gebhart/patrepeval huggingface dataset:
Synthetic Gastritis Image Generation via Loss Function-Based Conditional PGGAN (2019)

In this paper, a novel synthetic gastritis image generation method based on a generative adversarial network (GAN) model is presented. Sharing medical image data is a crucial issue for realizing diagnostic supporting systems. However, it is still difficult for researchers to obtain medical image data since the data include individual information. Recently proposed GAN models can learn the distribution of training images without seeing real image data, and individual information can be completely anonymized by generated images. If generated images can be used as training images in medical image classification, promoting medical image analysis will become feasible. In this paper, we targeted gastritis, which is a risk factor for gastric cancer and can be diagnosed by gastric X-ray images. Instead of collecting a large amount of gastric X-ray image data, an image generation approach was adopted in our method. We newly propose loss function-based conditional progressive growing generative adversarial network (LC-PGGAN), a gastritis image generation method that can be used for a gastritis classification problem. The LC-PGGAN gradually learns the characteristics of gastritis in gastric X-ray images by adding new layers during the training step. Moreover, the LC-PGGAN employs loss function-based conditional adversarial learning so that generated images can be used as the gastritis classification task. We show that images generated by the LC-PGGAN are effective for gastritis classification using gastric X-ray images and have clinical characteristics of the target symptom.
The assessment of doses and effects from intakes of radioactive particles. (1996)

The behaviour of radionuclides after entry into the body and the radiation doses received by individual tissues depend on the chemical nature of the element, the physicochemical form of the intake, the radioactive half-life of the isotope and the type and energy of the emissions. Ingestion of radionuclides in insoluble particles will result in radiation doses being delivered to tissues of the gastrointestinal (GI) tract; other tissues will also be irradiated by nuclides with penetrating photons emissions (gamma) but doses may be largely confined to the GI tract for charged particle emissions (alpha, beta). Ingestion of more soluble forms will lead to greater absorption to blood and deposition in other tissues and therefore may result in greater doses to other tissues. Similar considerations apply to inhaled material and to the entry of radionuclides through cuts or wounds. For ingested materials, including particles, more information is needed on uptake and retention in intestinal tissues and consequent doses to sensitive cells, particularly for alpha emitters. There has been concern that the pattern of distribution of activity throughout irradiated tissues may influence the extent of damage, particularly for alpha emitters because of the localised deposition of energy and their greater relative biological effectiveness compared with beta/gamma emitters. Aggregation of activity has the potential to result in greater acute tissue damage and has been shown, for example, to result in focalised pneumonitis and fibrosis in the lung and ulceration of the skin. The main long-term effect of irradiation of tissues is the induction of malignant change, although hereditary disease may also be of concern following irradiation of the gonads. There are only limited data available to compare the effect on cancer induction of heterogeneous and homogeneous irradiation of tissues. However, the available information, for irradiation of the lung, skin or liver, indicates that in general nonuniform alpha irradiation from radioactive particles is no more hazardous, and may be less hazardous, than if the same activity is uniformly distributed.
Protein kinase C isoform-dependent modulation of ATP-sensitive K+ channels in mitochondrial inner membrane (2007)

