gebhart/patrepeval huggingface dataset:
Raman Nanoparticle Probes for Antibody-based Protein Detection in Tissues (2007)

Surface-enhanced Raman scattering (SERS) nanoparticles are emerging as a new approach for optical detection of biomolecules. In a model assay in formalin-fixed paraffin-embedded (FFPE) prostate tissue sections, we detect prostate-specific antigen (PSA) using antibody (Ab) conjugated to composite organic-inorganic nanoparticles (COINs), and we use identical staining protocols to compare COIN-Ab and Alexa-Ab conjugates in adjacent tissue sections. Spectral analysis illustrates the fundamental difference between fluorescence and Raman signatures and accurately extracts COIN probe signals from background autofluorescence. Probe signals are used to generate images of PSA expression on the tissue, and quality measures are presented to characterize the performance of the COIN assay in comparison to Alexa. Staining accuracy (ability to correctly identify PSA expression in epithelial cells) is somewhat less for COIN than Alexa, which is attributed to an elevated false negative rate of the COIN. However, COIN provided signal intensities comparable to Alexa, and good intra-, inter-, and lot-to-lot consistencies. Overall, COIN and Alexa detection reagents possess similar performance with FFPE tissues, supporting the further development of Raman probes for this application. This manuscript contains online supplemental material at http://www.jhc.org. Please visit this article online to view these materials.
Nucleotide sequence of the fim3 gene fromBordetella pertussisand homology to fim2 and fimX gene products (1990)

Journal Article Nucleotide sequence of the fim3 gene from Bordetella pertussis and homology to fim2 and fimX gene products Get access A. Cuzzoni, A. Cuzzoni Genetic Engineering and Microbiology LaboratoryEniricerche SpA, Via F. Maritano, 26–20097 S.Donato Milanese, Italy Search for other works by this author on: Oxford Academic PubMed Google Scholar P. Pedroni, P. Pedroni Genetic Engineering and Microbiology LaboratoryEniricerche SpA, Via F. Maritano, 26–20097 S.Donato Milanese, Italy Search for other works by this author on: Oxford Academic PubMed Google Scholar B. Riboli, B. Riboli Genetic Engineering and Microbiology LaboratoryEniricerche SpA, Via F. Maritano, 26–20097 S.Donato Milanese, Italy Search for other works by this author on: Oxford Academic PubMed Google Scholar G. Grandi, G. Grandi Genetic Engineering and Microbiology LaboratoryEniricerche SpA, Via F. Maritano, 26–20097 S.Donato Milanese, Italy Search for other works by this author on: Oxford Academic PubMed Google Scholar F. de Ferra F. de Ferra Genetic Engineering and Microbiology LaboratoryEniricerche SpA, Via F. Maritano, 26–20097 S.Donato Milanese, Italy Search for other works by this author on: Oxford Academic PubMed Google Scholar Nucleic Acids Research, Volume 18, Issue 6, 25 March 1990, Page 1640, https://doi.org/10.1093/nar/18.6.1640 Published: 25 March 1990 Article history Received: 06 February 1990 Published: 25 March 1990
Distinctive Features of Foreskin Condylomata Acuminata Associated with Diabetes Mellitus (2008)

The aim of this study was to test the hypothesis that particular clinical features of foreskin condylomata acuminata in Chinese male patients are associated with diabetes. A prospective study enrolled 126 men presenting with foreskin condylomata acuminata from 2001 to 2006. Mean age was 46 years (age range 25-74 years) and mean duration of disease was 4.8 months (range 1-18 months). Patients were divided into two groups according to clinical features. In group 1, 42 men had distinctive signs such as redundant prepuce, crown warts circling the entire preputial ring, maceration, fissures, phimosis and balanitis, and 37 of 42 (88%) patients were found to have concurrent type 2 diabetes, furthermore 32 of these 37 patients had an insidious onset and were previously undiagnosed. In group 2, 84 male patients did not have those distinctive clinical features and type 2 diabetes was found in only 10 cases (11.9%, p<0.0001, Fisher's exact test). These clinical features strongly suggest the presence of diabetes. Therapy should address diabetes and condylomata concurrently.
Feasibility and safety assessment of magnetic resonance-guided high-intensity focused ultrasound (MRgHIFU)-mediated mild hyperthermia in pelvic targets evaluated using an in vivo porcine model (2019)

