gebhart/patrepeval huggingface dataset:
Inhibition of Endothelial Cell Expression of Plasminogen Activator Inhibitor Type-1 by Gemfibrozil (1993)

Increased concentrations of plasminogen activator inhibitor type-1 (PAI-1) in plasma are associated with impaired fibrinolysis and venous and arterial thrombo-embolic disease. In pilot studies designed to identify pharmacologic approaches capable of diminishing such increases, we found that gemfibrozil attenuated the stimulation of synthesis of PAI-1 in a human, immortal, hepatoma cell line (Hep G2) induced by platelets. The present study was performed to determine whether it exerts analogous effects in non-immortal endothelial cells and whether it may therefore facilitate fibrinolysis locally in vivo. Human umbilical vein endothelial cells were incubated with pharmacologic concentrations of gemfibrozil. Gemfibrozil, 100 microM, suppressed basal PAI-1 production by 15% and attenuated the augmentation of synthesis of PAI-1 induced by lysates from platelets (4 x 10(7)/ml) by 36% over 24 h without inhibiting overall protein synthesis. In addition, the increases in PAI-1 mRNA otherwise induced by platelet lysates over 6 h were suppressed by 49% (Northern blots) without any demonstrable change in the intracellular half-life of PAI-1 mRNA. Pulse-chase experiments demonstrated diminution of PAI-1 protein synthesis in parallel with the changes observed in PAI-1 mRNA. To determine whether these effects of gemfibrozil on endothelial cells in vitro were paralleled by consistent changes in the concentrations of PAI-1 in plasma in vivo, we studied rabbits with induced carotid artery thrombosis and thrombolysis.(ABSTRACT TRUNCATED AT 250 WORDS)
Detection of ≥1 Mb microdeletions and microduplications in a single cell using custom oligonucleotide arrays (2012)

Aneuploidy and genomic imbalances with CNVs as small as 1.2Mb in a single cell are detectable by array CGH using arrays with high-density coverage in the targeted regions. This approach has the potential to be applied for preimplantation genetic diagnosis to detect aneuploidy and common microdeletion/duplication syndromes and for noninvasive prenatal diagnosis if single fetal cells can be isolated.
A 10–50-GHz CMOS Distributed Step Attenuator With Low Loss and Low Phase Imbalance (2007)

This paper presents the design and measurement of a 10-50-GHz low-loss distributed CMOS step attenuator with low phase imbalance. The attenuation is controlled by 12 nMOS varistors, and the nMOS parasitics are absorbed in a synthetic transmission line to result in a wide bandwidth. The electrical distance between the varistors is explored to minimize the size of the distributed attenuator, and a method to balance the insertion phase is presented. At 33-37 GHz, the minimum attenuation state loss is 2.1 dB, and the maximum attenuation state loss is 13.0 dB. The attenuator has a maximum attenuation range of 11 dB with 0.9-dB steps (13 states). The rms phase imbalance is less than 3 at DC-50 GHz for all attenuation states. The attenuator does not consume any static power and the input 1-dB compression point is 5 dBm (defined as the 1-dB drop in the maximum attenuation range) at 20 GHz. The total chip size excluding pads is 200750 (0.15).
Early recovery of frontal EEG slow wave activity during propofol sedation predicts outcome after cardiac arrest (2021)

EEG SWA measured with C-Trend Index during propofol sedation offers a promising practical approach for early bedside evaluation of recovery of brain function and prediction of outcome after CA.
Pyrido [2,3-d] thieno [3,2-b] [6H]thiopyran - ein neues heterocyclisches Ringsystem [1] / Pyrido [2,3-d]thieno[3,2-b] [6 H]thiopyran - a New Heterocyclic Ring System [1] (1979)

Abstract UV irradiation of S-(3′-thienyl)2-chloro-thionicotinate (1) in benzene solution leads via dehydrohalogenation and cy clization in competition to α-cleavage to formation of thio-lactone 2 besides aldehyde 3 and disulphide 4. 2 contains a new heterocyclic ring system which has been confirmed by spectroscopic methods.
Survey of Minimally Invasive Surgery Fellowship Programs (2006)

Minimally invasive surgery fellowships seem to be competitive for surgical residents. These fellowships vary in both research and clinical experience.
Lightweight Materials for Mooring Lines of Deepwater Tension Leg Platforms (1984)

