gebhart/patrepeval huggingface dataset:
Broad Thumbs and Toes and Facial Abnormalities (1963)

Although a large number of diseases, conditions, and syndromes associated with mental retardation have been described, it has been the discouraging experience of physicians dealing with retarded children that relatively few cases may be specifically classified or diagnosed despite intensive evaluations. Many of the children manifest facial peculiarities along with other physical findings and often resemble neither their parents nor their siblings. The clinician frequently has the feeling that the child should fit into some syndrome; however, each case usually presents an isolated and unique group of findings not resembling the picture seen in other retarded children who are evaluated. It was a rather unusual and exciting experience to find two unrelated children who seemed to resemble each other closely enough to make one wonder if they might not have the same syndrome. After studying these two patients with their array of similar clinical findings, their reports and photographs were
Symptomatic therapy in multiple sclerosis (2011)

Multiple sclerosis is the most common disabling neurological disease of young adults. The ability to impact the quality of life of patients with multiple sclerosis should not only incorporate therapies that are disease modifying, but should also include a course of action for the global multidisciplinary management focused on quality of life and functional capabilities.
Bacillus and Other Spore-Forming Genera: Variations in Responses and Mechanisms for Survival (2015)

The ubiquity of Bacilli endospores in soils facilitates their easy transfer routes to other environments, including cleanrooms and low-biomass sites required by many industries such as food production and processing. A bacterial endospore is a metabolically dormant form of life that is much more resistant to heat, desiccation, lack of nutrients, exposure to UV and gamma radiation, organic chemicals, and oxidizing agents than is a vegetative cell. For example, the heat tolerance of endospores depends on multiple factors such as sporulation temperature, core dehydration, and the presence of minerals and small, acid-soluble proteins (SASPs) in the core. This review describes our current understanding of the persistence mechanisms related to sporeformers' biochemical properties and discusses in detail spores' heat, radiation, and reactive chemical resistance. In addition, it discusses the impact of contamination with spores on many areas of human activity, spore adhesive properties, and biofilm contribution to resistance.
THE PHYSIOLOGY OF CHOLECYSTOKININ IN BRAIN AND GUT (1982)

Journal Article THE PHYSIOLOGY OF CHOLECYSTOKININ IN BRAIN AND GUT Get access G J DOCKRAY, PhD G J DOCKRAY, PhD The Physiological Laboratory, University of Liverpool Search for other works by this author on: Oxford Academic PubMed Google Scholar British Medical Bulletin, Volume 38, Issue 3, 1982, Pages 253–258, https://doi.org/10.1093/oxfordjournals.bmb.a071769 Published: 01 September 1982
Detecting intrusions using system calls: alternative data models (2003)

Intrusion detection systems rely on a wide variety of observable data to distinguish between legitimate and illegitimate activities. We study one such observable-sequences of system calls into the kernel of an operating system. Using system-call data sets generated by several different programs, we compare the ability of different data modeling methods to represent normal behavior accurately and to recognize intrusions. We compare the following methods: simple enumeration of observed sequences; comparison of relative frequencies of different sequences; a rule induction technique; and hidden Markov models (HMMs). We discuss the factors affecting the performance of each method and conclude that for this particular problem, weaker methods than HMMs are likely sufficient.
Cleaved cavity optically pumped InGaN–GaN laser grown on spinel substrates (1996)

We report an optically pumped multiple-quantum-well laser of InGaN–GaN grown on cubic, (111)-oriented spinel substrates. The laser cavity is formed by cleaving. Atomic force microscopy shows that the cleaved GaN and spinel facets are of similar flatness. The onset of lasing is clearly demonstrated by the saturation of spontaneous emission, abrupt line narrowing, and the highly polarized light output. A lasing threshold power of 140 kW/cm2 is measured in a 400-μm-long cavity at 150 K.
Inactivation of CDK2 is synthetically lethal to MYCN over-expressing cancer cells (2009)

