gebhart/patrepeval huggingface dataset:
Composition of perineuronal nets in the adult rat cerebellum and the cellular origin of their components (2005)

The decrease in plasticity that occurs in the central nervous system during postnatal development is accompanied by the appearance of perineuronal nets (PNNs) around the cell body and dendrites of many classes of neuron. These structures are composed of extracellular matrix molecules, such as chondroitin sulfate proteoglycans (CSPGs), hyaluronan (HA), tenascin-R, and link proteins. To elucidate the role played by neurons and glial cells in constructing PNNs, we studied the expression of PNN components in the adult rat cerebellum by immunohistochemistry and in situ hybridization. In the deep cerebellar nuclei, only large excitatory neurons were surrounded by nets, which contained the CSPGs aggrecan, neurocan, brevican, versican, and phosphacan, along with tenascin-R and HA. Whereas both net-bearing neurons and glial cells were the sources of CSPGs and tenascin-R, only the neurons expressed the mRNA for HA synthases (HASs), cartilage link protein, and link protein Bral2. In the cerebellar cortex, Golgi neurons possessed PNNs and also synthesized HASs, cartilage link protein, and Bral2 mRNAs. To see whether HA might link PNNs to the neuronal cell surface by binding to a receptor, we investigated the expression of the HA receptors CD44, RHAMM, and LYVE-1. No immunolabelling for HA receptors on the membrane of net-bearing neurons was found. We therefore propose that HASs, which can retain HA on the cell surface, may act as a link between PNNs and neurons. Thus, HAS and link proteins might be key molecules for PNN formation and stability.
Dead Cas Systems: Types, Principles, and Applications (2019)

The gene editing tool CRISPR-Cas has become the foundation for developing numerous molecular systems used in research and, increasingly, in medical practice. In particular, Cas proteins devoid of nucleolytic activity (dead Cas proteins; dCas) can be used to deliver functional cargo to programmed sites in the genome. In this review, we describe current CRISPR systems used for developing different dCas-based molecular approaches and summarize their most significant applications. We conclude with comments on the state-of-art in the CRISPR field and future directions.
Adrenergic modulation of focal adhesion kinase protects human ovarian cancer cells from anoikis (2010)

Chronic stress is associated with hormonal changes that are known to affect multiple systems, including the immune and endocrine systems, but the effects of stress on cancer growth and progression are not fully understood. Here, we demonstrate that human ovarian cancer cells exposed to either norepinephrine or epinephrine exhibit lower levels of anoikis, the process by which cells enter apoptosis when separated from ECM and neighboring cells. In an orthotopic mouse model of human ovarian cancer, restraint stress and the associated increases in norepinephrine and epinephrine protected the tumor cells from anoikis and promoted their growth by activating focal adhesion kinase (FAK). These effects involved phosphorylation of FAKY397, which was itself associated with actin-dependent Src interaction with membrane-associated FAK. Importantly, in human ovarian cancer patients, behavioral states related to greater adrenergic activity were associated with higher levels of pFAKY397, which was in turn linked to substantially accelerated mortality. These data suggest that FAK modulation by stress hormones, especially norepinephrine and epinephrine, can contribute to tumor progression in patients with ovarian cancer and may point to potential new therapeutic targets for cancer management.
How to optimize intracardiac blood flow tracking by echocardiographic particle image velocimetry? Exploring the influence of data acquisition using computer-generated data sets (2011)

To achieve accurate vorticity measurements, frame rate acquisitions as 113 fps and contrast bubble density of 19 bubbles/mL are needed.
Electrical Impedance Myography as a Biomarker of Myostatin Inhibition with ActRIIB-mFc: a Study in Wild-Type Mice (2018)

EIM outcomes can serve as effective biomarkers of myostatin signaling inhibition, demonstrating a dose sensitivity and correlation to standard assessments.
Seroconversion against Lutzomyia longipalpis Saliva Concurrent with the Development of Anti– Leishmania chagasi Delayed‐Type Hypersensitivity (2002)

Antibody responses to salivary gland sonicate (SGS) from Lutzomyia longipalpis were investigated using serum samples from individuals living in an area where visceral leishmaniasis is endemic. Individuals were classified into 2 groups, according to the alteration of their responses to Leishmania chagasi antigen over the course of 6 months. Group 1 included children who experienced anti-L. chagasi seroconversion from negative to positive; group 2 included children who experienced delayed-type hypersensitivity (DTH) response to L. chagasi antigen conversion from negative to positive. Individuals who experienced seroconversion against L. chagasi antigens did not have increased anti-saliva antibody response, whereas those who developed a positive anti-L. chagasi DTH response had increased immunoglobulin (Ig) G, IgG1 and IgE anti-SGS antibody levels. Despite wide variation, serum samples from individuals in group 2 recognized more bands in SGS than did those from individuals in group 1. This simultaneous appearance of anti-saliva humoral response and anti-L. chagasi cell-mediated immunity supports the hypothesis that induction of immune response against SGS can facilitate induction of a protective response against leishmaniasis.
lmerTest Package: Tests in Linear Mixed Effects Models (2017)

