gebhart/patrepeval huggingface dataset:
A reverse turing test using speech (2002)

Hackers" have written malicious programs to exploit online services intended for human users.As a result, service providers need a method to tell whether a web site is being accessed by a human or a machine.We expect a parallel scenario as spoken language interfaces become common.In this paper, we describe a Reverse Turing Test (i.e., an algorithm that can distinguish between humans and computers) using speech.We present a test that depends on the fact that human recognition of distorted speech is far more robust than automatic speech recognition techniques.Our analysis of 18 different sets of distortions demonstrates that there are a variety of ways to make the problem hard for machines.In addition, humans and speech recognition systems make different kinds of mistakes, and this difference can be employed to improve discrimination.
Plasmacytoid dendritic cells inhibit pulmonary immunopathology and promote clearance of respiratory syncytial virus (2006)

Respiratory syncytial virus (RSV) infection is widely spread and is a major cause of bronchiolitis in infants and high-risk adults, often leading to hospitalization. RSV infection leads to obstruction and inflammation of the airways and induction of innate and acquired immune responses. Because dendritic cells (DCs) are essential in the elicitation of these immune responses, we investigated the presence and the role of dendritic cell subtypes upon RSV infection in the lung. Here, we report that RSV infection increased the number of both conventional and plasmacytoid dendritic cells in the lung and the lung-draining lymph nodes. In particular, the increase in plasmacytoid dendritic cell numbers was sustained and lasted until 30 d after infection. Depletion of plasmacytoid dendritic cells resulted in decreased RSV clearance. In addition, depletion of plasmacytoid dendritic cells resulted in an exacerbation of all manifestations of immune-mediated pathology caused by RSV infection. In conclusion, this study demonstrates that both conventional and plasmacytoid dendritic cells are attracted to the site of RSV infection. It is demonstrated that plasmacytoid dendritic cells play a protective role during RSV infection by modulation of local immune responses.
Human coronary microvessels in diabetes and ischaemia. Morphometric study of autopsy material (1992)

The objective of this study was to test the hypothesis that excessive severity of ischaemic heart disease in diabetics is due, in part, to capillary inadequacy. Sections from autopsied hearts of diabetic patients with and without myocardial infarction as well as from those of patients with infarcts and no diabetes were used for morphometric studies of intramural microvessels in areas without infarction. Normoglycaemic patients with normal hearts were also examined. Two to five transverse sections from each of 44 hearts (stained with methenamine silver) were examined for capillary numerical density, capillary to myofibre ratios, and myofibre diameters. Averages for each case and totals for each group were calculated and compared. Normoglycaemic patients with infarcts had increased morphometric values. Diabetics with infarcts had significantly lower capillary densities than the other groups. In conclusion, it is suggested that in diabetes there is an inadequate ischaemia-induced, reactive angiogenesis. This may contribute towards increased myocardial vulnerability in further ischaemic injury and perhaps to diabetic cardiomyopathy.
Myeloma Xenograft Destruction by a Nonviral Vector Delivering Oncolytic Infectious Nucleic Acid (2011)

The feasibility of using a nonviral vector formulation to initiate an oncolytic viral infection has not been previously demonstrated. We therefore sought to determine whether infectious nucleic acid (INA) could be used in place of virus particles to initiate an oncolytic picornavirus infection in vivo. Infectious RNA encoding coxsackievirus A21 (CVA21) was transcribed from plasmid DNA using T7 polymerase. Within 48 hours of injecting this RNA into KAS6/1 myeloma xenografts, high titers of infectious CVA21 virions were detected in the bloodstream. Tumors regressed rapidly thereafter and mice developed signs of myositis. At euthanasia, CVA21 was recovered from regressing tumors and from skeletal muscles. Treatment outcomes were comparable following intratumoral injection of naked RNA or fully infectious CVA21 virus. Dose-response studies showed that an effective oncolytic infection could be established by intratumoral injection of 1 µg of infectious RNA. The oncolytic infection could also be initiated by intravenous injection of infectious RNA. Our study demonstrates that INA is a highly promising alternative drug formulation for oncolytic virotherapy.
A Hypothesized Role for Dendritic Remodeling in the Etiology of Mood and Anxiety Disorders (2010)