<b>Purpose:</b> To evaluate the feasibility and assess safety parameters of magnetic resonance-guided high-intensity focused ultrasound (MRgHIFU)-mediated hyperthermia (HT; heating to 40-45 °C) in various pelvic targets in a porcine model <i>in vivo</i>.<b>Methods:</b> Thirteen HT treatments were performed in six pigs with a commercial MRgHIFU system (Sonalleve V2, Profound Medical Inc., Mississauga, Canada) to muscle adjacent to the ventral/dorsal bladder wall and uterus to administer 42 °C (±1°) for 30 min (±5%) using an 18-mm target diameter and 100 W power. Feasibility was assessed using accuracy, uniformity, and MR-thermometry performance-based metrics. Safety parameters were assessed for tissues in the targets and beam-path by contrast-enhanced MRI, gross-pathology and histopathology.<b>Results:</b> Across all HT sessions, the mean difference between average temperature (T<sub>avg</sub>) and the target temperature within the target region-of-interest (tROI, the cross-section of the heated volume at focal depth) was 0.51 ± 0.33 °C. Within the tROI, the temperature standard deviation averaged 1.55 ± 0.31 °C, the average 30-min T<sub>avg</sub> variation was 0.80 ± 0.17 °C, and the maximum difference between T<sub>avg</sub> and the 10th- or 90th-percentile temperature averaged 2.01 ± 0.44 °C. The average time to reach ≥41 °C and cool to ≤40 °C within the tROI at the beginning and end of treatment was 47.25 ± 27.47 s and 66.37 ± 62.68 s, respectively. Compared to unheated controls, no abnormally-perfused tissue or permanent damage was evident in the MR images, gross pathology or histological analysis.<b>Conclusions:</b> MRgHIFU-mediated HT is feasible and safety assessment is satisfactory for treating an array of clinically-mimicking pelvic geometries in a porcine model <i>in vivo</i>, implying the technique may have utility in treating pelvic targets in human patients.
A MICROFLUIDIC PLATFORM FOR AUTOMATED MICROPARTICLE LABEL IMMUNOASSAYS (2011)

We present a microfluidic device for immunoassays based on microparticle labeling using microvalve-control structures. Programmable microvalve control in a multilayer structure provides automated sample delivery, adjustable hydrodynamic washing and diverse substrate compatibility. Antibody derivatized surfaces within the processor capture the target antigen, and magnetic microspheres conjugated with a detection antibody are used as labels in a capture-sandwich format. We demonstrate automated microfluidic immunoassays for mouse immunoglobulin (IgG) and human prostate specific antigen (PSA) with limits of detection (LOD) of 1.8 and 3 pM, respectively.
Effect of linear absorption on self-focusing (1988)

We report the effect of linear absorption on self-focusing. Our experimental results show that power loss due to linear absorption before focus is responsible for the increase in the threshold power for self-focusing and that the critical power is independent of the linear absorption.
Convergence of three parcellation approaches demonstrating cerebellar lobule volume deficits in Alcohol Use Disorder (2019)

