gebhart/patrepeval huggingface dataset:
Identification of a Gene Product Induced by Hard-Surface Contact of Colletotrichum gloeosporioides Conidia as a Ubiquitin-Conjugating Enzyme by Yeast Complementation (1998)

The germinating conidia of many phytopathogenic fungi on hosts must differentiate into an infection structure called the appressorium in order to penetrate their hosts. Chemical signals, such as the host's surface wax or fruit ripening hormone, ethylene, trigger germination and appressorium formation of the avocado pathogen Colletotrichum gloeosporioides only after the conidia are in contact with a hard surface. What role this contact plays is unknown. Here, we describe isolation of genes expressed during the early stage of hard-surface treatment by a differential-display method and report characterization of one of these cloned genes, chip1 (Colletotrichum hard-surface induced protein 1 gene), which encodes a ubiquitin-conjugating enzyme. RNA blots clearly showed that it is induced by hard-surface contact and that ethylene treatment enhanced this induction. The predicted open reading frame (ubc1Cg) would encode a 16.2-kDa ubiquitin-conjugating enzyme, which shows 82% identity to the Saccharomyces cerevisiae UBC4-UBC5 E2 enzyme, comprising a major part of total ubiquitin-conjugating activity in stressed yeast cells. UBC1Cg can complement the proteolysis deficiency of the S. cerevisiae ubc4 ubc5 mutant, indicating that ubiquitin-dependent protein degradation is involved in conidial germination and appressorial differentiation.
Fresh and Frozen Tissue-Engineered Three-Dimensional Bone–Ligament–Bone Constructs for Sheep Anterior Cruciate Ligament Repair Following a 2-Year Implantation (2016)

Injuries to the anterior cruciate ligament (ACL) often require surgical reconstruction utilizing tendon grafts to restore knee function and stability. Some current graft options for ACL repair are associated with poor long-term outcomes. Our laboratory has fabricated tissue-engineered bone-ligament-bone (BLB) constructs that demonstrate native ligament regeneration and advancement toward native ACL mechanical properties in a sheep ACL reconstruction model. Prior work has shown that freezing BLBs as a method of preservation resulted in similar outcomes compared with fresh BLBs after 6-month implantation. The purpose of this study was to evaluate the long-term efficacy of fresh and frozen BLBs. We hypothesized that both fresh and frozen BLBs would show continued regeneration of structural and functional properties toward those of native ACL after a 2-year implantation. Following removal of the native ACL, fresh (<i>n</i> = 2) and frozen (<i>n</i> = 2) BLBs were implanted arthroscopically. After 2 years of recovery, sheep were euthanized and both the experimental and contralateral hindlimbs were removed and radiographs were performed. Explanted knees were initially evaluated for joint laxity and were then further dissected for uniaxial tensile testing of the isolated ACL or BLB. Following mechanical testing, explanted contralateral ACL (C-ACL) and BLBs were harvested for histology. Two years post-ACL reconstruction, fresh and frozen BLBs exhibited similar morphological and biomechanical properties as well as more advanced regeneration compared with our 6-month recovery study. These data indicate that an additional 1.5-year regeneration period allows the BLB to continue ligament regeneration <i>in vivo</i>. In addition, freezing the BLBs is a viable option for the preservation of the graft after fabrication.
Coronavirus Disease 2019 Convalescent Plasma Utilization in the United States: Data From the National Inpatient Sample (2023)

Coronavirus disease 2019 (COVID-19) convalescent plasma (CCP) use between October and December 2020 was characterized using the National Inpatient Sample database. CCP was administered in 18.0% of COVID-19-associated hospitalizations and was strongly associated with older age and increased disease severity. There were disparities in the receipt of CCP by race and ethnicity, geography, and insurance.
ChemInform Abstract: Spirodiketopiperazines at the Anomeric Position of Mannopyranose: Novel N‐Linked Glycopeptides Incorporating an α‐Amino Acid at the Anomeric Position of Mannopyranose. (1996)