The ATP-sensitive K(+) (K(ATP)) channels in both sarcolemmal (sarcK(ATP)) and mitochondrial inner membrane (mitoK(ATP)) are the critical mediators in cellular protection of ischemic preconditioning (IPC). Whereas cardiac sarcK(ATP) contains Kir6.2 and sulfonylurea receptor (SUR)2A, the molecular identity of mitoK(ATP) remains elusive. In the present study, we tested the hypothesis that protein kinase C (PKC) may promote import of Kir6.2-containing K(ATP) into mitochondria. Fluorescence imaging of isolated mitochondria from both rat adult cardiomyocytes and COS-7 cells expressing recombinant Kir6.2/SUR2A showed that Kir6.2-containing K(ATP) channels were localized in mitochondria and this mitochondrial localization was significantly increased by PKC activation with phorbol 12-myristate 13-acetate (PMA). Fluorescence resonance energy transfer microscopy further revealed that a significant number of Kir6.2-containing K(ATP) channels were localized in mitochondrial inner membrane after PKC activation. These results were supported by Western blotting showing that the Kir6.2 protein level in mitochondria from COS-7 cells transfected with Kir6.2/SUR2A was enhanced after PMA treatment and this increase was inhibited by the selective PKC inhibitor chelerythrine. Furthermore, functional analysis indicated that the number of functional K(ATP) channels in mitochondria was significantly increased by PMA, as shown by K(ATP)-dependent decrease in mitochondrial membrane potential in COS-7 cells transfected with Kir6.2/SUR2A but not empty vector. Importantly, PKC-mediated increase in mitochondrial Kir6.2-containing K(ATP) channels was blocked by a selective PKCepsilon inhibitor peptide in both COS-7 cells and cardiomyocytes. We conclude that the K(ATP) channel pore-forming subunit Kir6.2 is indeed localized in mitochondria and that the Kir6.2 content in mitochondria is increased by activation of PKCepsilon. PKC isoform-regulated mitochondrial import of K(ATP) channels may have significant implication in cardioprotection of IPC.
Viral Interference with Antigen Presentation to CD8 + T Cells: Lessons from Cytomegalovirus (2005)

Cytomegaloviruses (CMV), in common with other Herpesviruses, establish lifelong persistence in their hosts. These highly host-specific viruses each encode viral genes that interfere with antigen presentation to CD8+ T cells, although the molecular mechanisms by which this end is achieved differ for human and murine CMVs. In each case, there has been a presumption that these genes are necessary for virus persistence in the host. However, recent data in the murine model casts doubt on that presumption. Here, we review the molecular mechanisms of interference with the class I pathway, and the published data regarding functional significance, with a focus on the murine model.
Bone Seeking Radiopharmaceuticals for Palliation of Pain in Cancer Patients with Osseous Metastases (2007)

Many patients with cancer develop symptomatic skeletal metastases at an advanced stage of their disease. Skeletal metastases are often complicated by pain. They cause considerable morbidity and mortality. Besides analgesics, treatment options include external beam radiotherapy, bisphosphonates, chemotherapy, surgery and bone seeking radiopharmaceuticals. Pain palliation with bone seeking radiopharmaceuticals has proved to be an effective treatment modality in patients with metastatic bone pain. Radiopharmaceuticals bind to the bone matrix in areas of increased bone turnover, due to a metastatic response. Beta rays from the specific radionuclide, bound to its carrier ligand, result in the therapeutic effect. Various radiopharmaceuticals have been developed for this purpose. All have their own characteristics. The radiopharmaceuticals Samarium-153-ethylenediaminetetramethylenephosphonic acid ((153)Sm-EDTMP) and Strontium-89-Chloride, which are approved in the USA and Europe, as well as the not universally approved Rhenium-186-hydroxyethylidenediphosphonic acid ((186)Re-HEDP), will be discussed in greater detail. Depending on the half-life and radiation energy of the specific radionuclide, they exert a different effect and toxicity profile. In most cases, bone marrow toxicity is limited and reversible, which makes repetitive treatment relatively safe. Several studies have shown encouraging clinical results of palliative therapy using bone seeking radiopharmaceuticals, with an overall reported pain response rate in the order of +/- 70-80% of patients. This systemic form of radionuclide therapy is simple to administer and complements other treatment options. It has been associated with marked pain reduction, improved mobility in many patients, reduced dependence on analgesics, and improved performance status and quality of life. Additionally, new therapeutic strategies hold the promise of enhancement of the palliative and anticancer effects of this form of therapy.
New LV-BPD (low voltage buried photo-diode) for CMOS imager (2003)

We have developed a low voltage buried photodiode for CMOS imager, in order to achieve high quality reproduced images comparable to CCD imager. The new buried photodiode has been operated in complete charge transfer mode at low voltage of 33 V, and the image lag and kTC noise of the photodiode have been suppressed.
Macromolecular assemblage in the design of a synthetic AIDS vaccine. (1992)