An elegant theory that links hippocampal neurogenesis to mood and anxiety disorders and to the mechanism of action of antidepressant drugs has gained widespread attention. However, depression and anxiety disorders involve multiple areas of the brain, such as the amygdala and prefrontal cortex, where neurogenesis does not appear to occur in the adult mammalian brain. A complementary theory is proposed here in which neurogenesis is seen as an epiphenomenon of a more widespread alteration in dendritic length and spine number. According to this theory, exposure to chronic stress and stressful life events increases excitotoxic glutamatergic neurotransmission in multiple brain areas. To protect neurons from consequent apoptosis, dendrites retract and spine number decreases, thus limiting the number of exposed glutamate receptors. Drugs that reduce glutamatergic neurotransmission under these circumstances, many of which have already been shown helpful in treating mood and anxiety disorders, may prevent this dendritic retraction and thus protect synaptic connections throughout the brain.
Unity and Diversity in the Herpesviruses (1977)

Introduction. In this review we consider some attributes which may be characteristic of herpesviruses and some properties which distinguish between them. As we shall show, the systematic interpretation of information we now have on a few herpesviruses presents us with some difficulties. For many members of the group we are spared this embarrassment only by the virtual absence of information beyond the initial recognition of the existence of the virus and the allocation of an arbitrary label. Thus, although more than 70 viruses may be listed as presumptive members of the group, criteria allowing their inclusion vary from a brief description of particle morphology (e.g. viruses observed in snake venom, oysters and fungi) to the extensive antigenic, structural, biochemical and genetic characterization of the virus [e.g. herpes simplex virus types 1 and 2 (HSV-1, HSV-2)]. Moreover, the number of separately identifiable viruses which are currently attributed to particular hosts probably reflects the degree of interest in the host species and its afflictions rather than any preferential distribution of viruses.
Co‐stimulation of murine CD4 T cell growth: cooperation between B7 and heat‐stable antigen (1992)

The B cell activation antigen B7/BB1 has been shown to co-stimulate growth of human T cells by binding the T cell molecule CD28. In mice, the heat-stable antigen (HSA) has also been shown to act as a co-stimulator for T cell growth. In this study, we have evaluated the contributions of B7 and HSA to the co-stimulatory activity of antigen-presenting cells (APC). Mouse B7 provides co-stimulatory activity for murine CD4 T cells in anti-CD3-induced proliferation. Human CTLA4Ig, a chimeric molecule comprising the extracellular region of CTLA-4 fused to an immunoglobulin C gamma fragment, binds to murine B7. We, therefore, use human CTLA4Ig and the hamster anti-HSA monoclonal antibody 20C9 to analyze the relative contributions of B7 and HSA to the co-stimulatory activity of murine spleen APC. Our data reveal that both murine B7 and HSA are expressed by dendritic cells and by low-density spleen B cells. Either CTLA4Ig alone or anti-HSA alone inhibited CD4 T cell proliferation to anti-CD3 by > 90%, while CTLA4Ig and anti-HSA together were far more efficient in inhibiting clonal expansion of CD4 T cells. These results demonstrate that functionally defined co-stimulation involves at least B7 and HSA and suggest that signals delivered by B7 and HSA synergize in promoting T cell growth.
Ligation of B7 with CD28/CTLA‐4 on T cells results in CD40 ligand expression, interleukin‐4 secretion and efficient help for antibody production by B cells (1993)

It has been extensively shown that when T cells are co-stimulated with B7-CD28 interaction, a strong proliferative as well as cytolytic T cell response can be induced. In contrast, there exists only indirect evidence that the B7-CD28 interaction is of importance for the induction of T cell helper functions in B cell responses. Here we have used mouse fibroblasts transfected with the human Fc gamma receptor type II and human B7 to address this issue. We found that T cells, when activated through the T cell receptor (TcR)/CD3 complex with monoclonal antibodies and co-stimulated by B7-CD28 interaction, can provide efficient help for the induction of both IgM and IgG production by resting B cells. This helper activity is, at least in part, mediated by the interaction between the CD40 ligand on the T cells and CD40 on the B cells. We also demonstrate that more than one signal to the T cell is required for the induction of the CD40 ligand, one being delivered through the TcR/CD3 complex and the second by ligation of CD28 with the B7 molecule. In addition to the induction of cognate T helper function, we provide evidence that co-stimulation of T cells with B7-CD28 interaction can result in the secretion of both Th1- and Th2-type lymphokines.
Organ printing: Fiction or science (2004)