One of the frequent questions by users of the mixed model function lmer of the lme4 package has been: How can I get p values for the F and t tests for objects returned by lmer? The lmerTest package extends the 'lmerMod' class of the lme4 package, by overloading the anova and summary functions by providing p values for tests for fixed effects. We have implemented the Satterthwaite's method for approximating degrees of freedom for the t and F tests. We have also implemented the construction of Type I - III ANOVA tables. Furthermore, one may also obtain the summary as well as the anova table using the Kenward-Roger approximation for denominator degrees of freedom (based on the KRmodcomp function from the pbkrtest package). Some other convenient mixed model analysis tools such as a step method, that performs backward elimination of nonsignificant effects - both random and fixed, calculation of population means and multiple comparison tests together with plot facilities are provided by the package as well.
Chatbots for Enterprises: Outlook (2019)

Chatbots are going to be the main tool for automated conversations with customers. Still, there is no consistent methodology for choosing a suitable chatbot platform for a particular business. This paper proposes a new method for chatbot platform evaluation. To describe the current state of chatbot platforms, two high-level approaches to chatbot platform design are discussed and compared. WYSIWYG platforms aim to simplicity but may lack some advanced features. All-purpose chatbot platforms require extensive technical skills and are more expensive but give their users more freedom in chatbot design. We provide an evaluation of six major chatbot solutions. The proposed method for the chatbot selection is demonstrated on two sample businesses - a large bank and a small taxi service.
Growth suppression by p16ink4 requires functional retinoblastoma protein. (1995)

p16ink4 has been implicated as a tumor suppressor that is lost from a variety of human tumors and human cell lines. p16ink4 specifically binds and inhibits the cyclin-dependent kinases 4 and 6. In vitro, these kinases can phosphorylate the product of the retinoblastoma tumor suppressor gene. Thus, p16ink4 could exert its function as tumor suppressor through inhibition of phosphorylation and functional inactivation of the retinoblastoma protein. Here we show that overexpression of p16ink4 in certain cell types will lead to an arrest in the G1 phase of the cell cycle. In addition, we show that p16ink4 can only suppress the growth of human cells that contain functional pRB. Moreover, we have compared the effect of p16ink4 expression on embryo fibroblasts from wild-type and RB homozygous mutant mice. Wild-type embryo fibroblasts are inhibited by p16ink4, whereas the RB nullizygous fibroblasts are not. These data not only show that the presence of pRB is crucial for growth suppression by p16ink4 but also indicate that the pRB is the critical target acted upon by cyclin D-dependent kinases in the G1 phase of the cell cycle.
Building information systems for mobile environments (1994)

It is expected that in the near future, tens of millions of users will have access to distributed information systems through wireless connections. The technical characteristics of the wireless medium and the resulting mobility of both data resources and data consumers raise new challenging questions regarding the development of information systems appropriate for mobile environments. In this paper, we report on the development of such a system. First, we describe the general architecture of the information system and the main considerations of our design. Then, based on these considerations, we present our system support for maintaining the consistency of replicated data and for providing transaction schemas that account for the frequent but predictable disconnections, the mobility, and the vulnerability of the wireless environment.
Deletion of p16 and p15 genes in brain tumors. (1994)

We have used molecular genetic methods to examine the status of cell cycle-inhibitory genes in human brain tumors. We found that p16 and a neighboring gene, p15, were often homozygously deleted in glioblastoma multiformes but not in medulloblastomas or ependymomas. The deletions occurred in both primary tumors and their derived xenografts, but no intragenic mutations in either of the two genes were found. The p15 gene was expressed in a more widespread pattern in normal tissues than p16, but the products of both genes had similar capacities to bind to cyclin D-dependent kinases 4 and 6. These data suggest that the target of deletion in glioblastoma multiforme includes both p15 and p16 genes. The reason that homozygous deletions, rather than intragenic mutations, are so common in these tumors may be that deletion is a more efficient mechanism for simultaneous inactivation of both genes.
Aromatic l‐amino acid decarboxylase deficiency: clinical features, drug therapy and follow‐up (2009)