We describe a peptide vaccine model based on the mimicry of surface coat protein of a pathogen. This model used a macromolecular assemblage approach to amplify peptide antigens in liposomes or micelles. The key components of the model consisted of an oligomeric lysine scaffolding to amplify peptide antigens covalently 4-fold and a lipophilic membrane-anchoring group to further amplify noncovalently the antigens many-fold in liposomal or micellar form. A peptide antigen derived from the third variable domain of glycoprotein gp120 of human immunodeficiency virus type 1 (HIV-1), consisting of neutralizing, T-helper, and T-cytotoxic epitopes, was used in a macromolecular assemblage model (HIV-1 linear peptide amino acid sequence 308-331 in a tetravalent multiple antigen peptide system linked to tripalmitoyl-S-glycerylcysteine). The latter complex, in liposome or micelle, was used to immunize mice and guinea pigs without any adjuvant and found to induce gp120-specific antibodies that neutralize virus infectivity in vitro, elicit cytokine production, and prime CD8+ cytotoxic T lymphocytes in vivo. Our results show that the macromolecular assemblage approach bears immunological mimicry of the gp120 of HIV virus and may lead to useful vaccines against HIV infection.
Characterization of a virG mutation that confers constitutive virulence gene expression in Agrobacterium (1993)

Transformation of plants by Agrobacterium tumefaciens is mediated by a set of virulence (vir) genes that are specifically induced by plant signal molecules through the VirA/VirG two-component regulatory system. The plant signal is transmitted from VirA to VirG by a cascade of phosphorylation reactions followed by the sequence-specific DNA binding of the VirG protein to the vir gene promoters which then activates their transcription. In this report, we describe a VirG mutant which is able to activate vir gene expression independently of the VirA molecule and the two plant signal molecules, acetosyringone and monosaccharides. A strain of Agrobacterium containing this virG gene but lacking a functional virA gene was able to induce tumours on all three plants that were tested. A single amino acid change of asparagine (N) to aspartate (D) at position 54, adjacent to the site of VirG phosphorylation, aspartate 52, resulted in this constitutive phenotype. In vitro phosphorylation experiments showed that the mutant protein cannot be phosphorylated by VirA, suggesting that the negative charge resulting from the N to D switch mimics the phosphorylated conformation of the VirG molecule. The same amino acid change in the virG gene of the supervirulent strain A281 also resulted in a constitutive phenotype. However, the vir genes were not induced to high levels when compared with the levels of the constitutive virG of strain A348.
Cloning of herpesviral genomes as bacterial artificial chromosomes (2003)

Herpesviruses, which are important pathogens for both animals and humans, have large and complex genomes with a coding capacity for up to 225 open reading frames (ORFs). Due to the large genome size and the slow replication kinetics in vitro of some herpesviruses, mutagenesis of viral genes in the context of the viral genome by conventional recombination methods in cell culture has been difficult. Given that mutagenesis of viral genes is the basic strategy to investigate function, many of the herpesvirus ORFs could not be defined functionally. Recently, a completely new approach for the construction of herpesvirus mutants has been developed, based on cloning of the virus genome as a bacterial artificial chromosome (BAC) in E. coli. This technique allows the maintenance of viral genomes as a plasmid in E. coli and the reconstitution of viral progeny by transfection of the BAC plasmid into eukaryotic cells. Any genetic modification of the viral genome in E. coli using prokaryotic recombination proteins is possible, thereby allowing the generation of mutant viruses and facilitating the analysis of herpesvirus genomes cloned as infectious BACs. In this review, we describe the principle of cloning a viral genome as a BAC using murine gammaherpesvirus 68 (MHV-68), a mouse model for gammaherpesvirus infections, as an example.
Methyl Orthocarboxylates as Methylating Agents of Heterocycles (2002)

