gebhart/patrepeval huggingface dataset:
Current and Novel Experimental Methods in Ischemia/Reperfusion Research: From Cutting-Edge Models to Innovative Therapies (2023)

ARTICLES DISCUSSED: Liepinsh, E., Kuka, J., Zvejniece, L., Vilskersts, R., Dambrova, M. Rodent heart and brain tissue preparation for digital macro photography after ischemia-reperfusion. Journal of Visualized Experiments. (180), e62942 (2022). Paro, M. R., Mcgonnigle, M., Bulsara, K., Verma, R. A model for encephalomyosynangiosis treatment after middle cerebral artery occlusion-induced stroke in mice. Journal of Visualized Experiments. (184), e63951 (2022). Compton, T. et al. Non-thermal infrared light treatment of ischemia/reperfusion injury and subsequent analysis of macrophage differentiation. Journal of Visualized Experiments. (178), e62908 (2021). Lv, B. et al. Induction of myocardial infarction and myocardial ischemia-reperfusion injury in mice. Journal of Visualized Experiments. (179), e63257 (2022). Barajas, M. B., Levy, R. J. Modified technique for the use of neonatal murine hearts in the Langendorff preparation. Journal of Visualized Experiments. (181), e63349 (2022). Li, Z., Hampton, M. J., Barajas, M. B., Riess, M. L. Development of a cell co-culture model to mimic cardiac ischemia/reperfusion in vitro. Journal of Visualized Experiments. (176), e62913 (2021). Godoy, J. R., Watson, G., Raspante, C., Illanes, O. An effective mouse model of unilateral renal ischemia-reperfusion injury. Journal of Visualized Experiments. (173), e62749 (2021).
Novel time domain ptychography, i2PIE, for improved contrast in nonlinear microscopy (2021)

We present a novel nonlinear microscopy modality using a time-domain ptychographic phase measurement, i 2 PIE, to compress 80 MHz supercontinuum pulses from an ANDi PCF used as excitation source, improving contrast at reduced average power.
The Environment of the Lipoxygenase Iron Binding Site Explored with Novel Hydroxypyridinone Iron Chelators (1996)

The mechanisms of lipoxygenase inhibition by iron chelators have been investigated in human neutrophils and in isolated soybean lipoxygenase. Their Fe(III)-containing active sites have been targeted by synthesizing novel bidentate chelators from the hydroxypyridinone family sufficiently small to gain access through the hydrophobic channels of lipoxygenase. In stimulated human neutrophils, release of [3H]arachidonate-labeled eicosanoids is dependent on the lipid solubility of hydroxypyridinones, but larger hexadentate chelators have no effect on this or on total cellular leukotriene B4 production. Lipophilic hydroxypyridinones inhibit 5-lipoxygenase at equivalent concentrations to the established inhibitor, piriprost, and show additional but minor anti-phospholipase A2 activity. Soybean 15-lipoxygenase inhibition is also dependent on the lipid solubility and coordination structure of chelators. Inhibition is associated with the formation of chelate-iron complexes, which are removed by dialysis without restoration of enzyme activity. Only after adding back iron is activity restored. Electron paramagnetic resonance studies show the removal of the iron center signal (g = 6) is concomitant with formation of Fe(III)-chelator complexes, identical in spectral shape and g value to 3:1 hydroxypyridinone Fe(III) complexes. Removal of iron is not the only mechanism by which hydroxypyridinones can inhibit lipoxygenase in intact cells, however, as a lipophilic non-iron-binding hydroxypyridinone, which shows no inhibition of the soybean lipoxygenase activity, partially inhibits 5-lipoxygenase in intact neutrophils without inhibiting neutrophil phospholipase A2.
Global gene expression profiling of the polyamine system in suicide completers (2011)