AADC deficiency is a severe neurometabolic disorder, characterized by muscular hypotonia, dystonia, oculogyric crises and additional extraneurological symptoms. Medical treatment is challenging, but a systematic trial of the different drugs is worthwhile.
Studies on the constituents of Ailanthus altissima Swingle. II. Alkaloidal constituents. (1981)

1-Acetyl-4-methoxy-β-carboline (I), canthin-6-one (VIIIa), 1-methoxycanthin-6-one (VIIIb), and canthin-6-one-3N-oxide (IXa), and three new alkaloids, 1-(2'-hydroxyethyl)-4-methoxy-β-carboline (IIa), 1-(1', 2'-dihydroxyethyl)-4-methoxy-β-carboline (IIIa), and 1-methoxycanthin-6-one-3N-oxide (IXb), were isolated from the root bark of Ailanthus altissima SWINGLE (Simaroubaceae). The structures of IIa, IIIa, and IXb were elucidated by spectroscopic and chemical studies.
Astrocyte Responses to CNS Injury (1994)

Journal Article Astrocyte Responses to CNS Injury Get access Michael D. Norenberg, M.D. Michael D. Norenberg, M.D. Department of Pathology, University of Miami School of MedicineDepartment of Biochemistry, University of Miami School of MedicineDepartment of Molecular Biology, University of Miami School of MedicineLaboratory of Neuropathology, Veterans Affairs Medical Center, Miami, Florida Correspondence to: Michael D. Norenberg, M.D., Department of Pathology (D-33), University of Miami School of Medicine, P.O. Box 016960, Miami, FL 33101. Search for other works by this author on: Oxford Academic PubMed Google Scholar Journal of Neuropathology & Experimental Neurology, Volume 53, Issue 3, May 1994, Pages 213–220, https://doi.org/10.1097/00005072-199405000-00001 Published: 01 May 1994
The fracture toughness of inorganic glasses (2017)

Abstract Measuring the fracture toughness ( K Ic ) of glasses still remains a difficult task, raising experimental and theoretical problems as well. The available methods to estimate K Ic are reviewed, with emphasis on their respective advantages and drawbacks. In view of our current understanding, this analysis gives precedence to the SEPB method. The ultimate glass strength, the critical flaw size, and the indentation load for the onset of crack initiation are discussed, in the light of the fundamentals of fracture mechanics and classical background regarding the mechanics of brittle materials. Analytical expressions were further proposed to predict the fracture energy and fracture toughness of glasses from different chemical systems from their nominal compositions. The theoretical values were compared with the experimental ones, as obtained by self‐consistent methods when available. The agreement observed in most cases suggests that measured K Ic values correspond to the crack propagation regime (as opposed to the crack initiation threshold), and supports previous investigations in glasses and ceramics, which showed that a crack tip is nearly atomically sharp in these materials (but for metallic glasses). Some ideas to design tougher glasses are finally presented.
Iodocyclofunctionalization of (Z)-1-trichloroacetimidoyloxyalk-2-enes and 3-trichloroacetimidoyloxyalk-1-enes. Synthesis of (±)-erythro-sphinganine triacetate and (±)-threo-sphinganine triacetate (1986)

(Z)-1-Trichloroacetimidoyloxyoctadec-2-ene, easily obtained from (Z)-octadec-2-en-1-ol, was iodocyclized with N-iodosuccinimide to give the 4-(1-iodohexadecyl)-2-trichloromethyl-4,5-dihydro-oxazole. From this compound, two routes were developed, either to pure (±)-erythro-sphinganine triacetate or to pure (±)-threo-sphinganine triacetate, respectively. The neutral cleavage of 4-(1-iodohexadecyl)-2-trichloromethyl-4,5-dihydro-oxazole gave the corresponding amide which, by treatment with Amberlyst A 26 (CO32– form), afforded the cis-4-hydroxymethyl-5-pentadecyl-2-trichloromethyl-4,5-dihydro-oxazole together with a minor amount of cis-2-hydroxymethyl-3-pentadecylaziridine. After hydrolysis of the oxazole and full acetylation, (±)-erythro-sphinganine triacetate was obtained in 70% yield. On the other hand, acidic cleavage of the 4-(1-iodohexadecyl)oxazole 2-amino-3-iodo-octadecan-1-ol hydrochloride, which was directly treated with Amberlyst A 26 (AcO– form). The product was acetylated and (±)-threo-sphinganine triacetate was recovered in 70% yield after chromatographic separation.As an alternative, 3-trichloroacetimidoyloxyoctadec-1-ene was cyclized with N-iodosuccinimide to give a 20:80 cis:trans mixture of 4-iodomethyl-5-pentadecyl-2-trichloromethyl-4,5-dihydro-oxazoles. After ring cleavage, the corresponding ring-opened hydrochlorides were obtained. The mixture was then treated with Amberlyst A 26 (AcO– form) and the product was directly acetylated. After silica gel chromatography, (±)-threo-sphinganine triacetate and (±)-erythro-sphinganine triacetate were obtained in good yield, in the ratio 80:20.
New strategy for the analysis of phenotypic marker antigens in brain tumor–derived neurospheres in mice and humans (2008)