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.
Virtualization-Aware Traffic Control for Soft Real-Time Network Traffic on Xen (2021)

As the role of virtualization technology becomes more prevalent, the range of applications deployed in virtualized systems is steadily growing. This increasingly includes applications with soft real-time requirements that benefit from low and predictable latency, even when co-located with other virtualized hosts with arbitrary traffic patterns. In this paper, we examine the policies and mechanisms affecting communication latency between virtual machines based on the Xen platform, and identify limitations that can result in long or unpredictable network stack latency for virtual machines deployed on this platform. To address these limitations, we propose and implement <italic xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">VATC</i> , a <italic xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">Virtualization-Aware Traffic Control</i> framework that supports differentiation (via rate-limited prioritization) of outbound and inbound network traffic from co-located virtualized hosts. Results of our experiments show how and why VATC can offer predictable (soft) latency guarantees to applications running on virtualized hosts with minimum overhead.
Vibration response models of a stiffened aluminum plate excited by a shaker (2010)

Numerical models of structural-acoustic interactions are of interest to aircraft designers and the space program. This paper describes a comparison between two energy finite element codes, a statistical energy analysis code, a structural finite element code, and the experimentally measured response of a stiffened aluminum plate excited by a shaker. Different methods for modeling the stiffeners and the power input from the shaker are discussed. The results show that the energy codes (energy finite element and statistical energy analysis) accurately predicted the measured mean square velocity of the plate. In addition, predictions from an energy finite element code had the best spatial correlation with measured velocities. However, predictions from a considerably simpler, single subsystem, statistical energy analysis model also correlated well with the spatial velocity distribution. The results highlight a need for further work to understand the relationship between modeling assumptions and the prediction results.
A single six-port based automated network analyzer (2002)

A single six-port automated network analyzer (SPANA) is developed built and tested over UHF, L and S band. The SPANA includes a six-port junction operated as two differential channels receiver, and a test set which comprises a network of switches and directional couplers. By comparison to previous developed six-port based network analyzers, the SPANA uses only one single six-port junction and can perform simultaneous power and S parameter measurements with adjusted test-port impedances.
Fiber-Optic Vibrometer (1984)

The engeneerized prototipe of a fiber-optic sensor useful for vibration measurement in hostile environments is presented.The vibrometer is essentially based on a &quot;differential&quot; heterodyne Michelson-type interferometer in which the reference beam and the sensing beam are both guided, with orthogonal polarization, by the same single-mode polarization-holding fiber. Measurements of large vibration amplitudes of rough metal surface are reported.
On unifying some cryptographic protocol logics (2002)

We present a logic for analyzing cryptographic protocols. This logic encompasses a unification of four of its predecessors in the BAN family of logics, namely those given by Li Gong et al. (1990); M. Abadi, M. Tuttle (1991); P.C. van Oorschot (1993); and BAN itself (M. Burrows et al., 1989). We also present a model-theoretic semantics with respect to which the logic is sound. The logic presented captures all of the desirable features of its predecessors and more; nonetheless, it accomplishes this with no more axioms or rules than the simplest of its predecessors.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
NMR Analysis of the Mg2+-Binding Properties of Aequorin, a Ca2+-Binding Photoprotein (2005)

Aequorin, which is a calcium-sensitive photoprotein and a member of the EF-hand superfamily, binds to Mg2+ under physiological conditions, which modulates its light emission. The Mg2+ binding site and its stabilizing influence were examined by NMR spectroscopy. The binding of Mg2+ to aequorin prevented the molecule from aggregating and stabilized it in the monomeric form. To determine the structural differences between Mg2+-bound and free aequorin, we have performed backbone NMR assignments of aequorin in the Mg2+-free state. Mg2+ binding induces conformational changes that are localized in the EF-hand loops. The chemical shift difference data indicated that there are two Mg2+-binding sites, EF-hands I and III. The Mg2+ titration experiment revealed that EF-hand III binds to Mg2+ with higher affinity than EF-hand I, and that only EF-hand III seems to be occupied by Mg2+ under physiological conditions.
Appendiceal mucocoeles and pseudomyxoma peritonei (2007)