In recent years, gene expression, genetic association, and metabolic studies have implicated the polyamine system in psychiatric conditions, including suicide. Given the extensive regulation of genes involved in polyamine metabolism, as well as their interconnections with the metabolism of other amino acids, we were interested in further investigating the expression of polyamine-related genes across the brain in order to obtain a more comprehensive view of the dysregulation of this system in suicide. To this end, we examined the expression of genes related to polyamine metabolism across 22 brain regions in a sample of 29 mood-disordered suicide completers and 16 controls, and identified 14 genes displaying differential expression. Among these, altered expression of spermidine/spermine N1-acetyltransferase, spermine oxidase, and spermine synthase, has previously been observed in brains of suicide completers, while the remainder of the genes represent novel findings. In addition to genes with direct involvement in polyamine metabolism, including S-adenosylmethionine decarboxylase, ornithine decarboxylase antizymes 1 and 2, and arginase II, we identified altered expression of several more distally related genes, including aldehyde dehydrogenase 3 family, member A2, brain creatine kinase, mitochondrial creatine kinase 1, glycine amidinotransferase, glutamic-oxaloacetic transaminase 1, and arginyl-tRNA synthetase-like. Many of these genes displayed altered expression across several brain regions, strongly implying that dysregulated polyamine metabolism is a widespread phenomenon in the brains of suicide completers. This study provides a broader view of the nature and extent of the dysregulation of the polyamine system in suicide, and highlights the importance of this system in the neurobiology of suicide.
Proposal of ride-sharing system using harmonic aggregation of user demands (2011)

In this paper, we propose a ride-sharing system with harmonic aggregation of user demands to support both human satisfaction and resource efficiency, and report results of the simulation of our proposed system showing the efficiency of our method. Our proposed ride-sharing system alters user action time and harmonically aggregates user transfer by using flexible parts of users' demands toward their actions. We built a demonstration system visualizing our future vision in which the proposed ride-sharing method was represented as one scenario. In this system, the ride-sharing will be implemented as the joining of several small personal vehicles. We performed our simulations with basic scenarios including part of the proposed method and obtained results showing that the ride-sharing system with our proposed method has four-times higher efficiency than that without the method.
A rotation based method for detecting on-body positions of mobile devices (2011)

We present a novel rotation based method for detecting where a mobile device is worn on a user's body that utilizes the fusion of the data from accelerometer and gyroscope. Detecting the position of a mobile device could improve the performance of on-body sensor based human activity recognition and the adaptability of many mobile applications. In our method, the radius and angular velocity for a position is calculated based on the data read from the sensors integrated in a mobile device. We have evaluated our method with an experiment to detect four commonly used positions: breast pocket, trouser pocket, hip pocket and hand.
CCDC 799738: Experimental Crystal Structure Determination (2012)

An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
Deposition of potassium lithium niobate films by sol-gel method (1999)

Potassium lithium niobate (KLN) films have been prepared by sol-gel method using metal ethoxides as starting materials. The films were deposited by spin coating and were annealed in air in a conventional oven as well as in a rapid thermal processor (RTP). X-ray diffraction and Raman scattering measurements have shown that polycrystalline KLN films with tetragonal tungsten-bronze-type structure could be obtained on both SiO<SUB>2</SUB> buffered Si and fused quartz substrates. Surface morphology studies indicated that RTP annealing could avoid film cracking and enable nanostructured low- surface roughness KLN films to be formed. Optical waveguiding experiments showed that the films have refractive indices close to those of their single crystal and could support several modes. The films deposited on fused quartz were highly transparent in the visible-near IR spectral range and the absorption edges of the films, as determined from the absorption data, were found to shift towards the violet spectral side.
Application of Blind Source Separation Methods to Ion-Selective Electrode Arrays in Flow-Injection Analysis (2014)

As shown recently, the interference problem typical of ion-selective electrodes can be dealt with via smart arrays adjusted by blind source separation methods. In this letter, we resume this study and show that such an approach can be applied even when faced with a limited number of samples acquired through flow-injection analysis.
Classification and pathology of gastroenteropancreatic neuroendocrine neoplasms (2011)

Gastroenteropancreatic neuroendocrine neoplasms (GEP-NENs) are composed of cells with a neuroendocrine phenotype. The old and the new WHO classifications distinguish between well-differentiated and poorly differentiated neoplasms. All well-differentiated neoplasms, regardless of whether they behave benignly or develop metastases, will be called neuroendocrine tumours (NETs), and graded G1 (Ki67 <2%) or G2 (Ki67 2-20%). All poorly differentiated neoplasms will be termed neuroendocrine carcinomas (NECs) and graded G3 (Ki67 >20%). To stratify the GEP-NETs and GEP-NECs regarding their prognosis, they are now further classified according to TNM-stage systems that were recently proposed by the European Neuroendocrine Tumour Society (ENETS) and the AJCC/UICC. In the light of these criteria the pathology and biology of the various NETs and NECs of the gastrointestinal tract (including the oesophagus) and the pancreas are reviewed.
Transport of particles and microorganisms in microfluidic channels using rectified ac electro-osmotic flow (2011)

