatomical surfaces can be extracted from a volume of medical imagery through segmentation, which is the process of labeling image voxels according to the tissue type represented. Many anatomical surfaces can be described as 2-D manifolds embedded within 3-D space. The manifolds could be linear, such as a plane, or non-linear, such as a curved sheet. In some applications, it would be desirable for the user to be able to interact with the manifold by drawing upon it in some way. The purpose of this drawing could be to perform quantitative measurements such as to measure distances, surface areas, or volumes. The purpose could also be to analyze local properties of the 3-D surface at specific locations, where these properties include thickness and curvature.
Automating the Surveillance of Mosquito Vectors from Trapped Specimens Using Computer Vision Techniques (2020)

Among all animals, mosquitoes are responsible for the most deaths worldwide. Interestingly, not all types of mosquitoes spread diseases, but rather, a select few alone are competent enough to do so. In the case of any disease outbreak, an important first step is surveillance of vectors (i.e., those mosquitoes capable of spreading diseases). To do this today, public health workers lay several mosquito traps in the area of interest. Hundreds of mosquitoes will get trapped. Naturally, among these hundreds, taxonomists have to identify only the vectors to gauge their density. This process today is manual, requires complex expertise/ training, and is based on visual inspection of each trapped specimen under a microscope. It is long, stressful and self-limiting. This paper presents an innovative solution to this problem. Our technique assumes the presence of an embedded camera (similar to those in smart-phones) that can take pictures of trapped mosquitoes. Our techniques proposed here will then process these images to automatically classify the genus and species type. Our CNN model based on Inception-ResNet V2 and Transfer Learning yielded an overall accuracy of 80% in classifying mosquitoes when trained on 25, 867 images of 250 trapped mosquito vector specimens captured via many smart-phone cameras. In particular, the accuracy of our model in classifying Aedes aegypti and Anopheles stephensi mosquitoes (both of which are especially deadly vectors) is amongst the highest. We also present important lessons learned and practical impact of our techniques in this paper.