Mucocoele of the appendix occurs when obstruction of the appendiceal lumen results in mucus accumulation and consequent abnormal dilatation. The most important aetiology, from a surgical perspective, is either mucinous cystadenoma or cystadenocarcinoma. In the latter, a spontaneous or iatrogenic rupture of the mucocoele can lead to mucinous intraperitoneal ascites, a syndrome known as pseudomyxoma peritonei. Optimal management of mucoceles is achieved through accurate preoperative identification and subsequent careful resection. We report two cases and subsequently discuss the clinical presentation of mucocoeles, their association with pseudomyxoma peritonei and an optimal management of both conditions.
Understanding and engineering of NiGe/Ge junction formed by phosphorous ion implantation after germanidation (2014)

Modulation of the effective electron Schottky barrier height (eSBH) of NiGe/Ge contacts induced by phosphorous ion implantation after germanide formation was investigated by considering local inhomogeneity in the eSBH. Systematic studies of NiGe/Ge contact devices having various germanide thicknesses and ion implantation areas indicated the threshold dopant concentration at the NiGe/Ge interface required for eSBH modulation and negligible dopant diffusion even at NiGe/Ge interface during drive-in annealing, leading to variation in the eSBH between the bottom and sidewall portions of the NiGe regions. Consequently, this method makes it possible to design source/drain contacts with low-resistivity Ohmic and ideal rectifying characteristics for future Ge-based transistors.
Special Issue on Nonlinear-Optic Waveguide Materials and Devices. Fabrication Techniques for Electro-Optic Polymer Waveguides. (1993)

Electro-optic (EO) polymer waveguides are useful for optical circuit systems like inter-chip optical interconnections. They have many advantages such as potentiality of improving electro-optic coefficients, low dielectric constants, and capabilities of fabrication on various substrates and of construction of multi-layered structures. This paper describes vertical-type polymer optical switches we developed, which realize highly-integrated and multi-layered optical circuits. Two approaches we are trying for improving EO polymer materials are shown . One is to develop conventional poled polymers by screening nonlinear optical molecules using molecular orbital calculations. The other is to developing high-performance EO polymers including main-chain and conjugated polymers using vapor-phase film growth techniques which enable to control molecular order and alignment in polymers.
Action of Cytogenin on Lymphoid Cells and Their Cytokine Production. (1995)

Action of cytogenin on macrophages and T cells was investigated. Phagocytosis of yeast and production of PMA-elicited superoxide anion by macrophages taken from mice given cytogenin po were augmented. Cytogenin enhanced productions of IL-1 alpha by macrophages and IFN gamma and GM-CSF by spleen cells although it did not enhanced production of TNF alpha by macrophages and IL-6 by macrophages and spleen cells. Macrophages stimulated with cytogenin caused to stimulate proliferation of purified T cells in Intercell cultures in which each cell population was cultured without contact. Results suggest that cytogenin primarily activates macrophages to produce monokines such as IL-1 alpha and it causes to stimulate proliferation and differentiation of T cells resulting in production of lymphokines such as IFN gamma and GM-CSF.
Sulfur- and Selenium-Containing Compounds Derived from Natural and Synthetic Sources in Angiogenesis Modulation. (2004)