Two genes have a synthetically lethal relationship when the silencing or inhibiting of 1 gene is only lethal in the context of a mutation or activation of the second gene. This situation offers an attractive therapeutic strategy, as inhibition of such a gene will only trigger cell death in tumor cells with an activated second oncogene but spare normal cells without activation of the second oncogene. Here we present evidence that CDK2 is synthetically lethal to neuroblastoma cells with MYCN amplification and over-expression. Neuroblastomas are childhood tumors with an often lethal outcome. Twenty percent of the tumors have MYCN amplification, and these tumors are ultimately refractory to any therapy. Targeted silencing of CDK2 by 3 RNA interference techniques induced apoptosis in MYCN-amplified neuroblastoma cell lines, but not in MYCN single copy cells. Silencing of MYCN abrogated this apoptotic response in MYCN-amplified cells. Inversely, silencing of CDK2 in MYCN single copy cells did not trigger apoptosis, unless a MYCN transgene was activated. The MYCN induced apoptosis after CDK2 silencing was accompanied by nuclear stabilization of P53, and mRNA profiling showed up-regulation of P53 target genes. Silencing of P53 rescued the cells from MYCN-driven apoptosis. The synthetic lethality of CDK2 silencing in MYCN activated neuroblastoma cells can also be triggered by inhibition of CDK2 with a small molecule drug. Treatment of neuroblastoma cells with roscovitine, a CDK inhibitor, at clinically achievable concentrations induced MYCN-dependent apoptosis. The synthetically lethal relationship between CDK2 and MYCN indicates CDK2 inhibitors as potential MYCN-selective cancer therapeutics.
Spectral and imaging properties of uniform diffusers (1984)

The use of thin phase diffusers in coherent imaging systems is analyzed. A condition is derived that must be fulfilled to ensure that no part of incident light is specularly transmitted. This condition is expressed in terms of first-order statistics of the phase of light emerging from a diffuser. It is shown that random diffusers whose amplitude-transmittance argument (phase) is uniformly distributed in the (−π, π) interval do not pass the specular light while their rms phase corresponds to only 0.29 of a wavelength. Such diffusers will be called uniform ones. A method for forming a uniform diffuser is proposed. It is based on a recording of normal speckle patterns in phase-photosensitive materials with consideration of the exposure characteristics. Autocorrelation functions and power spectra of diffuser transmittance are evaluated for two types of exposure characteristics. For both these cases the image contrast of the uniformly illuminated diffuser is calculated.
Signaling by Myeloid C-Type Lectin Receptors in Immunity and Homeostasis (2012)

Myeloid cells are key drivers of physiological responses to pathogen invasion or tissue damage. Members of the C-type lectin receptor (CLR) family stand out among the specialized receptors utilized by myeloid cells to orchestrate these responses. CLR ligands include carbohydrate, protein, and lipid components of both pathogens and self, which variably trigger endocytic, phagocytic, proinflammatory, or anti-inflammatory reactions. These varied outcomes rely on a versatile system for CLR signaling that includes tyrosine-based motifs that recruit kinases, phosphatases, or endocytic adaptors as well as nontyrosine-based signals that modulate the activation of other pathways or couple to the uptake machinery. Here, we review the signaling properties of myeloid CLRs and how they impact the role of myeloid cells in innate and adaptive immunity.
Regulation of carcinoembryonic antigen expression in different human colorectal tumor cells by interferon-gamma. (1990)

