gebhart/patrepeval huggingface dataset:
Genomic structure of the human prototype strain H of hepatitis C virus: comparison with American and Japanese isolates. (1991)

Genomic RNA from the human prototype strain H of the hepatitis C virus (HCV-H) has been molecularly cloned and sequenced. The HCV-H sequence reported consists of 9416 nucleotides including the 5' and 3' untranslated regions. HCV-H shows 96% amino acid identity with the American isolate HCV-1 but only 84.9% with the Japanese isolates HCV-J and HCV-BK. In addition to the hypervariable region (region V) previously identified in the putative E2 domain, three other variable domains were identified: region V1 (putative E1), region V2 (putative E2), and region V3 (putative NS5). These regions appear rather conserved (86-100%) among the American isolates (HCV-1 and HC-J1) or among various Japanese isolates (HCV-J, HCV-BK, HCV-JH, and HC-J4) but show striking heterogeneity when the two subgroups are compared (42-87.5% amino acid difference). A structural similarity between the 5'-terminal hairpin structure of HCV and of poliovirus was observed. This study further suggests the existence of at least two genomic subtypes of HCV and confirms a distant relationship between HCV and pestiviruses.
The gut microbiota, environment and diseases of modern society (2012)

The human gut microbiota is a complex community that provides important metabolic functions to the host. Consequently, alterations in the gut microbiota have been associated with the pathogenesis of several human diseases associated with a disturbance in metabolism, particularly those that have been increasing in incidence over the last several decades including obesity, diabetes and atherosclerosis. In this review, we explore how advances in deep DNA sequencing technology have provided us a greater understanding of the factors that influence that composition of the gut microbiota and its possible links to the pathogenesis of these diseases.
Recovering pulse rate during motion artifact with a multi-imager array for non-contact imaging photoplethysmography (2014)

Photoplethysmography relies on characteristic changes in the optical absorption of tissue due to pulsatile (arterial) blood flow in peripheral vasculature. Sensors for observing the photoplethysmographic effect have traditionally required contact with the skin surface. Recent advances in non-contact imaging photoplethysmography have demonstrated that measures of cardiopulmonary system state, such as pulse rate, pulse rate variability, and respiration rate, can be obtained from a participant by imaging their face under relatively motionless conditions. A critical limitation in this method that must be resolved is the inability to recover these measures under conditions of head motion artifact. To investigate the adequacy of channel space dimensionality for the use of blind source separation in this context, nine synchronized, visible spectrum imagers positioned in a semicircular array centered on the imaged participant were used for data acquisition in a controlled lighting environment. Three-lead electrocardiogram and finger-tip reflectance photoplethysmogram were also recorded as ground truth signals. Controlled head motion artifact trial conditions were compared to trials in which the participant remained stationary, with and without the aid of a chinrest. Bootstrapped means of one-minute, non-overlapping trial segments show that, for situations involving little to no head motion, a single imager is sufficient for recovering pulse rate with an average absolute error of less than two beats per minute. However, error in the recovered pulse rate measurement for the single imager can be as high as twenty-two beats per minute when head motion artifact is severe. This increase in measurement error during motion artifact was mitigated by increasing the dimensionality of the imager channel space with multiple imagers in the array prior to applying blind source separation. In contrast to single-imager results, the multi-imager channel space resulted in an absolute error in the recovered pulse rate measurement that is comparable with pulse rate measured via fingertip reflectance photoplethysmography. These results demonstrate that non-contact, imaging photoplethysmography can be accurate in the presence of head motion artifact when a multi-imager array is implemented to increase the dimensionality of the decomposed channel space.
The Pharmacology and Clinical Use of Methotrexate (1983)

METHOTREXATE, the most widely used antimetabolite in cancer chemotherapy, has an essential role in the treatment of such diverse diseases as acute lymphocytic leukemia, non-Hodgkin's lymphoma, osteosarcoma, choriocarcinoma, head and neck cancer, and breast cancer.1 It has also become an important therapeutic alternative in the treatment of severe psoriasis2 and in the suppression of graft-versus-host disease after bone-marrow transplantation,3 as well as in the experimental treatment of various rheumatic diseases after primary therapy has failed.4 Through pharmacologic research we have gained an understanding of the basic steps in the action of methotrexate, including its transport across cell membranes, its intracellular . . .
Improved Production and Antitumor Properties of Triterpene Acids from Submerged Culture of Ganoderma lingzhi (2016)