Abstract Increases in serum sulfate may explain some of the therapeutic effects of methylsulfonyl methane (MSM), dimethyl sulfoxide, and glucosamine sulfate. Organic sulfur, as sulfur-containing amino acids, can be used to increase synthesis of S-adenosylmethionine, glutathione, taurine, and N-acetylcysteine. MSM may be effective for the treatment of allergy, pain syndromes, athletic injuries, and bladder disorders. Epidemiological studies have suggested that brassica vegetables are protective against cancers of the lungs and alimentary tract. Cruciferous vegetables are the dietary source of glucosinolates, a large group of sulfur-containing glycosides. However, dosages, mechanisms of action, and rationales for the use of various sulfur-containing compounds from natural or food products need to be better defined. The low toxicological profiles of these sulfur compounds, combined with promising therapeutic effects, warrant continued preclinical and clinical investigations. In this current study the angiostatic (antiangiogenesis) efficacy for individual sulfur-containing compounds derived from natural or synthetic sources was determined using in vitro (endothelial cell [EC] tube formation assay) and in vivo (chick chorioallantoic membrane [CAM] model). In vitro EC tube formation studies demonstrated significant inhibition of fibroblast growth factor-2 (FGF-2) stimulated EC tube formation by the different sulfur- and selenium-containing compounds, with different potency depending on the oxidation state of the sulfur or selenium. Furthermore, utilizing the CAM model, similar inhibitory efficacy of FGF-2 induced angiogenesis. These data suggest that sulfur and selenium compounds derived from natural sources might be a useful therapy for the inhibition of angiogenesis associated with human tumor growth and other pathological angiogenesis-mediated disorders, such as ocular and inflammatory diseases. Antiangiogenesis Efficacy of Sulfone/Sulfoxide and Selenone/Selenoxide in the Chick Chorioallantoic Membrane Model Treatment Branch Points ± SEM % Inhibition ± SEM FGF = fibroblast growth factor; PBS = phosphate-buffered saline. PBS control 64.67 ± 3.00 ----- FGF-2 (1.5 ug/ml) 178.20 ± 5.32 ----- FGF-2 + diphenyl sulfoxide (100 uM) 145.65 ± 11.10 34.12 ± 4.8 FGF-2 + diphenyl sulfone (3 uM) 82.56 ± 4.4 84.25 ± 3.6 FGF-2 + dimethyl selenoxide (30 uM) 120.86 ± 3.1 50.74 ± 2.7 FGF-2 + dimethyl selenone (3 uM) 71.63 ± 3.8 93.87 ± 3.3
Characterization of the physical and electrical properties of Indium tin oxide on polyethylene napthalate (2005)

Indium tin oxide (ITO) thin films, on polyethylene napthalate (PEN) of both good electrical and optical properties were obtained by radio-frequency sputtering. The optoelectronic properties of the ITO films on PEN substrate were evaluated in terms of the oxygen content and the surface morphology. Rutherford backscattering spectrometry analysis was used to determine the oxygen content in the film. Hall-effect measurements were used to evaluate the dependence of electrical properties on oxygen content. The results showed that the resistivity of the ITO film increases with increasing oxygen content. For an oxygen content of 1.6×1018–2.48×1018atoms∕cm2, the resistivity varied from 0.38×10−2to1.86×10−2Ωcm. Typical resistivities were about ∼10−3Ωcm. UV-Vis spectroscopy and atomic force microscopy measurements were used to determine the optical transmittance and surface roughness of ITO films, respectively. Optical transmittances of ∼85% were obtained for the ITO thin films. Our results revealed that substrate roughness were translated onto the deposited ITO thin layers. The ITO surface roughness influences both the optical and electrical properties of the thin films. For a 125μm PEN substrate the roughness is 8.4nm, whereas it is 3.2nm for 200μm substrate thicknesses. The optical band gap is about 3.15eV for all ITO film and is influenced by the polymer substrate. A model is proposed that the optical transmittance in the visible region is governed by the carrier concentration in the ITO thin films.
A Distortion Based Approach for Protecting Inferences (2017)

Eavesdropping attacks in inference systems aim to learn not the raw data, but the system inferences to predict and manipulate system actions. We argue that conventional information security measures can be ambiguous on the adversary's estimation abilities, and adopt instead a distortion based framework that enables to operate over a metric space. We show that requiring perfect distortion-based security is more frugal than requiring perfect information-theoretic secrecy even for block length one codes, offering in some cases unbounded gains. Within this framework, we design algorithms that enable to efficiently use shared randomness, and show that each bit of shared random key is exponentially useful in security.
Recurrent and Unrelieved Carpal-tunnel Syndrome (1972)