Recent advances in robust and reliable methods of MRI-derived cerebellar lobule parcellation volumetry present the opportunity to assess effects of Alcohol Use Disorder (AUD) on selective cerebellar lobules and relations with indices of nutrition and motor functions. In pursuit of this opportunity, we analyzed high-resolution MRI data acquired in 24 individuals with AUD and 20 age- and sex-matched controls with a 32-channel head coil using three different atlases: the online automated analysis pipeline volBrain Ceres, SUIT, and the Johns Hopkins atlas. Participants had also completed gait and balance examination and hematological analysis of nutritional and liver status, enabling testing of functional meaningfulness of each cerebellar parcellation scheme. Compared with controls, each quantification approach yielded similar patterns of group differences in regional volumes: All three approaches identified AUD-related deficits in total tissue and total gray matter, but only Ceres identified a total white matter volume deficit. Convergent volume differences occurred in lobules I-V, Crus I, VIIIB, and IX. Coefficients of variation (CVs) were <20% for 46 of 56 regions measured and in general were graded: Ceres<SUIT<Hopkins. The most robust correlations were identified between poorer stability in balancing on one leg and smaller lobule VI and Crus I volumes from the Ceres atlas. Lower values of two essential vitamins-thiamine (vitamin B1) and serum folate (vitamin B9)-along with lower red blood cell count, which are dependent on adequate levels of B vitamins, correlated with smaller gray matter volumes of lobule VI and Crus I. Higher γ-glutamyl transferase (GGT) levels, possibly reflecting compromised liver function, correlated with smaller volumes of lobules VI and X. These initial results based on high resolution data produced with clinically practical imaging procedures hold promise for expanding our knowledge about the relevance of focal cerebellar morphology in AUD and other neuropsychiatric conditions.
Chinese herb pair Paeoniae Radix Alba and Atractylodis Macrocephalae Rhizoma suppresses LPS-induced inflammatory response through inhibiting MAPK and NF-κB pathway (2019)

Our findings demonstrated that OPAE suppressed inflammatory responses in LPS-stimulated RAW 264.7 macrophages by decreasing critical molecules involved in MAPK and NF-κB pathway, suggesting that the herb pair could be a promising therapeutic candidate for inflammation-related diseases.
Esculetin Restores Mitochondrial Dysfunction and Reduces Allergic Asthma Features in Experimental Murine Model (2009)

We recently showed that IL-4-dependent oxidative stress and mitochondrial dysfunction are associated with allergic asthma. IL-4 also induces a prooxidant enzyme, 15-lipoxygenase, which predominantly expresses in asthmatic bronchial epithelium and degrades mitochondria. Esculetin (6,7-dihydroxy-2H-1-benzopyran-2-one), a plant-derived coumarin and immunomodulator, was found to have potent bronchodilating property in carbachol-induced bronchoconstriction and also reduces mitochondrial dysfunction in neurological diseases. In this study, we evaluated its potential in restoring mitochondrial dysfunction and structural changes and anti-asthma property in a mouse model of experimental asthma. In this study, we found that esculetin treatment reduced airway hyperresponsiveness, Th2 response, lung eotaxin, bronchoalveolar lavage fluid eosinophilia, airway inflammation, and OVA-specific IgE. It also reduced the expression and metabolites of 15-lipoxygenase and lipid peroxidation which is an essential prerequisite for mitochondrial dysfunction. Interestingly, esculetin treatment restored the activity of cytochrome c oxidase of electron transport chain in lung mitochondria and expression of the third subunit of cytochrome c oxidase of electron transport chain in bronchial epithelium. It reduced the cytochrome c level and caspase 9 activity in lung cytosol and restored mitochondrial structural changes and lung ATP levels. In addition, esculetin reduced subepithelial fibrosis and TGF-beta1 levels in the lung. These results suggest that esculetin not only restores mitochondrial dysfunction and structural changes but also alleviates asthmatic features.
Glucose oxidase-like activity of cerium oxide nanoparticles: use for personal glucose meter-based label-free target DNA detection (2020)

