gebhart/patrepeval huggingface dataset:
Efficient Nuclear Targeting of Granzyme B and the Nuclear Consequences of Apoptosis Induced by Granzyme B and Perforin Are Caspase-dependent, but Cell Death Is Caspase-independent (1998)

The secretory lysosomes of cytolytic lymphocytes house the principal apoptotic molecules for eliminating virus-infected cells: a membranolytic agent, perforin, and the serine protease, granzyme B. Perforin allows granzyme B access to cytosolic and nuclear substrates that, when cleaved, result in the characteristic apoptotic phenotype. Key among these substrates is a family of cytoplasmic caspases that mediate cell suicide. We have examined the caspase dependence of several nuclear and cytoplasmic parameters of apoptosis induced by purified perforin and granzyme B. Cell membrane leakage in response to perforin and granzyme B was independent of caspase activation; however, nuclear events such as DNA fragmentation and nuclear condensation and disintegration were abolished by the broad-acting caspase inhibitor, z-VAD-fmk. Despite being spared from nuclear damage, z-VAD-fmk-treated cells exposed to both cytotoxins uniformly died when they were re-cultured, while cells exposed to perforin or granzyme alone survived and proliferated as readily as untreated cells. Pretreatment of cells with z-VAD-fmk also resulted in reduced granzyme B nuclear uptake following addition of perforin; however, its uptake into the cytoplasm in the absence of perforin was unaffected. We conclude that cell death in response to perforin and granzyme B does not require caspase activation and still proceeds efficiently through non-nuclear pathways when nuclear substrate cleavage is inhibited.
Relationship of Soluble RAGE and RAGE Ligands HMGB1 and EN-RAGE to Endothelial Dysfunction in Type 1 and Type 2 Diabetes Mellitus (2012)

Receptor for advanced glycation end-products (RAGE) plays the essential role in the pathogenesis of diabetic vascular complications. The aim of the study was to compare concentration of soluble RAGE and its ligands (EN-RAGE and HMGB1) with different biochemical parameters in Type 1 (T1DM) and Type 2 (T2DM) diabetes mellitus.Total number of 154 persons (45 T1DM, 68 T2DM, 41 controls) was examined and concentrations of sRAGE, EN-RAGE and HMGB1 were measured and compared to diabetes control, albuminuria, cell adhesion molecules and metalloproteinases (MMPs).Mean serum sRAGE concentration was higher in T1DM as compared to controls (1137±532 ng/l vs. 824±309 ng/l, p<0.01). Similarly, EN-RAGE was significantly higher in both diabetic groups (p<0.001) and HMGB1 concentrations were elevated in T2DM patients (p<0.01). Significant relationship was found between MMP9 and HMGB1 and EN-RAGE in diabetic patients. Inverse relationship was observed between MMP2 and MMP9 in both types of diabetic patients (r= - 0.602, p<0.002 and r= - 0.771, p<0.001). Significant positive correlation was found between sRAGE and ICAM-1, VCAM-1 or vWF (p<0.01 to p<0.001).We conclude that serum sRAGE and RAGE ligands concentrations reflect endothelial dysfunction developing in diabetes.
A Tissue Microarray Study of Osteosarcoma: Histopathologic and Immunohistochemical Validation of Xenotransplanted Tumors as Preclinical Models (2010)

An accurate morphologic evaluation using TMAs in original tumor is essential for the OS diagnosis; hence there is no IHC marker that alone distinguishes the OS subtypes. Xenografts in OS allow the study of tumor progression in this type of aggressive neoplasm.
Indazole Estrogens:  Highly Selective Ligands for the Estrogen Receptor β (2005)

The estrogen receptors, ERalpha and ERbeta, are important pharmaceutical targets. To develop ERbeta-selective ligands, we synthesized a series of nonsteroidal compounds having a phenyl-2H-indazole core with different groups at C-3. Several of these show high affinity and good ERbetaselectivity, especially those with polar and/or polarizable substituents at this site (halogen, CF(3), nitrile); the best compounds have affinities for ERbeta comparable to estradiol, with ERbetaaffinity selectivity >100. This potency and ERbeta selectivity is also seen in cell-based transcriptional assays, where several compounds showed ERbeta efficacies equivalent to that of estradiol with ERbeta potency selectivities of 100. These compounds might prove useful as selective pharmacological probes to study the biological actions of estrogens mediated through ERbeta, and they might lead to the development of useful pharmaceuticals. These findings also contribute to an evolving pharmacophore that characterizes certain nonsteroidal ligands having high ERbeta subtype affinity and potency selectivity.
Recent advances in plant electroporation. (1987)