Aggregates of living cells (i.e. model tissue fragments) under appropriate conditions fuse like liquid drops. According to Steinberg's differential adhesion hypothesis (DAH), this may be understood by assuming that cells are motile and tissues made of such cells possess an effective surface tension. Here we show that based on these properties three‐dimensional cellular structures of prescribed shape can be constructed by a novel method: cell aggregate printing. Spherical aggregates of similar size made of cells with known adhesive properties were prepared. Aggregates were embedded into biocompatible gels. When the cellular and gel properties, as well as the symmetry of the initial configuration were appropriately adjusted the contiguous aggregates fused into ring‐like organ structures. To elucidate the driving force and optimal conditions for this pattern formation, Monte Carlo simulations based on a DAH motivated model were performed. The simulations reproduced the experimentally observed cellular arrangements and revealed that the control parameter of pattern evolution is the gel‐tissue interfacial tension, an experimentally accessible parameter.
Microsatellites for the genus Cucurbita and an SSR-based genetic linkage map of Cucurbita pepo L. (2008)

Until recently, only a few microsatellites have been available for Cucurbita, thus their development is highly desirable. The Austrian oil-pumpkin variety Gleisdorfer Olkürbis (C. pepo subsp. pepo) and the C. moschata cultivar Soler (Puerto Rico) were used for SSR development. SSR-enriched partial genomic libraries were established and 2,400 clones were sequenced. Of these 1,058 (44%) contained an SSR at least four repeats long. Primers were designed for 532 SSRs; 500 primer pairs produced fragments of expected size. Of these, 405 (81%) amplified polymorphic fragments in a set of 12 genotypes: three C. moschata, one C. ecuadorensis, and eight C. pepo representing all eight cultivar groups. On an average, C. pepo and C. moschata produced 3.3 alleles per primer pair, showing high inter-species transferability. There were 187 SSR markers detecting polymorphism between the USA oil-pumpkin variety "Lady Godiva" (O5) and the Italian crookneck variety "Bianco Friulano" (CN), which are the parents of our previous F(2) mapping population. It has been used to construct the first published C. pepo map, containing mainly RAPD and AFLP markers. Now the updated map comprises 178 SSRs, 244 AFLPs, 230 RAPDs, five SCARs, and two morphological traits (h and B). It contains 20 linkage groups with a map density of 2.9 cM. The observed genome coverage (Co) is 86.8%.
Prognostic relevance of plasminogen activators and their inhibitors in colorectal cancer. (1994)

Human colorectal carcinogenesis has been shown previously to be associated with impressive changes in the tissue levels of plasminogen activators and their inhibitors, exemplified by an increase in the urokinase-type plasminogen activator (u-PA) and the inhibitors PAI-1 and PAI-2, and a decrease in tissue-type plasminogen activator (t-PA). In the present study we evaluated the prognostic significance of these parameters to the overall survival of patients with colorectal cancer, in conjunction with several major clinicopathological parameters like age, gender, differentiation grade, and Dukes' stage. Univariate analyses revealed that a low t-PA antigen level, low t-PA activity, and high u-PA/t-PA antigen ratio in normal mucosa and a high u-PA and PAI-2 antigen level in carcinomas are prognostic for a poor overall survival of patients with colorectal cancer. The prognostic value of t-PA antigen and activity in normal mucosa, the antigen ratio of u-PA in carcinoma (C) and t-PA in corresponding normal (N) mucosa [u-PA(C)/t-PA(N) antigen ratio], and PAI-2 antigen in carcinomas was found to be independent from clinicopathological parameters by multivariate analyses. These observations illustrate the clinical importance of the plasminogen activation cascade at the tissue level in colorectal cancer invasion, metastasis, and survival.
Modulation of Quinol/Quinone-Thioether Toxicity by Intramolecular Detoxication (1995)