The design of a mooring system for tension leg platforms (TLPs) becomes more complicated as water depth increases. The use of steel mooring lines requires complicated tensioning, handling, and flotation systems. This paper discusses the basic design requirements for the TLP mooring system and identifies several advanced fiber-reinforced lightweight materials as alternatives to steel. High-modulus carbon fiber/KevlarcircleR fiber hybrid composites and Kevlar ropes appear to offer the optimum mooring systems for TLPs used in the development of large and medium-size reservoirs, respectively.
Apoplastic fungal effectors in historic perspective; a personal view (2016)

See also the Commentary on this article by Ökmen &amp; Doehlemann, 212: 799–801 .
Antioxidative effects of .ALPHA.-tocopherol and riboflavin-butyrate in rats dosed with methyl linoleate hydroperoxide. (1983)

The antioxidative effects of dietary a-tocopherol (TOC) and riboftavin-tetrabutyrate (RTB) against tissue lipoperoxidation caused by the long-term administration of methyl linoleate hydroperoxide (HPO) to rats were investigated by measuring the spontaneous chemiluminescence (CL) intensities and thiobarbituric acid (TBA) reactants of the liver, lung and heart. TOC supplementation resulted in the effective decrease of CLintensities and TBAreactants in the three organs, while RTBsupplementation led to the definitive decay of both indices of the lung and a significant decrease in the CL intensity of the heart, as compared with those of rats dosed with HPOand not given any supplemental antioxidant. Although the activities of glutathione peroxidase and glutathione reductase in the three organs obtained from rats dosed with HPOfor 29 days were clearly lower than those of the control rats, both enzyme activities in rats dosed with antioxidants other than HPOwere generally maintained at levels almost equal to those of the control rats. Glutathione peroxidase of the liver and heart and glutathione reductase of the liver were shownto be further activated by the simultaneous supplementation of TOC and RTB. The results indicated that both TOC and RTB effectively act as antioxidants in rats dosed with HPOover a long-term. Oneof the antioxidative actions of both agents is ascribed to protection of the glutathione peroxidase system in organs undergoing lipoperoxidation caused by the long-term treatment of dietary hydroperoxides.
The Sandia Laser Plasma Extreme Ultraviolet And Soft X-Ray (XUV) Light Source (1986)

Laser produced plasmas have been shown to be extremely bright sources of extreme ultra-violet and soft x-ray (XUV) radiation; however, certain practical difficulties have hindered the development of this source as a routinely usable laboratory device. To explore solutions to these difficulties, Sandia has constructed an XUV laser plasma source (LASPS) with the intention of developing an instrument that can be used for experiments requiring intense XUV radiation from 50-300 eV. The driving laser for this source is a KrF excimer with a wavelength of 248 nm, divergence of 200 jtrad, pulse width of 23 ns at 20 Hz and typical pulH energy of 500 mJ which allows for good energy coupling to the plasma at mgderate (10<sup>12</sup> W/cm<sup>2</sup>) power densities. This source has been pulsed approximately 2 x 10<sup>5</sup> times, demonstrating good tolerance to plasma debris. The source radiates from the visible to well above 1000 eV, however, to date attention has been concentrated on the 50-300 eV region. In this paper, spectral data and plasma images for both stainless steel and gold targets are presented with the gold target yielding a 200 &mu;, plasma and reradiating 3.9% of the pump energy into 15-73 eV band, a flux of 1.22 x 10 photons/pulse/eV into 2n sr. Further efforts will expand these measurements to rare earth targets and to higher spectralenergies. A special high throughput wide angle XUV (50-300 eV) monochromator and associated optics is being concurrently developed to collect the plasma radiation, perform energy dispersion and focus the radiation onto the experimental area.
Semiconducting and Thermoelectric properties of Aluminium Doped Iron Disilicides (1996)