Recently, personal glucose meter (PGM) has been utilized for the detection of non-glucose targets for point-of-care (POC) testing. Aimed at this goal, we herein developed a new PGM-based label-free read-out method for polymerase chain reaction (PCR) based on our novel finding that cerium oxide nanoparticles (CeO<sub>2</sub> NPs) exhibit glucose oxidase-like activity comparable to the natural glucose oxidase enzyme. <b>Methods</b>: In principle, DNA amplicons produced by PCR in the presence of target DNA electrostatically bind to CeO<sub>2</sub> NPs, leading to their aggregation and reducing the efficiency for CeO<sub>2</sub> NP-catalyzed glucose oxidation reaction. Thus, glucose is hardly oxidized to gluconic acid, resulting in the maintenance of initial high glucose level. On the contrary, in the absence of target DNA or presence of non-target DNA, DNA amplicons are not produced and glucose is effectively oxidized by the glucose oxidase-like activity of CeO<sub>2</sub> NPs, leading to the significant reduction of glucose level. Finally, the resulting glucose level is simply measured by using PGM. <b>Results</b>: With this strategy, DNA amplicons were quantitatively examined within <i>5</i> min, realizing ultrafast analysis of PCR results without any cumbersome and labor-intensive procedures. In addition, the target genomic DNA derived from <i>Escherichia coli</i> (<i>E. coli</i>) was sensitively determined down to <i>10</i> copies with high selectivity. <b>Conclusion</b>: Importantly, the use of PGM as a detection component enables its direct application in POC settings. Based on the meritorious features of PGM such as rapidity, simplicity, and cost-effectiveness, we expect that the devised system could serve as a core platform for the on-site read-out of PCR amplification.
Distribution of Ocular Perfusion Pressure and Its Relationship with Open-Angle Glaucoma: The Singapore Malay Eye Study (2010)

PURPOSE. To describe the distribution of ocular perfusion pressure and its relationship with open-angle glaucoma (OAG) in a Malay population. METHODS. This was a population-based, cross-sectional study comprising 3280 (78.7% response) ethnic Malays. Intraocular pressure (IOP) was measured with Goldmann applanation tonometry. Systolic and diastolic blood pressure (SBP and DBP) was measured with a digital automatic blood pressure monitor. Mean ocular perfusion pressure (MOPP) = (2/3)(mean arterial pressure - IOP), where mean arterial pressure (MAP) = DBP + (1/3)(SBP - DBP), systolic perfusion pressure (SPP) = SBP - IOP, and diastolic perfusion pressure (DPP) = DBP - IOP, was calculated. The diagnosis of OAG was based on International Society for Geographical and Epidemiologic Ophthalmology criteria. RESULTS. A total of 3261 persons (mean age, 58.7 +/- 11 years, including 131 [4.0%] cases of OAG) were available for analyses. Among persons without glaucoma, the mean +/- SD IOP, MOPP, SPP, and DPP were 15.3 +/- 3.5, 52.8 +/- 9.3, 131.5 +/- 23.3, and 64.5 +/- 11.3 mm Hg, respectively. Among persons with OAG, the corresponding values were 16.8 +/- 5.9, 51.6 +/- 10.2, 134.5 +/- 24.6, and 61.4 +/- 11.5 mm Hg, respectively. In multiple logistic regression models adjusting for IOP, age, sex, and IOP- and BP-lowering treatments, OAG risk was significantly higher in participants with DBP, MOPP, or DPP in the lowest quartile (Q1) than in participants in the highest quartile (Q4) (Q1 vs. Q4: odds ratio [OR], 1.71 [95% confidence interval (CI), 1.04-2.96] for DBP; OR, 1.73 [95% CI, 1.05-3.15] for MOPP; OR, 1.75 [95% CI, 1.02-3.01] for DPP). CONCLUSIONS. Low DBP, low MOPP, and low DPP are independent risk factors for OAG in ethnic Malays, providing further evidence of a vascular mechanism in glaucoma pathogenesis across different populations.
Integrating Text and Image: Determining Multimodal Document Intent in Instagram Posts (2019)

Julia Kruk, Jonah Lubin, Karan Sikka, Xiao Lin, Dan Jurafsky, Ajay Divakaran. Proceedings of the 2019 Conference on Empirical Methods in Natural Language Processing and the 9th International Joint Conference on Natural Language Processing (EMNLP-IJCNLP). 2019.
Use of Raman spectroscopy for continuous monitoring and control of lignocellulosic biorefinery processes (2014)