A new method is demonstrated to transport particles, cells, and other microorganisms using rectified ac electro-osmotic flows in open microchannels. The rectified flow is obtained by synchronous zeta potential modulation with the driving potential in the microchannel. Experiments were conducted to transport both neutral, charged particles, and microorganisms of various sizes. A maximum speed of 50 μm∕s was obtained for 8 μm polystyrene beads, without any electrolysis, using a symmetrical square waveform driving electric field of 5 V∕mm at 10 Hz and a 360 V gate potential with its polarity synchronized with the driving potential (phase lag=0°).
Acetylsalicylic Acid and Salicylic Acid Inhibit SARS-CoV-2 Replication in Precision-Cut Lung Slices (2022)

Aspirin, with its active compound acetylsalicylic acid (ASA), shows antiviral activity against rhino- and influenza viruses at high concentrations. We sought to investigate whether ASA and its metabolite salicylic acid (SA) inhibit SARS-CoV-2 since it might use similar pathways to influenza viruses. The compound-treated cells were infected with SARS-CoV-2. Viral replication was analysed by RTqPCR. The compounds suppressed SARS-CoV-2 replication in cell culture cells and a patient-near replication system using human precision-cut lung slices by two orders of magnitude. While the compounds did not interfere with viral entry, it led to lower viral RNA expression after 24 h, indicating that post-entry pathways were inhibited by the compounds.
Increasing the Reliability of Geological Models Using Spectral Decomposition and Seismic Facies Analysis (2015)

Summary The objective of this study was to build a true aesthetic representation of a complex geological channel to deliver a more accurate geocellular model, by transferring the level of detail that can be captured from the seismic into the geocellular model. A key feature of the work scope was to utilise a Geological Expression interpretive approach for the three-dimensional geomorphology identification of the Eskdale channel itself [ Henderson, 2012 ]. This approach involves a series of successive transformations of the seismic signal to maximize the limits of perception of geological information that is potentially present in the data. Depending on the task it may include noise reduction procedures, standard and high-definition frequency decomposition, colour blending, edge detection procedures, geobodies extraction and interactive seismic facies classification respectively.
Immunopurification of Human Factor VIII/vWF Complex from Plasma (1988)

In this study we describe a process for immunopurification of FVIII/vWF complex directly from plasma. A mAb against vWF has been selected that is able to bind, under physiologic conditions, the FVIII/vWF complex and to release it in slightly alkaline conditions while preserving its activity. After investigating the influence of solid supports and of coupling methods on the recovery of active FVIII we produced an immunoadsorbent by immobilisation of the selected mAb onto a Sephacryl S-1000 support using a benzoquinone coupling method. With this immunoadsorbent we developed a purification process directly from plasma with an excellent recovery (50%) of both FVIII and vWF activities. The product obtained is very enriched (the FVIII:C specific activity is 20 IU/mg of protein) and is stable after lyophilization.
Nonlinear System Identification of Composite Plates with Higher-Order Spectra: Numerical Analyses and Experimental Tests (2011)

A nonlinear system identification procedure based on a Higher-Order-Spectral (HOS)&#13;\napproach is developed. The fundamental element of the presented technique resorts to&#13;\nthe HOS capabilities of detecting the changes induced in the system nonlinear dynamic&#13;\nbehavior by the presence of a localized structural modification. Numerical tools for the&#13;\nestimation of the Higher-Order Spectra extracted from the time histories of a fully nonlinear&#13;\nphysics-based plate model are implemented. An extensive experimental testing campaign&#13;\nis conducted on carbon/epoxy thin composite plates, in order to validate the presented&#13;\nidentification procedure.
Percutaneous CT-guided Radiofrequency Ablation for Renal Cell Carcinoma in von Hippel-Lindau Disease: Midterm Results (2016)