A variety of cytotoxic, mutagenic, and carcinogenic conjugates of GSH require processing by enzymes of the mercapturic acid pathway to produce toxicity. However, metabolism of quinone-thioethers by gamma-GT can result in either activation or detoxication. For example, inhibition of gamma-GT completely protects against the nephrotoxicity caused by 2-bromo-bis-(glutathion-S-yl)hydroquinone and 2,3,5-tris-(glutathion-S-ly)hydroquinone, whereas the same protocol potentiates the nephrotoxicity of 2,5-dichloro-3-(glutathion-S-yl)hydroquinone and 2,5,6-trichloro-3-(glutathion-S-yl)hydroquinone. Which of these two scenarios occur as a consequence of metabolism by gamma-GT appears to be determined by the relative rate at which the product is transported into cells and/or interacts with cellular constituents, and the rate which the product undergoes intramolecular detoxication (cyclization) to a 1,4-benzothiazine. The same reaction may also explain why the mercapturic acid metabolite of menadione is nephrotoxic following systemic administration, whereas the GSH conjugate is without activity. Species differences exist in susceptibility to both 2-bromo-bis-(glutathion-S-ly)hydroquinone and 2,3,5-tris(glutathion-S-ly)hydroquinone induced nephrotoxicity. In this case, however, susceptibility does not correlate with renal gamma-GT activity, but rather to differences in the rate at which the corresponding cysteine and N-acetylcysteine conjugates undergo N-acetylation/N-deacetylation cycling. Thus the guinea pig--which is the only other rodent species (in addition to the rat), that is susceptible to 2-bromo-bis-(glutathion-S-ly)hydroquinone and 2,3,5-tris-(glutathion-S-ly)hydroquinone mediated nephrotoxicity--expresses the lowest activity of renal gamma-GT but exhibits the highest N-deacetylation:N-acetylation ratio. Differences in kinetics of these two reactions therefore contribute to species susceptibility. The toxicity of quinol/quinone thioethers is dependent upon a number of physiological, biochemical, and electrochemical factors. The rates at which quinol-thioethers undergo oxidation, with the concomitant generation of reactive oxygen species (IV, Fig. 1), macromolecular arylation (V, Fig. 1), intramolecular cyclization (VI, Fig. 1), and acetylation-deacetylation cycling (III, Fig. 1) is dependent upon the substrate in question. All these factors will contribute to the cell, tissue, and species susceptibility of this interesting class of GSH conjugates.
CRISPR/Cas9 Nuclease-Mediated Gene Knock-In in Bovine-Induced Pluripotent Cells (2014)

Efficient and precise genetic engineering in livestock such as cattle holds great promise in agriculture and biomedicine. However, techniques that generate pluripotent stem cells, as well as reliable tools for gene targeting in livestock, are still inefficient, and thus not routinely used. Here, we report highly efficient gene targeting in the bovine genome using bovine pluripotent cells and clustered regularly interspaced short palindromic repeat (CRISPR)/Cas9 nuclease. First, we generate induced pluripotent stem cells (iPSCs) from bovine somatic fibroblasts by the ectopic expression of yamanaka factors and GSK3β and MEK inhibitor (2i) treatment. We observed that these bovine iPSCs are highly similar to naïve pluripotent stem cells with regard to gene expression and developmental potential in teratomas. Moreover, CRISPR/Cas9 nuclease, which was specific for the bovine NANOG locus, showed highly efficient editing of the bovine genome in bovine iPSCs and embryos. To conclude, CRISPR/Cas9 nuclease-mediated homologous recombination targeting in bovine pluripotent cells is an efficient gene editing method that can be used to generate transgenic livestock in the future.
Model-building Studies of Antigen-binding Sites: The Hapten-binding Site of MOPC-315 (1977)

The molecular basis for the structural diversity of antibody combining sites has become apparent through the recent X-ray diffraction studies on several immunoglobulin (Ig) fragments (see Davies et al. 1975a,b for a review). These structures reveal that the combining site is formed by bringing together the three hypervariable regions (Wu and Kabat 1970) of VL and of VH to form a continuous complementarity-providing surface. A quantitative comparison of the tertiary structures of a number of variable domains from both light and heavy chains has demonstrated that their nonhypervari-able or framework regions are very similar, with the principal differences occurring in the hypervariable loops (Padlan and Davies 1975).
Prenylated Prelamin A Interacts with Narf, a Novel Nuclear Protein (1999)