The phase analysis was carried out for the system of(2-y)FeSi2+yFeAl2 in the range 0≤y≤0.20 by an X-ray technique. The solid solution FeSi2-yAly was identified in the composition range 0≤y≤0.12. Electrical resistivity ρ and Hall coefficient were measured as a function of temperature over the range from 80 to 1100K. The measurement of thermal conductivity was also carried out by a comparative method at 300K. The pure FeSi2 was p-type semiconductor with the hole concentration np of 1.70×1023/m3 at 300K. ρ was independent of y in the range 0≤y≤0.02 and rapidly decreased above y=0.03. Below y=0.03, the hole mobility μH indicated the relationship of exp[-Eh/(kT)] in the temperature range from 200 to 300K, where Eh and k are the hopping energy and Boltzman constant, respectively. Eh was determined to be 0.110eV from the hopping mobility μpol=μ0 exp[-Eh/(kT)]. In the range 0.04≤y≤0.12, it was shown that the changes in μpol have relationships of T-3/2 and T3/2 above and below 250K, respectively, and the band conduction was predominant. The maximum figure of merit was found to be 9.6×10-5K-1 for y=0.08.
Scanning Electron Microscopic Studies on the Route of Neutrophil Extravasation in the Mouse after Exposure to the Chemotactic Peptide N-fonnyl-Methionyl-Leucyl-Phenylalanine (fMLP). (1999)

The present study was performed to demonstrate three-dimensionally the process of neutrophil extravasation induced by the bacterial chemotactic peptide N-formyl-methionyl-leucyl-phenylalanine (fMLP) in mice. Thirty to 40 min after the injection of fMLP to the mouse lip, the tissues were fixed with glutaraldehyde and examined by scanning electron microscopy (SEM) as well as by transmission electron microscopy (TEM). Observation of fMLP-injected tissues showed many neutrophils adhering to the inner wall of postcapillary venules. Some of these adherent neutrophils attached to each other to form groups of two to six. There were also many neutrophils migrating through the endothelium. Most of these neutrophils took a transcellular route, in that they penetrated the cytoplasm of the endothelial cells. The junction of two neighboring endothelial cells did not open, and endothelial pores free from migrating neutrophils were scarcely observed. There were bulging portions on the vascular wall which were probably produced by the presence of underlayed neutrophils. Thus, the present study gave direct evidence of neutrophil migration via a transcellular route in response to fMLP. Our findings also indicate that the pores of the endothelium close quickly after neutrophil extravasation.
Ranking the importance of ontology concepts using document summarization techniques (2017)

Automated Ontology Learning systems are nowadays practical and used in a variety of domains. By using these systems, subject matter experts (SMEs) and ontology designers can readily construct very large ontologies consisting of tens of thousands of concepts and their relations based on a corpus. However, ontologies of this size make it extremely challenging for such SMEs to understand and further tune these ontologies. Prior studies have proposed techniques for concept ranking based solely on the analysis of the structure of the ontology graphs. In this paper, we propose a novel approach, which further exploits a word-level summarization technique applied to the source documents used to generate the ontology. Using the document summarization technique, we devise features that measure concept importance based on source documents where concepts are extracted. We demonstrate the effectiveness of our approach by comparing with existing ranking methods and by devising a scalable evaluation process inspired from the document retrieval domain.
Chelating Diamide Based Rate Enhancement of Intramolecular Alkene Hydroaminations Catalyzed by a Neutral Sc(III) Complex. (2006)

Abstract For Abstract see ChemInform Abstract in Full Text.
Combining Matching Algorithms for Human Identification using Dental X-Ray Radiographs (2007)

The goal of forensic dentistry is to identify individuals based on their dental characteristics. In this paper we present a system for identifying individuals from their dental X-ray records. Given a dental record, usually a postmortem (PM) radiograph, the system searches a database of ante mortem (AM) radiographs and retrieves the best matches from the database. The system automatically segments dental X-ray images into individual teeth and extracts representative feature vectors for each tooth, which are later used for retrieval. The system integrates one method for teeth segmentation, and two different methods for representing and matching teeth. The first matching method represents each tooth contour by signature vectors obtained at salient points on the contour of the tooth. The second method uses hierarchical Chamfer distance for matching AM and PM teeth to reduce the search space and accordingly reduce the retrieval time. Given a query PM image, and according to a matching distance, AM radiographs that are most similar to the PM image, are found and presented to the user using the two matching methods. The experimental results show that the system is robust. We studied the performance of the different modules of the system as well as the results effusing the matching techniques.
Identification and validation of genes involved in the pathogenesis of colorectal cancer using cDNA microarrays and RNA interference. (2003)

The combined use of microarray analysis and RNAi provides an excellent system to define the role of specific genes that are up-regulated in cancer lead to the increased in vitro and in vivo growth of colon tumors.
Effect of Annealing Treatments on Strain Rate Sensitivity and Anisotropy in a Magnesium Alloy Processed by Severe Rolling (2010)