Purpose: To evaluate the safety and midterm results of radiofrequency (RF) ablation for the treatment of renal cell carcinoma (RCC) in patients with von Hippel-Lindau (VHL) disease. Materials and methods: This study included 13 patients with VHL (8 women and 5 men; mean age: 35.5 years) and RCC. Each patient presented with 1-6 RCCs (mean: 2.4 ± 1.7) without extrarenal metastasis. The mean tumor diameter was 18.0 ± 5.0 mm. Transcatheter arterial embolization was performed for 5 (16.7%) of 31 tumors. All RF ablation procedures involved the percutaneous use of internally cooled RF electrodes under computed tomography fluoroscopic guidance. Adverse events were evaluated using the Common Terminology Criteria for Adverse Events, version 4.0, and pre- and post-treatment estimated glomerular filtration rates (eGFRs) were compared using paired t-tests. Local tumor progression, distant metastasis, and survival were also evaluated. Results: Twenty-three RF ablation sessions were technically successful. A grade 3 adverse event (hydronephrosis due to blood clotting, thus requiring ureteral stent placement) occurred in 1 (4%) of 23 sessions. The mean eGFR measured at ≥ 1 month after ablation was significantly lower than the mean eGFR before ablation (70.2 ± 21.9 versus 78.8 ± 23.0, p < 0.001). Local tumor progression was seen in 1 (3%) of 31 tumors. No patients died, required dialysis, or developed extra-renal metastases during a median 40-month follow-up. Conclusions: RF ablation for RCC is a safe, highly effective, and promising treatment option for patients with VHL disease.
Applying Genomic and Proteomic Microarray Technology in Drug Discovery (2004)

Microarrays play an increasingly significant role in drug discovery. Written by a leader in the field, Applying Genomic and Proteomic Microarray Technology in Drug Discovery highlights, describes, and evaluates current scientific research using microarray technology in genomic and proteomic applications. The author addresses the drawbacks, helping
Nucleocapsid Annealing-Mediated Electrophoresis (NAME) Assay Allows the Rapid Identification of HIV-1 Nucleocapsid Inhibitors (2015)

RNA or DNA folded in stable tridimensional folding are interesting targets in the development of antitumor or antiviral drugs. In the case of HIV-1, viral proteins involved in the regulation of the virus activity recognize several nucleic acids. The nucleocapsid protein NCp7 (NC) is a key protein regulating several processes during virus replication. NC is in fact a chaperone destabilizing the secondary structures of RNA and DNA and facilitating their annealing. The inactivation of NC is a new approach and an interesting target for anti-HIV therapy. The Nucleocapsid Annealing-Mediated Electrophoresis (NAME) assay was developed to identify molecules able to inhibit the melting and annealing of RNA and DNA folded in thermodynamically stable tridimensional conformations, such as hairpin structures of TAR and cTAR elements of HIV, by the nucleocapsid protein of HIV-1. The new assay employs either the recombinant or the synthetic protein, and oligonucleotides without the need of their previous labeling. The analysis of the results is achieved by standard polyacrylamide gel electrophoresis (PAGE) followed by conventional nucleic acid staining. The protocol reported in this work describes how to perform the NAME assay with the full-length protein or its truncated version lacking the basic N-terminal domain, both competent as nucleic acids chaperones, and how to assess the inhibition of NC chaperone activity by a threading intercalator. Moreover, NAME can be performed in two different modes, useful to obtain indications on the putative mechanism of action of the identified NC inhibitors.
Storage Behaviour of Salix alba and Salix matsudana Seeds (2000)

Eects of dehydration, storage temperature and humidication on germination of Salix alba and S. matsudana seeds were studied. Newly released seeds showed 100 % germination before and after dehydration to 1112 % moisture content. Germination of the high vigour lot (100 % initial normal germination) was not aected by dehydration to 6 . 7 % moisture content but germination decreased with further dehydration to 4 . 3 %. The lower vigour lot (75 % initial normal germination) was more susceptible to dehydration and germination decreased following dehydration to 6 . 7 % moisture content. Dry seeds of both species survived immersion in liquid nitrogen without loss of viability. The germination of seeds stored with 9 % moisture content decreased to 3540 % in 5 months at 208C or in 2 months at 58C. However, at 258C seeds entirely lost viability within 2 weeks. Seeds showed improved performance when stored at 708C 4 208C 4 58C 4 258C and tolerated dehydration to a moisture content in equilibrium with 15 % relative humidity. Results suggest that they are orthodox in storage behaviour although they are short-lived. Humidication treatment of low vigour seed lots resulted in a remarkable increase in germination percentage.
Data-driven Manufacturing Service Optimization Model in Smart Factory (2019)