The topic is reviewed under the headings (1) induced membrane events; (2) parameters for electroporation and DNA uptake; (3) types of electroporation pulses; and (4) pore parameters, DNA uptake and integration. Information is tabulated on reports in the literature of transient and stable expression of genes introduced into higher plant cells by electroporation.
In vitro efficiency of the piperacillin/tazobactam combination against inhibitor-resistant TEM- and complex mutant TEM-producing clinical strains of Escherichia coli (2011)

Despite usual in vitro bacteriostatic activity, the piperacillin/tazobactam combination was not bactericidal against most IRT-producing clinical strains of E. coli, especially for the treatment of a high bacterial inoculum. This possible loss of bactericidal effect should be brought to the attention of physicians and may require high dosing regimens for the treatment of severe infections.
Experimental Acoustic Ground Cloak in Air (2011)

We present the design, fabrication, and performance analysis for a class of two-dimensional acoustic cloaking coatings in air. Our approach takes advantage of transformation acoustics and linear coordinate transformations that result in shells which are homogeneous, broadband, and compact. The required material parameters are highly anisotropic; however, we show that they are easily achievable in practice in metamaterials made of perforated plastic plates. The good performance of the fabricated design is assessed from measurements of the sound field produced around the cloak by a broadband source. The remarkably low complexity of the device made of perforated plastic plates shows that sound in air can be fully and effectively manipulated using realizable transformation acoustics devices.
Cold Atmospheric Plasma: methods of production and application in dentistry and oncology (2013)

Cold Atmospheric Plasma is an ionized gas that has recently been extensively studied by researchers as a possible therapy in dentistry and oncology. Several different gases can be used to produce Cold Atmospheric Plasma such as Helium, Argon, Nitrogen, Heliox, and air. There are many methods of production by which cold atmospheric plasma is created. Each unique method can be used in different biomedical areas. In dentistry, researchers have mostly investigated the antimicrobial effects produced by plasma as a means to remove dental biofilms and eradicate oral pathogens. It has been shown that reactive oxidative species, charged particles, and UV photons play the main role. Cold Atmospheric Plasma has also found a minor, but important role in tooth whitening and composite restoration. Furthermore, it has been demonstrated that Cold Atmospheric Plasma induces apoptosis, necrosis, cell detachment, and senescence by disrupting the S phase of cell replication in tumor cells. This unique finding opens up its potential therapy in oncology.
Development of an Inhaled Dry-Powder Formulation of Tobramycin Using PulmoSphere™ Technology (2011)

Abstract At present, the only approved inhaled antipseudomonal antibiotics for chronic pulmonary infections in patients with cystic fibrosis (CF) are nebulized solutions. However, prolonged administration and cleaning times, high administration frequency, and cumbersome delivery technologies with nebulizers add to the high treatment burden in this patient population. PulmoSphere™ technology is an emulsion-based spray-drying process that enables the production of light porous particle, dry-powder formulations, which exhibit improved flow and dispersion from passive dry powder inhalers. This review explores the fundamental characteristics of PulmoSphere technology, focusing on the development of a dry powder formulation of tobramycin for the treatment of chronic pulmonary Pseudomonas aeruginosa (Pa) infection in CF patients. This dry powder formulation provides substantially improved intrapulmonary deposition efficiency, faster delivery, and more convenient administration over nebulized formulations. The availability of more efficient and convenient treatment options may improve treatment compliance, and thereby therapeutic outcomes in CF.
Interaction of Insulin and Exercise on Glucose Transport in Muscle (1992)