The regulation of carcinoembryonic antigen (CEA) expression by recombinant human interferon-gamma (IFN-gamma) was studied in a series of 7 human colorectal tumor cell lines at various stages of differentiation. Two of the colorectal cell lines were poorly differentiated and did not constitutively express CEA. IFN-gamma treatment, however, induced CEA expression in one of those lines (i.e., DLD-1) as evidenced by the appearance of CEA-related mRNA transcripts, as well as the cell surface expression of the antigen as measured by flow cytometry and radioimmunoassay. In the highly differentiated colorectal tumor cell lines, IFN-gamma treatment resulted in no detectable change in CEA content in whole cell extracts or in the percentage of cells positive for cell surface CEA expression. In fact, IFN-gamma treatment of the highly differentiated LS174T cell line not only failed to alter CEA expression, but also failed to induce class II human leukocyte antigen expression. Therefore, the highly differentiated LS174T cell line and the poorly differentiated MIP cell line represent colorectal tumor cell types that are unresponsive to the ability of IFN-gamma to induce alterations in tumor (i.e., CEA) or normal (i.e., class I and class II human leucocyte antigen) surface antigen expression. The most responsive of human colorectal tumor cells to the ability of IFN-gamma to alter CEA expression were the moderately differentiated cell lines (i.e., HT-29, WiDr, etc.). IFN-gamma treatment of those cell types increased the CEA content in cell extracts by 300-400%, and increased the percentage of cells positive for surface CEA expression from 30-45% to greater than 80%. The effect of IFN-gamma treatment on 2',5'-oligoadenylate synthetase (2'-5' A) activity was also studied using 4 of the 7 colorectal cell lines. Constitutive 2'-5' A activity varied approximately 14-fold and was not correlated with degree of cellular differentiation. IFN-gamma treatment increased 2'-5' A activity in all 4 colorectal tumor cells tested. In particular, the ability to enhance 2'-5' A activity in the MIP and LS174T cells, 2 colorectal tumor cell types that previously were shown to be unresponsive to IFN-gamma-mediated changes in their antigenic phenotype, clearly separates cellular events regulating 2'-5' A activity from those involved in regulating cell surface antigen expression. The findings also suggested that the regulation of CEA expression by IFN-gamma is not related to the degree of cellular differentiation and, furthermore, provide some insight into which human tumor cell populations may be the most amenable to tumor antigen augmentation by IFN-gamma in an adjuvant setting with a monoclonal antibody.
Neural stimulation with magnetic fields: analysis of induced electric fields (1992)

Spatial distributions of the derivative of the electric field induced in a planar semi-infinite tissue model by various current-carrying coils and their utility in neural stimulation are evaluated. Analytical expressions are obtained for the electric field and its spatial derivatives produced by an infinitely short current element. Fields and their derivatives for an arbitrarily shaped coil are then obtained by numerical summation of contributions from all the elements forming the coil. The simplicity of the solution and a very short computation time make this method particularly attractive for gaining a physical insight into the spatial behavior of the stimulating parameter and for the optimization of coils. Such analysis is useful as the first step before undertaking a more complex numerical analysis of a model more closely representing the tissue geometry and heterogeneity.
Evaluation of the IDI-MRSA Assay for Detection of Methicillin-Resistant Staphylococcus aureus from Nasal and Rectal Specimens Pooled in a Selective Broth (2006)

Rapid detection of methicillin-resistant Staphylococcus aureus (MRSA) by PCR can be performed directly from nasal specimens with the IDI-MRSA assay. To improve the efficiency of screening, we evaluated the performance of the IDI-MRSA assay for the detection of MRSA from pooled and unpooled specimens cultured in a selective broth. Of the 287 specimens evaluated, 71 were culture and PCR positive, 203 were culture and PCR negative, 3 were culture positive and PCR negative, 8 were culture negative and PCR positive, and 2 remained inhibited. A methicillin-susceptible Staphylococcus aureus isolate was recovered from five of the eight specimens with false-positive PCR results. Compared to the results of culture, the sensitivity, specificity, and positive and negative [corrected] predictive values of the IDI-MRSA assay for detection of MRSA from broth were 96%, 96%, 90%, and 98%, respectively. Following implementation of the IDI-MRSA assay, PCR-positive broths were subcultured for evaluation of assay performance. Of the 298 IDI-MRSA assay-positive broths, the results for 103 could not be confirmed by culture. A methicillin-susceptible S. aureus (MSSA) isolate was recovered from 77 of these 103 broths. Repeat testing by the IDI-MRSA assay directly with the MSSA isolates confirmed the original positive PCR result. The positive predictive value of the IDI-MRSA assay fell from 90% during the evaluation phase to 65% postimplementation. The IDI-MRSA assay performed well for the detection of MRSA from a selective broth compared to the performance of the detection of MRSA from culture. However, because of the burden associated with implementation of infection control precautions, cultures remain essential in confirming positive IDI-MRSA results.
Role of active and latent transforming growth factor β in bone formation (1994)