Triterpene acids (TAs) are the major bioactive constituents in the medicinal fungus <i>Ganoderma lingzhi</i>. However, fermentative production of TAs has not been optimized for commercial use, and whether the TAs isolated from <i>G. lingzhi</i> submerged culture mycelia possess antitumor activity needs to be further proven. In this study, enhanced TA yield and productivity were attained with <i>G. lingzhi</i> using response surface methodology. The interactions of three variables were studied using a Box-Benhnken design, namely initial pH, dissolved oxygen (DO) and fermentation temperature. The optimum conditions were an initial pH of 5.9, 20.0% DO and 28.6 °C. These conditions resulted in a TA yield of 308.1 mg/L in a 5-L stirred bioreactor. Furthermore, the optimized conditions were then successfully scaled up to a production scale of 200 L, and maximum TA production and productivity of 295.3 mg/L and 49.2 mg/L/day were achieved, which represented 80.9% and 111.5% increases, respectively, compared with the non-optimized conditions. Additionally, the triterpene acid extract (TAE) from <i>G. lingzhi</i> mycelia was found to be cytotoxic to the SMMC-7721 and SW620 cell lines in vitro, and the TAE exhibited dose-dependent antitumor activity against the solid tumor sarcoma 180 in vivo. Chemical analysis revealed that the key active triterpene compounds, ganoderic acid T and ganoderic acid Me, predominated in the extract.
Antimicrobial enzymes: An emerging strategy to fight microbes and microbial biofilms (2013)

With the increasing prevalence of antibiotic resistance, antimicrobial enzymes aimed at the disruption of bacterial cellular machinery and biofilm formation are under intense investigation. Several enzyme-based products have already been commercialized for application in the healthcare, food and biomedical industries. Successful removal of complex biofilms requires the use of multi-enzyme formulations that contain enzymes capable of degrading microbial DNA, polysaccharides, proteins and quorum-sensing molecules. The inclusion of anti-quorum sensing enzymes prevents biofilm reformation. The development of effective complex enzyme formulations is urgently needed to deal with the problems associated with biofilm formation in manufacturing, environmental protection and healthcare settings. Nevertheless, advances in synthetic biology, enzyme engineering and whole DNA-Sequencing technologies show great potential to facilitate the development of more effective antimicrobial and anti-biofilm enzymes.
A universal vaccine for serogroup B meningococcus (2006)

Meningitis and sepsis caused by serogroup B meningococcus are two severe diseases that still cause significant mortality. To date there is no universal vaccine that prevents these diseases. In this work, five antigens discovered by reverse vaccinology were expressed in a form suitable for large-scale manufacturing and formulated with adjuvants suitable for human use. The vaccine adjuvanted by aluminum hydroxide induced bactericidal antibodies in mice against 78% of a panel of 85 meningococcal strains representative of the global population diversity. The strain coverage could be increased to 90% and above by the addition of CpG oligonucleotides or by using MF59 as adjuvant. The vaccine has the potential to conquer one of the most devastating diseases of childhood.
Peptidomimetics for Receptor Ligands—Discovery, Development, and Medical Perspectives (1993)

Abstract Peptides, as neurotransmitters, neuromodulators, and hormones, influence a multitude of physiological processes by signal transduction mediated through receptors. In addition, during the last 20 years their role in the appearance or maintenance of various diseases could be unequivocally proven. Agents that can imitate or block the biological functions of bioactive peptides (agonists or antagonists, respectively) can be considered as aids for the investigation of peptidergic systems and also as therapeutic agents. The suitability of bioactive peptides as therapeutic agents was examined after preliminary pharmacological experiments. It was thereby shown that based on their pharmacological properties, for example degradation by peptidases or poor bioavailability, they could be employed as drugs in only a few cases. To solve this problem peptidomimetics, compounds that act as substitutes for peptides in their interaction with receptors, have been synthesized. In comparison with native peptides they show higher metabolic stability, better bioavailability, and longer duration of action. Peptidomimetics with antagonistic properties were also developed within the range of these investigations. As a result, new types of treatment and therapy for a series of diseases are possible. Although peptidomimetics have been developed largely by empirical methods (e.g. modification of native peptides, optimization of lead structures), methods for rational design based on investigations into the structure of peptidepeptide receptor complexes and studies of conformation energies, among others, are gradually being established.
Cellular Pharmacology of the Anti-Hepatitis B Virus Agent β-l-2′,3′-Didehydro-2′,3′-Dideoxy-N4-Hydroxycytidine: Relevance for Activation in HepG2 Cells (2009)