Methylation reactions occurring between trimethyl orthocarboxylates or N,N-dimethylcarboxamide dimethyl acetals and various hydroxylated heterocycles, involving a lactam-lactim tautomeric equilibrium, were investigated as an alternative to classic methylation methods. The corresponding O-methylated or N-methylated compounds were isolated in a number of instances and the reaction’s regioselectivity was shown to sometimes follow and sometimes differ from the corresponding outcome using standard methylation methods. In the course of this work, previously unreported effects were noticed. In one case the use of toluene as a reaction solvent led to much more N-methylated material. In other instances, the influence of the reagent’s steric bulk and/or stability (orthoformate vs. orthoacetate or N,N-dimethylformamide dimethyl acetal vs. its acetamide homologue) was also noticed. An unwanted formylation reaction could sometimes be avoided and, less often, an increase of O-methylated material was observed. The previously unreported 1-dimethoxymethylpyridin-2(1H)-one was characterized and its acid-catalyzed rearrangement into, mostly, 1-methylpyridin-2(1H)-one was studied. The new techniques described here (methanol trapping with 4 Å molecular sieves and Lewis acid-catalyzed reaction) greatly increase the potential of trimethyl orthocarboxylates. These reagents can be considered as possible alternatives to the dimethyl formamide-producing N,N-dimethylformamide dimethyl acetal and may sometimes be attractive options compared to the usual carcinogenic and salt-producing methylating agents. (© Wiley-VCH Verlag GmbH, 69451 Weinheim, Germany, 2002)
Antibodies to β1‐integrins cause alterations of aortic vasculogenesis, in vivo (1992)

Vasculogenesis is the de novo formation of blood vessels from mesoderm. This process occurs very early in development and provides a convenient system for studying morphogenesis in higher vertebrates. The cell-extracellular matrix (ECM) interactions that occur during dorsal aortic vasculogenesis were examined using the monoclonal antibody, CSAT, a reagent known to neutralize the ligand-binding activity of avian beta 1-integrins. We injected CSAT into quail embryos during a period of active vasculogenesis (4-10 somites). The CSAT antibodies, but not controls, had a marked and reproducible effect on aortic vessel formation. Vasculogenesis appeared to be arrested at the stage when slender cord-like assemblies of angioblasts rearrange to form tubules. Indeed, aortic primordia near the site of CSAT injection did not form patent vessels.
160-A bulk GaN Schottky diode array (2003)

Pt Schottky rectifier arrays were fabricated on 200-μm-thick, freestanding GaN layers. Even with the reduced dislocation density in these layers (∼105 cm−2) relative to conventional GaN on sapphire (&amp;gt;108 cm−2), rectifiers fabricated on the freestanding GaN show a strong dependence of reverse breakdown on contact diameter. We show that by interconnecting the output of many (∼130) smaller (500 μm×500 μm) rectifiers, we can achieve high total forward output current (161 A at 7.12 V), low forward turn-on voltage of ∼3 V, and maintain the reverse breakdown voltage. The on/off ratio of the rectifier array was ∼8×107 at 5 V/−100 V.
Dielectric Food Data for Microwave Sterilization Processing (1975)

Using a cavity perturbation method we have extended our earlier measurements on the dependence of dielectric food data on temperature at the microwave frequencies of 2800, 900 and 450 MHz to temperatures from ±60°C up to ±140°C for a number of food products. Such high temperature data are required for microwave sterilization studies.The results obtained are in good agreement with previously reported data at the temperatures where such data are available.At temperatures above ±60°C, ε‘r decreases gently with temperature, whereas ε“rclearly increases, particularly at lower frequencies and for salty foods. Penetration depths calculated from the data show a clear advantage for the two lower frequencies only at temperatures below about 50°C.Application of the new data to computer simulations of microwave sterilization show that the resulting temperature depends to a large extent on the food composition as well as on the frequency.
Involvement of interferon-system in the regulation of cell growth and differentiation. (1990)