At first reading the statement "TGF beta stimulates bone formation but inhibits mineralization" may appear to be an oxymoron. However, the bone formation process can take weeks to months to complete, and the unique properties of TGF beta allow this factor to be stored in bone matrix in a latent form, ready to be activated and inactivated at key, pivotal stages in this long process. TGF beta may act to trigger the cascade of events that ultimately leads to new bone formation. However, once this process is initiated, TGF beta must then be inactivated or removed because if present in the later stages of bone formation, mineralization will be inhibited. The unique properties of TGF beta and its role in bone remodeling are the subject of this review.
Entacapone enhances levodopa‐induced reversal of motor disability in MPTP‐treated common marmosets (1997)

Oral administration of levodopa (L-dopa) (2.5-25.0 mg/kg) plus carbidopa (12.5 mg/kg p.o.) to MPTP-treated common marmosets produced a dose-related increase in locomotor activity and a corresponding decrease in motor disability. Pretreatment with the peripheral COMT inhibitor entacapone (12.5 mg/kg p.o.) enhanced the intensity and duration of the increase in locomotor activity and the reversal of motor disability produced by a threshold dose of L-dopa (2.5 mg/kg p.o.) plus carbidopa. By contrast, entacapone pretreatment did not potentiate the increased locomotor activity or reversal of motor disability produced by a near-maximal dose of L-dopa (12.5 mg/kg p.o.) plus carbidopa. The effects of entacapone (5.0-25.0 mg/kg p.o.) were dose related, with doses of > 12.5 mg/kg tending to produce less potentiation of L-dopa's effects compared to lower doses. Pretreatment with entacapone (12.5 mg/kg p.o.) without carbidopa caused a short-lasting enhancement of L-dopa's (12.5 mg/kg p.o.) action, whereas pretreatment with carbidopa (12.5 mg/kg p.o.) alone had a more dramatic effect. However, pretreatment with both carbidopa and entacapone produced the greatest overall motor response. In conclusion, entacapone enhances the motor response produced by a low-threshold dose of L-dopa plus carbidopa. However, optimization of both the dose of L-dopa and entacapone appears necessary to obtain the maximal therapeutic response.
Shape transformations of soft matter governed by bi-axial stresses (2015)

Rational design of the programmable soft matter requires understanding of the effect of a complex metric on shape transformations of thin non-Euclidean sheets. In the present work, we explored experimentally and using simulations how simultaneous or consecutive application of two orthogonal perturbations to thin patterned stimuli-responsive hydrogel sheets affects their three-dimensional shape transformations. The final shape of the sheet is governed by the metric, but not the order, in which the perturbations are applied to the system, and is determined by the competition of small-scale bidirectional stresses. In addition, a new, unexpected transition from a planar state to an equilibrium helical shape of the hydrogel sheet is observed via a mechanism that is yet to be explained.
Induction of reproducible brain infarction by photochemically initiated thrombosis (1985)

We have used a photochemical reaction in vivo to induce reproducible thrombosis leading to cerebral infarction in rats. After the intravenous injection of rose bengal, a potent photosensitizing dye, an ischemic lesion was formed by irradiating the left parietal convexity of the exposed skull for 20 minutes with green light (560 nm) from a filtered xenon arc lamp. Animals were allowed to survive from 30 minutes to 15 days after irradiation. Early microscopic alterations within the irradiated zone included the formation of thrombotic plugs and adjacent red blood cell stasis within pial and parenchymal vessels. Scanning electron microscopy revealed frequent platelet aggregates adhering to the vascular endothelium, often resulting in vascular occlusion. Carbon-black brain perfusion demonstrated that occlusion of vascular channels progressed after irradiation and was complete within 4 hours. Histopathological examination at 1, 5, and 15 days revealed that the associated infarct evolved reproducibly through several characteristic stages, including a phase of massive macrophage infiltration. Although cerebral infarction in this model is initiated by thrombosis of small blood vessels, the fact that the main pathological features of stroke are consistently reproduced should permit its use in assessing treatment regimens. Further, the capability of producing infarction in preselected cortical regions may facilitate the study of behavioral, functional, and structural consequences of acute and chronic stroke.
Implementation of perfectly matched layers in an arbitrary geometrical boundary for elastic wave modelling (2008)