The effect of annealing treatments on the evolution of the strain rate sensitivity with strain of AZ61 magnesium alloy processed by severe rolling was investigated and related to previous results on normal plastic anisotropy (r-value). The various annealing treatments produce two effects on the microstructure: grain coarsening and slight weakening of the texture. In addition, these treatments produce a noticeable decrease in strain rate sensitivity and an increase of work hardening rate that is related to the decrease of the anisotropy. It is concluded that these effects are related to an enhanced contribution of basal slip as a consequence of the microstructural changes induced by the annealing treatments.
Immunogenicity and protective efficacy of nanoparticle formulations of L-SseB against Salmonella infection (2023)

<i>Salmonella enterica</i>, a Gram-negative pathogen, has over 2500 serovars that infect a wide range of hosts. In humans, <i>S. enterica</i> causes typhoid or gastroenteritis and is a major public health concern. In this study, SseB (the tip protein of the <i>Salmonella</i> pathogenicity island 2 type III secretion system) was fused with the LTA1 subunit of labile-toxin from enterotoxigenic <i>E. coli</i> to make the self-adjuvanting antigen L-SseB. Two unique nanoparticle formulations were developed to allow multimeric presentation of L-SseB. Mice were vaccinated with these formulations and protective efficacy determined <i>via</i> challenging the mice with <i>S. enterica</i> serovars. The polysaccharide (chitosan) formulation was found to elicit better protection when compared to the squalene nanoemulsion. When the polysaccharide formulation was used to vaccinate rabbits, protection from <i>S. enterica</i> challenge was elicited. In summary, L-SseB in a particulate polysaccharide formulation appears to be an attractive candidate vaccine capable of broad protection against <i>S. enterica.</i>
Solution properties of the free and DNA‐bound Runt domain of AML1 (1999)

The Runt domain is responsible for specific DNA and protein-protein interactions in a family of transcription factors which includes human AML1. Structural data on the Runt domain has not yet become available, possibly due to solubility and stability problems with expressed protein fragments. Here we describe the optimization and characterization of a 140-residue fragment, containing the Runt domain of AML1, which is suitable for structural studies. The fragment of AML1 including amino acids 46-185 [AML1 Dm(46-185)] contains a double cysteine-->serine mutation which does not affect Runt domain structure or DNA-binding affinity. Purified AML1 Dm(46-185) is soluble and optimally stable in a buffer containing 200 mm MgSO4 and 20 mm sodium phosphate at pH 6.0. Nuclear magnetic resonance and circular dichroism spectroscopy indicate that the Runt domain contains beta-sheet, but little or no alpha-helical secondary structure elements. The 45 N-terminal residues of AML1 are unstructured and removal of the N-terminal enhances sequence-specific DNA binding. The NMR spectrum of AML1 Dm(46-185) displays a favorable chemical shift dispersion and resolved NOE connectivities are readily identified, suggesting that a structure determination of this Runt domain fragment is feasible. A titration of 15N-labelled AML1 Dm(46-185) with a 14-bp cognate DNA duplex results in changes in the 15N NMR heteronuclear single quantum coherence spectrum which indicate the formation of a specific complex and structural changes in the Runt domain upon DNA binding.
Ab Initio Prediction of Metal-Organic Framework Structures (2019)

Metal-organic frameworks (MOFs) have emerged as highly versatile materials with applications in gas storage and separation, solar light energy harvesting and photocatalysis. The design of new MOFs, however, has been hampered by the lack of computational methods for &lt;i&gt;ab initio&lt;/i&gt; crystal structure prediction, which could be used to direct experimental synthesis. Here we report the first &lt;i&gt;ab intio&lt;/i&gt; method for MOF structure prediction, and test it against a diverse set of MOFs, with differences in topology, metal coordination geometry and ligand binding sites. In all cases our calculations produced structures which match experiment, proving the versatility of our procedure for MOF structure prediction. With our new methodology for &lt;i&gt;ab initio&lt;/i&gt; structure prediction, current approaches to MOF design are set to change towards a more sustainable theory-driven materials development.&lt;br&gt;
Deoxyribonuclease Activity and Circulating DNA Concentration in Blood Plasma of Patients with Prostate Tumors (2008)