In this report we review the current knowledge on the involvement of the interferon (IFN) system in the regulation of cell growth and differentiation. We also summarize our own data which provide evidence for the strong correlation between IFN-mediated growth-arrest of transformed cells and the elevated enzymatic activity of an IFN-induced protein. Similarly, it is demonstrated that elevated levels of IFN-induced proteins accompany the early phases of in-vitro cell differentiation. IFN-treatment of NIH/3T3 mouse fibroblasts transformed by Moloney-murine sarcoma virus (MSV) resulted in a significant reduction in the rates of cell growth, protein synthesis and cloning efficiency. In parallel, 2-5A-synthetase activity was induced ten-fold above the background level. Treatment of these cells for 3 days with 450 international units (IU)/ml of IFN followed by its removal, resulted in a gradual increase in all parameters associated with cell growth while the 2-5A-synthetase activity was reduced to its normal level. However, almost no recovery occurred when cells were treated with 1,800 IU/ml. In parallel, 2-5A-synthetase activity remained highly elevated even at 3 days after the removal of IFN. In these cells, the expression of both c-myc and v-mos was reduced rapidly following IFN treatment. Upon removal of IFN after 24 h of treatment, the expression of both genes was resumed but with a different kinetics, suggesting that different mechanisms are responsible for the reduction in gene expression. In rat skeletal muscle cultures which differentiate to form myotubes, the level of both 2-5A-synthetase and protein kinase activities was transiently elevated, reaching a peak at 3 days followed by a decrease to background levels. This peak activity precedes the appearance of the major muscle differentiating proteins.
A Simplified Method for the Clinical-scale Generation of Central Memory-like CD8+ T Cells After Transduction With Lentiviral Vectors Encoding Antitumor Antigen T-cell Receptors (2010)

Adoptive transfer of antigen-specific CD8+ T cells can effectively treat patients with metastatic melanoma. Recent efforts have emphasized the in vitro generation of antitumor T cells by transduction of genes encoding antitumor T-cell receptors. At present, lentiviral vector-mediated transduction of CD8+ T cells relies on anti-CD3/CD28 bead stimulation; however, this method fails to efficiently expand CD8+ T cells. Herein we sought to establish a methodology for lentiviral vector transduction using optimal activating agents for efficient gene delivery and robust expansion of CD8+ T cells. To overcome the inability of anti-CD3/CD28 beads to efficiently expand CD8+ T cells, we evaluated alternative activating agents including feeder cells from allogeneic peripheral blood mononuclear cells and plate-bound anti-CD3 antibody. Analyses of gene transfer, cell phenotype, fold expansion, and biologic activities were used to determine the optimal methodology. Plate-bound anti-CD3 provided an ideal activation platform that afforded optimal lentiviral vector-mediated gene transfer efficiency (up to 90%), and coupled with peripheral blood mononuclear cells feeder cells yielded up to 600-fold expansion of CD8+ T cells within 12 days. The T-cell antigen receptor (TCR) engineered CD8+ T cells conferred specific antitumor activity and many displayed a central memory-like phenotype. The methodology described here could be readily applied for engineering CD8+ T cells with antitumor specificity for human adoptive immunotherapy.
An Organ Culture System for the Study of the Nucleus Pulposus: Description of the System and Evaluation of the Cells (2003)

Three factors contributed to success in maintaining the vitality of the nucleus pulposus in vitro. First, the cells were confined within the disc itself; second, the medium was hyperosmotic; third, the medium was supplemented with transforming growth factor-beta. The fluorescence measurement provided a rapid method for evaluation of the status of nucleus pulposus cells. Histologic analysis confirmed that the cells remained viable for at least 1 week. Viability in terms of biosynthetic activity was further confirmed using RT-PCR and Western blot analysis. We conclude that short-term intervertebral disc organ culture can be used as a suitable in vitro model to study effects of environmental factors linked to disc degeneration and/or regeneration.
SWIFT: Accelerated Proximity Queries Using Multi-Level Voronoi Marching (2000)

We present an accelerated proximity query algorithm between moving convex polyhedra. The algorithm combines Voronoi-based feature tracking with a multi-level-of-detail representation, in order to adapt to the variation in levels of coherence and speed up the computation. It provides a progressive refinement framework for collision detection and distance queries. We have implemented our algorithm and have observed significant performance improvements in our experiments, especially on scenarios where the motion coherence is low. 1