SUMMARY The perfectly matched layer (PML) absorbing boundary condition is incorporated into an irregular-grid elastic-wave modelling scheme, thus resulting in an irregular-grid PML method. We develop the irregular-grid PML method using the local coordinate system based PML splitting equations and integral formulation of the PML equations. The irregular-grid PML method is implemented under a discretization of triangular grid cells, which has the ability to absorb incident waves in arbitrary directions. This allows the PML absorbing layer to be imposed along arbitrary geometrical boundaries. As a result, the computational domain can be constructed with smaller nodes, for instance, to represent the 2-D half-space by a semicircle rather than a rectangle. By using a smooth artificial boundary, the irregular-grid PML method can also avoid the special treatments to the corners, which lead to complex computer implementations in the conventional PML method. We implement the irregular-grid PML method in both 2-D elastic isotropic and anisotropic media. The numerical simulations of a VTI lamb’s problem, wave propagation in an isotropic elastic medium with curved surface and in a TTI medium demonstrate the good behaviour of the irregular-grid PML method.
Doxorubicin entrapped in sterically stabilized liposomes: effects on bacterial blood clearance capacity of the mononuclear phagocyte system. (1998)

The introduction of long-circulating liposomes sterically stabilized by surface coating with polyethylene glycol has expanded the potential for drug targeting to tumors. In recent clinical studies, evidence of significant antitumor activity has been obtained with the industrially prepared formulation of long-circulating polyethylene glycol-coated liposomes containing doxorubicin, referred to as DOXIL. Previous studies performed in rats showed that doxorubicin-containing liposomes can exert major toxic effects on the liver macrophage population for a considerable period of time; a strong impairment of phagocytic function and even a substantial depletion of the liver macrophage populations were observed. In the present study, the phagocytic function of the mononuclear phagocyte system (MPS) after administration of DOXIL at a clinically relevant dosage schedule was evaluated in rats. Phagocytic function of the MPS was assessed by determining bacterial blood clearance capacity. The observations reported herein show that DOXIL is fairly well tolerated regarding bacterial blood clearance capacity of the MPS when administered in a regimen that resembles the clinical setting closely. This outcome has important implications with regard to the clinical utility of the liposomal drug, especially in the restricted context of immunocompromised cancer patients who easily develop systemic infections and should not be confronted with a therapy-induced reduction of the bacterial blood clearance capacity of the MPS.
IRE1α activation protects mice against acetaminophen-induced hepatotoxicity (2012)

The mammalian stress sensor IRE1α plays a central role in the unfolded protein, or endoplasmic reticulum (ER), stress response by activating its downstream transcription factor XBP1 via an unconventional splicing mechanism. IRE1α can also induce the degradation of a subset of mRNAs in a process termed regulated IRE1-dependent decay (RIDD). Although diverse mRNA species can be degraded by IRE1α in vitro, the pathophysiological functions of RIDD are only beginning to be explored. Acetaminophen (APAP) overdose is the most frequent cause of acute liver failure in young adults in the United States and is primarily caused by CYP1A2-, CYP2E1-, and CYP3A4-driven conversion of APAP into hepatotoxic metabolites. We demonstrate here that genetic ablation of XBP1 results in constitutive IRE1α activation in the liver, leading to RIDD of Cyp1a2 and Cyp2e1 mRNAs, reduced JNK activation, and protection of mice from APAP-induced hepatotoxicity. A pharmacological ER stress inducer that activated IRE1α suppressed the expression of Cyp1a2 and Cyp2e1 in WT, but not IRE1α-deficient mouse liver, indicating the essential role of IRE1α in the down-regulation of these mRNAs upon ER stress. Our study reveals an unexpected function of RIDD in drug metabolism.
A Honeycomb Collagen Carrier for Cell Culture as a Tissue Engineering Scaffold (2001)

As a three-dimensional carrier for cell culture, a honeycomb structure cell scaffold was created from atelopeptide collagen Types I, II, and III. The diameter of the honeycomb pores ranged from 100 to 1,000 microm. The depth of the pores was from 10 to 3,000 mm. The scaffold was elastic and hard. Creation of various shapes was easy, and these shapes were easily maintained. Human fibroblasts, CHO-K1, BHK-21, and bovine endothelial cells were cultured with the scaffold. The growth curves of these cells were satisfactory. These results suggest that this carrier is a suitable scaffold for cell culture and will be useful as a three-dimensional tissue engineering scaffold.