Glucose transport is the rate-limiting step for glucose utilization in muscle. In muscle and adipose tissue, glucose transport is acutely regulated by such factors as insulin and exercise. Translocation of glucose transporters (GLUT4) from an intracellular domain to the cell surface is the major mechanism for this regulation. Using immunocytochemistry, the intracellular distribution of GLUT4 under resting conditions is similar in adipocytes and myocytes. GLUT4 is concentrated in tubulovesicular structures either in the trans-Golgi region or in the cytosol, often close to the cell surface but not on the cell surface. After stimulation, cell surface GLUT4 labeling is increased by as much as 40-fold. GLUT4 is chronically regulated by altered gene expression. Neural and/or contractile activity regulates GLUT4 expression in muscle: 1) GLUT4 levels differ among muscles of different fiber type; 2) GLUT4 levels in muscle are increased with exercise training and decreased with denervation; and 3) cultured muscle cells, which lack an intact nerve supply, express very low levels of GLUT4. GLUT4 expression appears to be regulated in parallel with many oxidative enzymes in muscle, suggesting that there may be a unified developmental program that determines the overall metabolic properties of a particular muscle. Preliminary evidence suggests that impaired GLUT4 expression in muscle is not the primary defect associated with insulin resistance. Nevertheless, it is conceivable that the adaptive increase in muscle GLUT4 that is found with exercise training may have beneficial effects in insulin-resistant states such as non-insulin-dependent diabetes.
Defective macrophage antigen presentation following haemorrhage is associated with the loss of MHC class II (Ia) antigens. (1990)

Although recent studies indicate that severe and prolonged haemorrhage, despite adequate fluid resuscitation, induces profound depression of cell-mediated immunity, the mechanism of this remains unknown. Since macrophages (M phi) play a key role in the development of a competent immune response by the presentation of antigens, the study investigated (i) whether the capacity of the M phi to present antigen is altered even following mild hypotension, and (ii) what effects do different degrees of hypotension have on the M phi-mediated processes associated with antigen presentation (i.e. the expression Ia antigen, membrane-associated IL-1 or the secretion of IL-1). The results indicate that a minimal drop in blood pressure to approximately 50 mmHg (1 hr duration) was sufficient to depress M phi antigen presentation (AP). Similarly, even a transient hypotensive episode of 15 min duration at 35 mmHg was sufficient to produce a pronounced decline in AP. Decreased AP was observed as early as 12 hr after the haemorrhagic episode (35 mmHg; 1 hr) and remained detectable for at least 120 hr thereafter. The reductions in AP capacities were qualitatively similar in both peritoneal and splenic populations, and were not attributable to surgical stress, heparinization or ether anaesthesia. Determination of IL-1 production, as well as membrane-bound IL-1 levels, in these cell populations showed no significant difference from controls. However, a significant decrease was observed in the percentage of Ia antigen (MHC class II)-positive M phi, suggesting that reduced AP following haemorrhage may be related to the inability of these cells to express Ia.
Recognizing indoor scenes (2009)

Indoor scene recognition is a challenging open problem in high level vision. Most scene recognition models that work well for outdoor scenes perform poorly in the indoor domain. The main difficulty is that while some indoor scenes (e.g. corridors) can be well characterized by global spatial properties, others (e.g, bookstores) are better characterized by the objects they contain. More generally, to address the indoor scenes recognition problem we need a model that can exploit local and global discriminative information. In this paper we propose a prototype based model that can successfully combine both sources of information. To test our approach we created a dataset of 67 indoor scenes categories (the largest available) covering a wide range of domains. The results show that our approach can significantly outperform a state of the art classifier for the task.
The transistor laser (2006)

A research team at the University of Illinois at Urbana-Champaign has developed a new, more powerful kind of device, called the transistor laser. The transistor puts out both electrical signals and a laser beam, which can be directly modulated to send optical signals at the rate of 10 billion bits per second. With some further modification, the transistor laser will eventually send a staggering 100 billion bits per second or more. Instead of using relatively slow wires to connect chips stacked together in packages, transistor lasers can be used as optical interconnects, which would let data flow instantaneously to and from memory chips, graphics processors, and microprocessors. There is much work ahead, but unlike the host of self-assembling, blue-sky nanotechnologies currently being touted as the next big thing in optoelectronics, transistor lasers do not need an entirely new fabrication infrastructure for further development or even to go into production.
Poly(lactic acid)−Poly(ethylene oxide) (PLA−PEG) Nanoparticles:  NMR Studies of the Central Solidlike PLA Core and the Liquid PEG Corona (2002)