Beta-l-2',3'-didehydro-2',3'-dideoxy-N(4)-hydroxycytidine (l-Hyd4C) was demonstrated to be an effective and highly selective inhibitor of hepatitis B virus (HBV) replication in HepG2.2.15 cells (50% effective dose [ED(50)] = 0.03 microM; 50% cytotoxic dose [CD(50)] = 2,500 microM). In the present study, we investigated the intracellular pharmacology of tritiated l-Hyd4C in HepG2 cells. l-[(3)H]Hyd4C was shown to be phosphorylated extensively and rapidly to the 5'-mono-, 5'-di-, and 5'-triphosphate derivatives. Other metabolites deriving from a reduction or removal of the NHOH group of l-Hyd4C could not be detected, although both reactions were described as the primary catabolic pathways of the stereoisomer ss-d-N(4)-hydroxycytidine in HepG2 cells. Also, the formation of liponucleotide metabolites, such as the 5'-diphosphocholine derivative of l-Hyd4C, as described for some l-deoxycytidine analogues, seems to be unlikely. After incubation of HepG2 cells with 10 microM l-[(3)H]Hyd4C for 24 h, the 5'-triphosphate accumulated to 19.4 +/- 2.7 pmol/10(6) cells. The predominant peak belonged to 5-diphosphate, with 43.5 +/- 4.3 pmol/10(6) cells. The intracellular half-life of the 5'-triphosphate was estimated to be 29.7 h. This extended half-life probably reflects a generally low affinity of 5'-phosphorylated l-deoxycytidine derivatives for phosphate-degrading enzymes but may additionally be caused by an efficient rephosphorylation of the 5'-diphosphate during a drug-free incubation. The high 5'-triphosphate level and its extended half-life in HepG2 cells are consistent with the potent antiviral activity of l-Hyd4C.
Inflammatory microcrystals stimulate interleukin‐6 production and secretion by human monocytes and synoviocytes (1989)

Crystal-related joint diseases are often associated with systemic inflammatory manifestations, including increased levels of acute-phase proteins, leukocytosis, and fever. Recently, interleukin-6 (IL-6) has been identified as a pluripotent mediator of inflammatory and immunologic responses and the major hepatocyte-stimulating factor. In this study, we demonstrated that monosodium urate (MSU) and calcium pyrophosphate dihydrate (CPPD) crystals, and to a lesser extent, hydroxyapatite crystals, increased IL-6 production by synoviocytes and monocytes in vitro. Immunoprecipitation experiments showed that MSU and CPPD crystals, but not hydroxyapatite crystals, were able to increase the release of newly synthesized IL-6. Crystal-induced IL-6 stimulated acute-phase protein synthesis, immunoglobulin production, and hybridoma cell proliferation, which was neutralized by a specific antibody to IL-6. High levels of IL-6 were found in synovial fluid from patients with gout and pseudogout. These results demonstrate that MSU and CPPD crystals can induce IL-6 production in synoviocytes and monocytes, and that synovial fluid from patients with gout and pseudogout contains high levels of IL-6. Crystal-induced IL-6 is likely to be an important mediator of inflammatory responses in acute gout and pseudogout.
Delivery of AAV2/9-Microdystrophin Genes Incorporating Helix 1 of the Coiled-Coil Motif in the C-Terminal Domain of Dystrophin Improves Muscle Pathology and Restores the Level of α1-Syntrophin and α-Dystrobrevin in Skeletal Muscles of mdx Mice (2011)