Prelamin A is farnesylated and methylated on the cysteine residue of a carboxyl-terminal CaaX motif. In the nucleus, prelamin A is processed to lamin A by endoproteolytic removal of the final 18 amino acids, including the farnesylated cysteine residue. Using the yeast two-hybrid assay, we isolated a novel human protein, Narf, that binds the carboxyl-terminal tail of prelamin A. Narf has limited homology to iron-only bacterial hydrogenases and eukaryotic proteins of unknown function. Narf is encoded by a 2-kilobase mRNA expressed in all human cell lines and tissues examined. The protein is detected in the nuclear fraction of HeLa cell lysates on Western blots and can be extracted from nuclear envelopes with 0.5 M NaCl. When a FLAG epitope-tagged Narf is expressed in HeLa cells, it is exclusively nuclear and partially co-localizes with the nuclear lamina. The farnesylation status of prelamin A determines its ability to bind to Narf. Inhibition of farnesyltransferase and mutation or deletion of the CaaX motif from the prelamin A tail domain inhibits Narf binding in yeast two-hybrid and in vitro binding assays. The prenyl-dependent binding of Narf to prelamin A is an important first step in understanding the functional significance of the lamin A precursor.
Outcome After Pancreatectomy and Islet Autotransplantation in a Pediatric Population (2008)

Pancreatectomy can relieve pain in pediatric patients with chronic pancreatitis and the majority can withdraw from narcotics. Islet autotransplantation can prevent or reduce the severity of diabetes in about three fourths of patients. Outcome goals were reached in a higher proportion of younger than older children.
Synthesis of Taxol and Taxotere Side Chains by 2-(Trimethylsilyl)thiazole Based Homologation of L-Phenylglycine (1995)

L-Phenylglycine is homologated by the use of 2-(trimethylsilyl)thiazole into (2R,3S)-N-benzoyl- and N-tert-butoxycarbonyl-3-phenylisoserine, which are isolated as acetonide derivatives in 47 and 35% overall yields and with 84 and 90% ee, respectively.
Anodic Hydrogen Electrode Reaction in Aluminum Chloride-1-Ethyl-3-methylimidazolium Chloride Ionic Liquids (2005)

The anodic hydrogen electrode reaction was examined in the Lewis acidic 66.7-33.3 mole percent (m/o) aluminum chloride-1-ethyl-3-methylimidazolium chloride (AlCl3-EtMeImCl) ionic liquid and the LiCl-buffered neutral AlCl3-EtMeImCl ionic liquid containing LiAlH4. Raman spectroscopy experiments revealed that the Al2Cl7− anion in the acidic ionic liquid is directly involved in the dissolution of the LiAlH4. Electrochemical hydrogen generation was verified by gas chromatography and XRD for Pd and Ti electrodes polarized in the ionic liquid. The hydrogen electrode reaction was irreversible, i.e., it followed an EirCir mechanism in the 66.7 m/o ionic liquid at 298 K. However, it was quasireversible in the LiCl-buffered ionic liquid at 353 K and appeared to follow an EqrCir mechanism.
Variation in C:N:S Stoichiometry and Nutrient Storage Related to Body Size in a Holometabolous Insect (Curculio davidi) (Coleoptera: Curculionidae) Larva (2015)

Body size can be an important factor controlling consumer stoichiometry. In holometabolous insects, body size is typically associated with nutrient storage. Consumer stoichiometry is known to vary within species across a range of body sizes; however, the contribution of nutrient storage to this variation is not well understood. We used the fifth-instar larvae of the oak weevil (Coleoptera: Curculio davidi Fairmaire), which is characterized by a high capacity for nutrient storage, to investigate the effect of shifts in nutrient storage with body mass on variations in larva stoichiometry. Our results showed that weevil larvae with larger body mass had a lower carbon (C) content, reflecting decreases in the sequestration rate of C-rich lipids. Larger larvae had elevated concentrations of nitrogen (N), sulfur (S), and protein. The similar patterns of variation in elemental composition and macromolecule storage with body weight indicate that the shift in nutrient storage is the main factor causing the variation in larval stoichiometry with body weight. This finding was further supported by the low variation in residual larval biomass C, N, and S concentrations after lipid extraction. These results help decipher the physiological mechanism of stoichiometric regulation in growing organisms.