NMR studies on a series of poly(lactic acid)−poly(ethylene oxide) (PLA−PEG) diblock copolymers have been carried out in d6-acetone and in D2O. Nanoparticles of the PLA−PEG copolymers were obtained using a modified interfacial polymer deposition−solvent evaporation technique (Fessi, H.; Devissaguet, J. P.; Puisieux, F.; Thies, C. French Patent 2 608 988, 1986). In D2O, the PLA block forms a central hydrophobic core, while the PEG block forms an hydrophilic corona layer. In D2O, the hydrophobic core of the nanoparticle is generally not seen, while the PEG corona is observed. Only the PLA methyl protons at the interface between the two regions are observed, and these are seen as a double doublet structure. For nanoparticles with a low molecular weight PLA block length, an additional methyl multiplet signal is seen suggesting that PLA methyl groups are in more than one chemical environment. This is not seen for nanoparticles with a high molecular weight PLA block length indicating more uniform structure in the core interfacial region. As temperature is increased, the core of the latter becomes more liquidlike. Quantitative calibration studies of the PEG corona layer show that most of the PEG layer is seen indicating that it is in the liquid phase and on the surface of the nanoparticle. 13C solid-state NMR spectroscopy studies indicate the presence of a central solidlike core and a more mobile interfacial region at the PLA−PEG interface, while the relaxation rate of the nanoparticle obtained from T1 studies indicates that the PEG corona is a much more mobile environment than the interfacial methyl protons.
Biomedical imaging using hyperpolarized noble gas MRI: Pulse sequence considerations (1998)

Hyperpolarized noble gas MRI is a new technique for imaging of gas spaces and tissues that have been hitherto difficult to image, making it a promising diagnostic tool. The unique properties of hyperpolarized species, particularly the non-renewability of the large non-equilibrium spin polarization, raises questions about the feasibility of hyperpolarized noble gas MRI methods. In this paper, the critical issue of T1 relaxation is discussed and it is shown that a substantial amount of polarization should reach the targets of interest for imaging. We analyse various pulse sequence designs, and point out that total scan times can be decreased so that they are comparable or shorter than tissue T1 values. Pulse sequences can be optimized to effectively utilize the non-renewable hyperpolarization, to enhance the SNR, and to eliminate image artifacts. Hyperpolarized noble gas MRI is concluded to be quite feasible.
Effects of 4000 rad irradiation on the in vitro storage properties of packed red cells (1985)

Immunosuppressed patients who require red cell transfusions receive irradiated (1500-3000 rad) packed red cells. These cells are irradiated immediately before infusion. If a large group of patients become immunosuppressed due to exposure to radiation or chemicals, the ability to supply large volumes of irradiated blood at the time of use might not be possible. An alternate solution to providing quantities of irradiated blood is to irradiate the units prior to storage. This study presents in vitro data comparing storage of paired packed red cell units either irradiated or not irradiated. Five units of fresh blood drawn into citrate-phosphate-dextrose-adenine (CPDA-1) were packed to a hematocrit of 75 +/- 1 percent, and then each unit was divided in two equal parts. One of each pair was irradiated (4000 rads), and both parts of each unit were stored for 35 days at 4 degrees C. Samples were analyzed every 7 days. Irradiation caused a slight drop in red cell adenosine triphosphate and 2,3 diphosphoglycerate and a slight increase in plasma hemoglobin compared to controls. Methemoglobin, pH, and glucose consumption were identical to the controls. The evidence indicates that irradiation did not cause biochemical or metabolic changes in the red cells that would lead us to suspect a difference between irradiated and nonirradiated stored red cells in function or viability. These negative findings require in vivo confirmation.
LSD-Like Panic From Risperidone in Post-LSD Visual Disorder (1996)

Risperidone, a novel antipsychotic agent, is an antagonist of postsynaptic serotonin-2 and dopamine D2 receptors. In certain individuals, the hallucinogenic drug lysergic acid diethylamide (LSD) is associated with apparently lifelong continuous visual disturbances, characterized in DSM-IV as hallucinogen-persisting perception disorder (HPPD). Because the hallucinogenic mechanism of LSD is known to act in part at postsynaptic serotonin-2 receptors, it is noteworthy that three HPPD patients treated with risperidone reported an exacerbation of LSD-like panic and visual symptoms. We conclude that HPPD may be a relative contraindication for the use of risperidone.
Safety, Reactogenicity, and Immunogenicity of a Recombinant Protective Antigen Anthrax Vaccine Given to Healthy Adults (2007)