Intelligent manufacturing has globally become one of the important development trends in the manufacturing industry. The development of emerging technologies provides support for the realization of intelligent manufacturing and also brings challenges. While realizing the efficient use of big data and customized manufacturing, cloud computing and cloud manufacturing ignore the complicated production process and limit the supply of quality manufacturing services. In this scenario, a manufacturing service optimization model consisting of manufacturing resource agents is proposed. The resource agent is the intelligent package of each manufacturing unit of the enterprise, with powerful data analysis and service management capabilities. The model uses industrial big data as the driving force to continuously improve the capacity of manufacturing resources and optimize the resource allocation in the manufacturing service call chain, ultimately improving the quality of manufacturing services. Finally, the effectiveness and practicability of the proposed model is verified by a typical case of the manufacturing process of the cylinder product.
Experimental Cerebral Malaria Develops Independently of Caspase Recruitment Domain-Containing Protein 9 Signaling (2011)

The outcome of infection depends on multiple layers of immune regulation, with innate immunity playing a decisive role in shaping protection or pathogenic sequelae of acquired immunity. The contribution of pattern recognition receptors and adaptor molecules in immunity to malaria remains poorly understood. Here, we interrogate the role of the caspase recruitment domain-containing protein 9 (CARD9) signaling pathway in the development of experimental cerebral malaria (ECM) using the murine Plasmodium berghei ANKA infection model. CARD9 expression was upregulated in the brains of infected wild-type (WT) mice, suggesting a potential role for this pathway in ECM pathogenesis. However, P. berghei ANKA-infected Card9(-/-) mice succumbed to neurological signs and presented with disrupted blood-brain barriers similar to WT mice. Furthermore, consistent with the immunological features associated with ECM in WT mice, Card9(-/-) mice revealed (i) elevated levels of proinflammatory responses, (ii) high frequencies of activated T cells, and (iii) CD8(+) T cell arrest in the cerebral microvasculature. We conclude that ECM develops independently of the CARD9 signaling pathway.
New Host Polymeric Framework and Related Polar Guest Cocrystals (2007)

A new host crystalline form of syndiotactic polystyrene (ε), able to form cocrystals with guests of high polarity and hyperpolarizability, has been discovered. The guest dipoles are nearly parallel to the host chain axes, which allows us to easily obtain stable polymeric films with guest dipole orientation perpendicular to their surface.
Efficacy of osimertinib in a patient with non‑small cell lung cancer harboring epithelial growth factor receptor exon 19 deletion/T790M mutation, with poor performance status (2017)

Osimertinib, a third-generation epithelial growth factor receptor (EGFR) tyrosine kinase inhibitor, has been demonstrated to be effective for treating patients with T790M‑positive advanced non‑small cell lung cancer (NSCLC) with a relatively good performance status (grade 0‑1). Reports of therapeutic response to osimertinib in advanced NSCLC patients with poor performance status are infrequent. The present case report discusses a patient with advanced lung adenocarcinoma harboring EGFR exon 19 deletion and T790M mutation with central nervous system involvement and poor performance status. The patient had a past history of partial lung resection due to lung adenocarcinoma, positive genetic test for EGFR exon 19 deletion in post‑surgical tumor specimens, and therapy with erlotinib and onartuzumab for the appearance of a lung metastatic tumor during the post‑surgical follow‑up. The combined therapy was continued until the discovery of metastatic tumors in bones and the central nervous system. The Cobas test performed using tissue from bone metastatic tumor was positive for exon 19 deletion and for T790M mutation. The patient was treated with osimertinib and adverse effects or hematological toxicity were not observed. Performance status of the patient improved from grade 4 to 2. Subsequent studies revealed remission of bone metastasis and reduced central nervous system lesions. This report provides evidence on the safety and efficacy of osimertinib for treating NSCLC patients with progressive disease, central nervous system lesion and poor performance status.