Abstract The production of fuels and chemicals from lignocellulosic biomass demands efficient processes to compete with fossil fuel-derived products. Key biorefinery processes, such as enzymatic hydrolysis of cellulose and microbial fermentation, can be monitored by advanced sensors in real time, providing information about reactant and product concentration, contamination, and reaction progress. Spectroscopic techniques such as Raman spectroscopy provide a means of quickly and accurately assessing many types of reaction mixtures non-destructively, in real time, and with no costly sample preparation and analysis time. Raman spectroscopy techniques have been developed to accurately quantify a number of compounds present in lignocellulosic processes, and methods have been developed to overcome the presence of fluorescent compounds that can increase the spectral background. Online Raman sensors also can provide the feedback measurements necessary for advanced process controls (APCs). Specifically, model predictive control, a common APC used extensively throughout similar processing industries, is especially well suited for ensuring optimal production of bio-based chemicals from lignocellulosic material.
“Plastic” Solar Cells: Self-Assembly of Bulk Heterojunction Nanomaterials by Spontaneous Phase Separation (2009)

As the global demand for low-cost renewable energy sources intensifies, interest in new routes for converting solar energy to electricity is rapidly increasing. Although photovoltaic cells have been commercially available for more than 50 years, only 0.1% of the total electricity generated in the United States comes directly from sunlight. The earliest commercial solar technology remains the basis for the most prevalent devices in current use, namely, highly-ordered crystalline, inorganic solar cells, commonly referred to as silicon cells. Another class of solar cells that has recently inspired significant academic and industrial excitement is the bulk heterojunction (BHJ) "plastic" solar cell. Research by a rapidly growing community of scientists across the globe is generating a steady stream of new insights into the fundamental physics, the materials design and synthesis, the film processing and morphology, and the device science and architecture of BHJ technology. Future progress in the fabrication of high-performance BHJ cells will depend on our ability to combine aspects of synthetic and physical chemistry, condensed matter physics, and materials science. In this Account, we use a combination of characterization tools to tie together recent advances in BHJ morphology characterization, device photophysics, and thin-film solution processing, illustrating how to identify the limiting factors in solar cell performance. We also highlight how new processing methods, which control both the BHJ phase separation and the internal order of the components, can be implemented to increase the power conversion efficiency (PCE). The failure of many innovative materials to achieve high performance in BHJ solar cell devices has been blamed on "poor morphology" without significant characterization of either the structure of the phase-separated morphology or the nature of the charge carrier recombination. We demonstrate how properly controlling the "nanomorphology", which is critically dependent on minute experimental details at every step, from synthesis to device construction, provides a clear path to >10% PCE BHJ cells, which can be fabricated at a fraction of the cost of conventional solar cells.
Improving the parallelization efficiency of HEVC decoding (2012)

In this paper we present a new parallelization approach for HEVC decoding called Overlapped Wavefront (OWF). It is based on wavefront processing and improves its parallelization efficiency by allowing overlapped execution of consecutive pictures. Furthermore, in this strategy of the decoding steps are performed on a CTB basis rather than on a picture basis, which improves data locality. Our implementation achieves between 29.6%, 42.4%, and 66.6% higher frame rates compared to previous results and 11.3%, 21.0%, and 38.0% higher frame rates compared to Tiles, for 2160p, 1600p, and 1080p, respectively.
Indirect antiglobulin paper test for red blood cell antigen typing by flow-through method (2015)

Simple flow-through based indirect antiglobulin paper test.
Bladder Rupture during Voiding Cystourethrography (2007)