This recombinant Protective Antigen anthrax vaccine, when given with the adjuvant Alhydrogel to healthy adults in two intramuscular injections four weeks apart, is very well-tolerated and highly immunogenic.
Activation of prodrugs by antibody‐enzyme conjugates: a new approach to cancer therapy (1990)

A new strategy for the delivery of cytotoxic agents to solid tumors is described in which monoclonal antibodies are used as carriers for enzymes to tumor cell surfaces. The enzymes are chosen for their abilities to convert relatively noncytotoxic drug precursors (pro-drugs) into active anticancer drugs. The drugs thus formed can then penetrate into nearby tumor cells, resulting in cell death. A number of prodrugs have been developed that can be transformed into active anti-cancer drugs by enzymes of both mammalian and non-mammalian origin. The enzymes have been shown to localize into tumors when linked to monoclonal antibodies that bind to tumor-associated antigens. In vivo studies indicate that MAb-enzyme/prodrug combinations can result in antitumor activities significantly greater than those of the prodrugs or drugs given alone. This is most likely due to the generation of large amounts of active drug at the tumor site.
Chest x-ray generation and data augmentation for cardiovascular abnormality classification (2018)

Medical imaging datasets are limited in size due to privacy issues and the high cost of obtaining annotations. Augmentation is a widely used practice in deep learning to enrich the data in data-limited scenarios and to avoid overfitting. However, standard augmentation methods that produce new examples of data by varying lighting, field of view, and spatial rigid transformations do not capture the biological variance of medical imaging data and could result in unrealistic images. Generative adversarial networks (GANs) provide an avenue to understand the underlying structure of image data which can then be utilized to generate new realistic samples. In this work, we investigate the use of GANs for producing chest X-ray images to augment a dataset. This dataset is then used to train a convolutional neural network to classify images for cardiovascular abnormalities. We compare our augmentation strategy with traditional data augmentation and show higher accuracy for normal vs abnormal classification in chest X-rays.
Inaudible High-Frequency Sounds Affect Brain Activity: Hypersonic Effect (2000)

Although it is generally accepted that humans cannot perceive sounds in the frequency range above 20 kHz, the question of whether the existence of such "inaudible" high-frequency components may affect the acoustic perception of audible sounds remains unanswered. In this study, we used noninvasive physiological measurements of brain responses to provide evidence that sounds containing high-frequency components (HFCs) above the audible range significantly affect the brain activity of listeners. We used the gamelan music of Bali, which is extremely rich in HFCs with a nonstationary structure, as a natural sound source, dividing it into two components: an audible low-frequency component (LFC) below 22 kHz and an HFC above 22 kHz. Brain electrical activity and regional cerebral blood flow (rCBF) were measured as markers of neuronal activity while subjects were exposed to sounds with various combinations of LFCs and HFCs. None of the subjects recognized the HFC as sound when it was presented alone. Nevertheless, the power spectra of the alpha frequency range of the spontaneous electroencephalogram (alpha-EEG) recorded from the occipital region increased with statistical significance when the subjects were exposed to sound containing both an HFC and an LFC, compared with an otherwise identical sound from which the HFC was removed (i.e., LFC alone). In contrast, compared with the baseline, no enhancement of alpha-EEG was evident when either an HFC or an LFC was presented separately. Positron emission tomography measurements revealed that, when an HFC and an LFC were presented together, the rCBF in the brain stem and the left thalamus increased significantly compared with a sound lacking the HFC above 22 kHz but that was otherwise identical. Simultaneous EEG measurements showed that the power of occipital alpha-EEGs correlated significantly with the rCBF in the left thalamus. Psychological evaluation indicated that the subjects felt the sound containing an HFC to be more pleasant than the same sound lacking an HFC. These results suggest the existence of a previously unrecognized response to complex sound containing particular types of high frequencies above the audible range. We term this phenomenon the "hypersonic effect."