*Resident in Orthopedic Surgery, Mayo Graduate School of Medicine, University of Minnesota, Rochester, Minnesota †Department of Orthopedics, Mayo Clinic and Mayo Foundation, Rochester, Minnesota
RESEARCH REPORT: INSPECTING FRP COMPOSITE STRUCTURES WITH NONDESTRUCTIVE TESTING (2001)

Structural plastics and composites such as fiber reinforced polymers (FRP) represent a broad class of materials finding increased use in bridge and highway related applications. These materials offer important advantages, including corrosion resistance and formability. A number of bridge-related research and construction projects involving composites have begun at the Texas Department of Transportation (TxDOT) and in other states and countries in recent years, demonstrating the rapidly expanding use and interest in these materials. As the use of composites is implemented in TxDOT structures, TxDOT must conduct quality assurance testing to ensure structural integrity of the products, much in the same way TxDOT already does with steel and composite structures. Nondestructive testing, especially the acoustic emission method (AE) offers great promise for inspecting FRP structures to ensure integrity. AE testing is used very successfully in quality assurance testing of pressure vessels, and research is needed to adapt this method to the type of composite structures that will be used in highway applications and to consider other methods that might be suitable to structural composites. This research involved testing of large structural elements to determine the effectiveness of AE and other methods in quality assurance testing of composite structural elements for highways and to develop a protocol for quality assurance testing that could be applied to actual composite members. Damage was induced in these structures so that performance and results could be evaluated under different conditions. Secondary bonds and connections were tested and joints in various locations were evaluated.
Evaluation of a computational model to predict elbow range of motion (2014)

Computer models capable of predicting elbow flexion and extension range of motion (ROM) limits would be useful for assisting surgeons in improving the outcomes of surgical treatment of patients with elbow contractures. A simple and robust computer-based model was developed that predicts elbow joint ROM using bone geometries calculated from computed tomography image data. The model assumes a hinge-like flexion-extension axis, and that elbow passive ROM limits can be based on terminal bony impingement. The model was validated against experimental results with a cadaveric specimen, and was able to predict the flexion and extension limits of the intact joint to 0° and 3°, respectively. The model was also able to predict the flexion and extension limits to 1° and 2°, respectively, when simulated osteophytes were inserted into the joint. Future studies based on this approach will be used for the prediction of elbow flexion-extension ROM in patients with primary osteoarthritis to help identify motion-limiting hypertrophic osteophytes, and will eventually permit real-time computer-assisted navigated excisions.
Calibration of integrated CMOS hall sensors using coil-on-chip in ATE environment (2008)

Due to high demand for hall sensors mostly in the automotive and industrial applications, development and manufacturing of hall sensors in System-on-Chip (SoC) became more important. On the other hand, options for test and characterization of hall sensors in manufacturing environment are very limited. In most cases external field generators are used in order to characterize the hall sensors on a small set of production samples. In this paper, we present our Coil-on-Chip (CoC) calibration methodology where there is no need for a dedicated setup/assembly. Our methodology is also immune to self-heating. Our methodology enables reduced costs in test equipment, 100% screening of hall sensors in manufacturing tests, and reliable trimming of sensitivity spread over temperature from -40°C to 150°C. Measurement results before trimming show less than 20% six-sigma spread for normalized sensitivity across 120 samples of different hall sensor structures processed in a 0.35 μm high-voltage CMOS process.
Self-Pulsing Nanobeam Photonic Crystal Laser (2022)

Self pulsing in the GHz range is achieved in a Semiconductor Nanolaser integrated on a Silicon Photonic Circuit whereby saturable absorption is obtained by selective optical puming.