17개월 남아 환자가 방사선 동위원소를 이용한 배뇨중방 광요도조영술 도중 복강 내로의 비정상적인 방사선 동위원 소 누출로 전과되었다. 과거력에서 생후 3개월 때 좌측 신 우신염의 기왕력이 있었고 당시 시행한 배뇨중방광요도조 영술에서 좌측으로의 grade I 방광요관역류를 진단 받았으 며, 신초음파와 신주사상 특이소견은 없었다. 예방적 항균 치료를 시행하였으며 도중에 요로로감염은 없었다. 추적검 사로 방사선 동위원소를 이용한 배뇨중방광요도조영술을 시행하였다. 6Fr 도뇨관 (Foley catheter)을 요도에 삽입하고 잔뇨를 제거한 후 방사선 동위원소와 생리식염수를 혼합한 용액 100cc를 주사기를 이용해 주입하고 도뇨관을 제거하 였다. 배뇨기에 갑작스런 복강 내 비정상적인 방사선 동위 원소 누출이 관찰되었다 (Fig. 1). 신체검사에서 복부 팽만 이 있었으며 압통이 있었다. 확진을 위해 조영제를 이용한 배뇨중방광요도조영술을 받았으며 복강 내로의 방광파열 로 진단되었다 (Fig. 2). 환아는 응급수술을 시행하였고 방 광 천정부에 약 1.5cm의 복강 내로의 방광파열 소견을 보여 파열부를 봉합하였으며 다른 부위의 방광은 정상 소견을 보였다. 술 후 7일째 도뇨관을 제거하였으며, 현재까지 자 연배뇨를 잘 하고 있다.
Transparent superhydrophobic surfaces for applications of controlled reflectance (2012)

This work involves a new optical application for transparent superhydrophobic materials, which enables low-energy optical contact between a liquid and solid surface. The new technique described here uses this surface property to control the reflectance of a surface using frustration of total internal reflection. Surface chemistry and appropriate micro-scale and nano-scale geometries are combined to produce interfaces with low adhesion to water and the degree to which incident light is reflected at this interface is controlled by the movement of water, thereby modifying the optical characteristics at the interface. The low adhesion of water to superhydrophobic surfaces is particularly advantageous in imaging applications where power use must be minimized. This paper describes the general approach, as well as a proof-of-principle experiment in which the reflectance was controlled by moving a water drop into and out of contact with a superhydrophobic surface by variation of applied electrostatic pressure.
55-&#x00B5;A Ge<inf>x</inf>Te<inf>1&#x2212;x</inf>/Sb<inf>2</inf>Te<inf>3</inf> superlattice topological-switching random access memory (TRAM) and study of atomic arrangement in Ge-Te and Sb-Te structures (2014)

Ge <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">x</sub> Te <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1-x</sub> /Sb <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> Te <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> superlattice topological-switching random access memory (TRAM) was developed. Set and reset currents of 55 μA, the lowest for an ULSI-grade device, were obtained. TEM analyses of the Ge-Te structures and novel superlattice fabrication enabled us to reveal the retention, endurance, and electrical characteristics of TRAM for the first time.
Physiologic responses and plasma endothelin-1 concentrations associated with abrupt cessation of nitric oxide inhalation in isoflurane-anesthetized horses (2008)

The improvement in arterial oxygenation during pulsed inhalation of NO to healthy isoflurane-anesthetized horses decreased only gradually during a 30-minute period following cessation of NO inhalation, and serum ET-1 concentration was not affected. Because a rapid rebound response did not develop, inhalation of NO might be clinically useful in the treatment of hypoxemia in healthy isoflurane-anesthetized horses.
Oxidation of α,β‐Unsaturated Esters and Lactones with Selenium Dioxide to γ‐Oxo or γ‐Hydroxy Derivatives; Synthesis of (±)‐A 26771 B and Norpyrenophorin (1985)

The γ-oxo α,β-unsaturated lactone moiety COCHCHCOO, which occurs in many macrolide antibiotics, can be synthesized by multicomponent reaction (see previous communication) and oxidation of the lactones thus obtained with SeO2. An example is norpyrenophorin 1. The Oxidation with SeO2/3% H2O yields γ-hydroxy derivatives.