Duchenne muscular dystrophy is a severe X-linked inherited muscle wasting disorder caused by mutations in the dystrophin gene. Adeno-associated virus (AAV) vectors have been extensively used to deliver genes efficiently for dystrophin expression in skeletal muscles. To overcome limited packaging capacity of AAV vectors (<5 kb), truncated recombinant microdystrophin genes with deletions of most of rod and carboxyl-terminal (CT) domains of dystrophin have been developed. We have previously shown the efficiency of mRNA sequence-optimized microdystrophin (ΔR4-23/ΔCT, called MD1) with deletion of spectrin-like repeat domain 4 to 23 and CT domain in ameliorating the pathology of dystrophic mdx mice. However, the CT domain of dystrophin is thought to recruit part of the dystrophin-associated protein complex, which acts as a mediator of signaling between extracellular matrix and cytoskeleton in muscle fibers. In this study, we extended the ΔR4-23/ΔCT microdystrophin by incorporating helix 1 of the coiled-coil motif in the CT domain of dystrophin (MD2), which contains the α1-syntrophin and α-dystrobrevin binding sites. Intramuscular injection of AAV2/9 expressing CT domain-extended microdystrophin showed efficient dystrophin expression in tibialis anterior muscles of mdx mice. The presence of the CT domain of dystrophin in MD2 increased the recruitment of α1-syntrophin and α-dystrobrevin at the sarcolemma and significantly improved the muscle resistance to lengthening contraction-induced muscle damage in the mdx mice compared with MD1. These results suggest that the incorporation of helix 1 of the coiled-coil motif in the CT domain of dystrophin to the microdystrophins will substantially improve their efficiency in restoring muscle function in patients with Duchenne muscular dystrophy.
Adoptive transfer of in vitro-targeted, activated T lymphocytes results in total tumor regression (1997)

Adoptive immunotherapy of cancer uses the transfer of tumor-reactive immune cells. The success of this procedure is dependent upon the specificity of the transferred immune cells, their number, and their ability to reach their target cells. We genetically modified T lymphocytes and equipped them with the ability to specifically recognize tumor cells. Tumor cells overexpressing the ErbB-2 receptor served as a model. The target cell recognition specificity is conferred to T lymphocytes by transduction of a chimeric gene encoding the zeta-chain of the TCR and a single chain antibody (scFv(FRP5)) directed against the human ErbB-2 receptor. The chimeric scFv(FRP5)-zeta gene was introduced into primary mouse T lymphocytes via retroviral gene transfer. Naive T lymphocytes were activated and infected by cocultivation with a retrovirus-producing packaging cell line. The scFv(FRP5)-zeta fusion gene was expressed in >75% of the T cells. These T cells lysed ErbB-2-expressing target cells in vitro with high specificity. We tested the antitumor efficacy of scFv(FRP5)-zeta-expressing T cells in a syngeneic BALB/c model. The mice were treated with autologous, transduced T cells. The adoptively transferred scFv(FRP5)-zeta-expressing T cells caused total regression of ErbB-2-expressing tumors. The presence of the transduced T lymphocytes in the tumor tissue was monitored. No humoral response directed against the transduced T cells was observed. Abs directed against the ErbB-2 receptor were detected upon tumor lysis.
Vechten of verplegen? Ontstaan en begintijd van het huis en de balije Utrecht (1997)

oefenen en alsof de potentile weldoeners dat ook meteen inzagen.Stereotiep is de voorstelling dat de eerste oversten, onder bescherming van machtige heiligen, in korte tijd voor een stevig materieel fundament zorgden, waarop
Signaling by ROS drives inflammasome activation (2010)

Inflammasomes are innate immune signaling pathways that sense pathogens and injury to direct the proteolytic maturation of inflammatory cytokines such as IL-1beta and IL-18. Among inflammasomes, the NLRP3/NALP3 inflammasome is the most studied. However, little is known on the molecular mechanisms that mediate its assembly and activation. Recent findings suggest that ROS are produced by NLRP3/NALP3 activators and are essential secondary messengers signaling NLRP3/NALP3 inflammasome activation.
Dendrimers with a Photoactive and Redox-Active [Ru(bpy)3]2+-Type Core:  Photophysical Properties, Electrochemical Behavior, and Excited-State Electron-Transfer Reactions (1999)