The DNase activity and circulating DNA (cirDNA) concentration in blood plasma of healthy donors, patients with chronic prostatitis, and patients with prostate tumors were analyzed. The concentration of the cirDNA from plasma was determined by PicoGreen fluorescent assay. DNase activity in blood was measured using the immunoassay based on the cleavage of a hapten-labeled 974-bp DNA substrate. The mean cirDNA concentration in the plasma of healthy donors was low (21 +/- 4 ng/mL total blood) and was accompanied by high DNase activity (0.17 +/- 0.04 U/mL blood). The mean cirDNA concentration was 90 ng/mL blood (10-234 ng/mL) in the patients with nonmalignant prostate tumors and 115 ng/mL blood (13-339 ng/mL) in those with prostate cancer. The mean DNase activity in blood plasma of the patients with prostate tumors was 0.06 U/mL blood (0-0.12 U/mL). The results obtained demonstrate that increased concentrations of cirDNA in blood of the patients with prostate tumors is accompanied by a decreased DNase activity, confirming our previous data that a low DNase activity in blood plasma of cancer patients is one reason for a high cirDNA concentration.
Research Articles : A Solid-State Dye-Sensitized Solar Cell Constructed using a Gel Polymer Electrolyte (2004)

A gel polymer electrolyte was prepared by immersing the porous membrane, based on acrylonitrilemethyl methacrylate copolymer, in an organic electrolyte solution containing the I₃^-/I^- redox couple. The ionic conductivity of the gel polymer electrolyte reached 3.0 × 10^(-3) S/㎝ at room temperature; the electrolyte solution was encapsulated well in the gel polymer electrolyte by physical gelation without solvent leakage. A solid-state dye-sensitized solar cell was assembled employing the gel polymer electrolyte and a dye-sensitized nanoporous TiO₂electrode. The cell exhibited an open circuit potential of 0.70 V, a short circuit current of 0.39 mA/㎠ and a conversion efficiency of 1.84%.
Abstract PR05: Mapping the tumor and microenvironmental evolution underlying DCIS progression through multiplexed ion beam imaging (2020)

Abstract Ductal Carcinoma in Situ (DCIS) is a pre-invasive lesion that accounts for nearly 20% of new breast cancer diagnoses. Of these cases, about half will progress to invasive breast cancer (IBC) within ten years. However, because diagnostic criteria for delineating low risk lesions from those likely to progress to IBC have not been identified, many patients are receiving unnecessary chemotherapy and surgery that can result in therapy-related morbidity and death. With this in mind, we used Multiplexed Ion Beam Imaging by time of flight (MIBI-TOF) and RNA-seq laser-capture microdissection (SMART-3SEQ) to construct a comprehensive spatial atlas describing the structure, function, and cellular composition of DCIS. MIBI-TOF and SMART-3SEQ were used to compare lesions from patients that later developed IBC with those from age- and history matched DCIS controls without recurrence. Using a 37-marker staining panel to interrogate 137 lesions, we identified 30 distinct cell populations of the epithelial, stromal, and immune lineages that were arranged in recurrent cellular microenvironments specific for DCIS or invasive disease. We observe a coordinated shift in the immune and stromal compartments as invasive disease arises, including an expansion of immune cell diversity and transition to reactive stromal phenotypes in synchronous DCIS + IBC, which was distinct from the macrophage-dominant microenvironment of recurrent IBC. Single-cell segmentation using a deep learning model was combined with pixel-level coexpression analysis to determine how thickness, continuity, and phenotype of ductal myoepithelium changes as tumors progress from a pre-invasive state. These data were incorporated into a comprehensive model which was subsequently used to identify a subset of features that correlate with disease-free survival following DCIS tumor resection. Taken together, these features represent important prognostic metrics that can be used to separate pre-invasive from indolent DCIS tumors, and allow for tailored therapy that improves patient outcomes and quality of life in this disease. Citation Format: Tyler Risom, Belen Rivero, Candace Liu, Alex Baranski, Siri Strand, Noah Greenwald, Erin McCaffrey, Sushama Varma, Leeat Keren, Sucheta Srivastava, Chunfang Zhu, Sujay Vennam, Shelley Hwang, Graham Colditz, Sean Bendall, Robert West, Michael Angelo. Mapping the tumor and microenvironmental evolution underlying DCIS progression through multiplexed ion beam imaging [abstract]. In: Proceedings of the AACR Virtual Special Conference on Tumor Heterogeneity: From Single Cells to Clinical Impact; 2020 Sep 17-18. Philadelphia (PA): AACR; Cancer Res 2020;80(21 Suppl):Abstract nr PR05.