We report the synthesis of six new dendrimers built around a [Ru(bpy)3]2+-type core (bpy = 2,2‘-bipyridine) and bearing up to 24 4‘-tert-butylphenyloxy or 48 benzyl units in the periphery. The metallodendrimers were obtained by complexation of ruthenium trichloride or Ru(bpy)2Cl2 with bipyridine ligands carrying dendritic wedges in the 4,4‘-positions. The absorption spectra and luminescence properties (spectra and lifetimes at 77 and 298 K; quantum yields at 298 K) of the six novel compounds are reported. All of them show the characteristic luminescence of the [Ru(bpy)3]2+-type core unit. The dendritic branches protect the luminescent excited state of the core by dioxygen quenching. For the three compounds containing the 4‘-tert-butylphenyloxy peripheral units, the electrochemical behavior and the excited-state quenching via electron transfer were also studied. The electrochemical experiments have evidenced an oxidation and three reduction one-electron processes centered in the [Ru(bpy)3]2+-type core and two multielectron oxidation processes involving the dioxybenzene- and oxybenzene-type units of the dendritic branches. The core of the largest dendrimer shows an electrochemical behavior typical of encapsulated electroactive units. The reaction of the luminescent excited state of the [Ru(bpy)3]2+-type core with three electron-transfer quenchers (namely, methyl viologen dication, tetrathiafulvalene, and anthraquinone-2,6-disulfonate anion) was found to take place by a dynamic mechanism in all cases. The quenching rate constants, obtained by Stern−Volmer kinetic analysis, are compared with those found for the simple [Ru(bpy)3]2+ complex. The results show that, for each quencher, the value of the rate constant decreases with increasing number and size of the dendritic branches. For the second-generation dendrimer containing 24 4‘-tert-butylphenyloxy units at the periphery, the rate constant of the reaction with methyl viologen is more than 1 order of magnitude smaller than that of the “naked” [Ru(bpy)3]2+ complex. All the experiments were performed in acetonitrile solution, except for luminescence experiments at 77 K where butyronitrile was used.
Capillary blood sampling: How much pain is necessary? Part 4: Comparison of lancets for automatic lancing devices (1996)

Abstract Six lancets for automatic lancing devices were examined for puncture pain and blood volume in 51 healthy subjects. The lancets were used in a Glucolet® device (nominal penetration depth 1 mm). All lancets caused only slight pain of similar intensity. Blood volumes, however, differed considerably between the lancets.
Some Observations on Mycoplasma-Cidal Activity of Horse Serum. (1992)

[in Japanese]
Functionally Active Recombinant α and β Chain-Peptide Complexes of Human Major Histocompatibility Class II Molecules (1996)

Major histocompatibility (MHC) class II molecules are cell surface heterodimeric (alphabeta) glycoproteins that display processed antigens to T cell receptors (TCRs) of CD4-positive T cells. The present study describes that individual recombinant alpha and beta chains of human MHC class II molecules lacking the transmembrane region (alpha-Tm and beta-Tm) are capable of binding antigenic peptide and that these complexes of chain-peptide are recognized by TCRs to induce antigen-specific apoptosis in restricted T cells. The alpha-Tm and the beta-Tm of human HLA-DR2 (DRB5*0101) were cloned, expressed in Escherichia coli, and purified in large scale by conventional chromatographic methods. The in vitro binding of an immunodominant epitope from the myelin basic protein (MBP-(83-102)Y83) to purified DR2 alpha-Tm and DR2 beta-Tm was demonstrated with biotinylated and fluoresceinated MBP-(83-102)Y83 peptide. The specificity of the MBP-(83-102)Y83 peptide binding to both DR2 alpha-Tm and DR2 beta-Tm was demonstrated in a competitive peptide binding assay. When exposed to a transformed T cell clone (SS8T) restricted to DR2(DRB5*0101) and MBP-(84-102) peptide, complexes of DR2 alpha-Tm and DR2 beta-Tm with MBP-(83-102)Y83 peptide were able to specifically recognize TCRs as measured by the increase in gamma-interferon (gamma-IFN) cytokine. Such recognition of TCRs by soluble alpha-MBP-(83-102)Y83 and beta-MBP-(83-102)Y83 complexes led to the induction of antigen-specific apoptosis in SS8T cells as measured by double fluorescence flow cytometry and electron microscopy. These results provide the first evidence that soluble complexes of antigenic peptide and individual chains of human MHC class II molecules lacking the transmembrane region can recognize TCRs and induce antigen-specific apoptosis in T cells. Since activated CD4-positive T cells are involved in pathogenesis of various autoimmune diseases, the apoptosis triggered by individual soluble chain-peptide complexes has significant potential for eliminating autoreactive T cells.