This study is the first to show that cryosectioning of neurospheres derived from glioma models in mice and GBM in humans is a feasible method of better defining the stem cell profile of a glioma.
Probability of getting a lucky short-exposure image through turbulence* (1978)

In short-exposure imaging through turbulence, there is some probability that the image will be nearly diffraction limited because the instantaneous wave-front distortion over the aperture was negligible. A number of years ago in a rather brief paper, Hufnagel (1966) argued heuristically that the probability of getting a good image would decrease exponentially with aperture area. This paper undertakes a rigorous quantitative analysis of the probability. We find that the probability of obtaining a good short-exposure image is Prob ≈ 5.6 exp[−0.1557 (D/r0)2] (for D/r0 ≥ 3.5), where D is the aperture diameter and r0 is the coherence length of the distorted wave front, as defined by Fried (1967). A good image is taken to be one for which the squared wave-front distortion over the aperture is 1 rad2 or less. The analysis is based on the decomposition of the distorted wave front over the aperture, in an orthonormal series with randomly independent coefficients. The orthonormal functions used are the eigenfunctions of a Karhunen-Loève integral equation. The integral equation is solved using a separation of variables into radial and azimuthal dependence. The azimuthal dependence was solved analytically and the radial, numerically. The first 569 radial eigenfunctions and eigenvalues were obtained. The probability of obtaining a good short-exposure image corresponds to a hyperspace integral in which the spatial dimensions are the independent random coefficients in the orthonormal series expansion. It is equal to the probability that a randomly chosen point in the hyperspace will lie within a hypersphere of unit radius, the points in the hyperspace being randomly chosen in accordance with the product of independent Gaussian probability distribution—one distribution for each dimension. The variance of these distrbutions is directly proportional to the eigenvalues of the Karhunen-Loève equation. This hyperspace integral (involving up to several hundred dimensions) has been evaluated using Monte Carlo techniques.
Sampling criteria for Fourier ptychographic microscopy in object space and frequency space (2016)

Fourier ptychographic microscopy (FPM) is a new computational super-resolution approach, which can obtain not only the correct object function, but also the pupil aberration, the LED misalignment, and beyond. Although many state-mixed FPM techniques have been proposed to achieve higher data acquisition efficiency and recovery accuracy in the past few years, little is known that their reconstruction performance highly depends on the data redundancy in both object and frequency domains. Generally, at least 35% aperture overlapping percentage in the Fourier domain is needed for a successful reconstruction using ordinary FPM method. However, the data redundancy requirements for those state-mixed FPM schemes are largely remained unexplored until now. In this paper, we explore the spatial and spectrum data redundancy requirements for the FPM recovery process to introduce sampling criteria for the conventional and state-mixed FPM techniques in both object and frequency space. Moreover, an upsampled FPM method is proposed to solve the pixel aliasing problem, and an alternative illumination-angle subsampled FPM scheme is introduced to get rid of the complexity of decoherence and achieve the expected recovery quality with reduced data quantity. All the proposed methods and sampling criteria are validated with both simulations and experiments, and our results show that state-mixed techniques cannot provide a significant performance advantage since they are much more sensitive to data redundancy. This paper provides both the guidelines for designing the most suitable FPM platform and the insights for the capabilities and limitations of the FPM approach.
17β-Estradiol normalizes immune responses in ovariectomized females after trauma-hemorrhage (2001)

Recent studies indicate that immune responses in proestrus females are maintained after trauma-hemorrhage but markedly depressed in ovariectomized females under such conditions. The current study tested the hypothesis that the decreased estrogen levels after ovariectomy are responsible for this immune depression. To study this hypothesis, ovariectomized female CBA/J mice were subjected to laparotomy (i.e., soft tissue trauma) and hemorrhagic shock (35 +/- 5 mmHg for 90 min, then resuscitated) or sham operation. The mice received either 17 beta-estradiol (E2; 100 microg/25 g body wt) or vehicle subcutaneously during resuscitation. Immune cells were isolated 24 h thereafter. Splenocyte proliferation and interferon-gamma, interleukin (IL)-2, and IL-3 release were significantly depressed after trauma-hemorrhage in vehicle-treated mice, whereas these functions were maintained in E2-treated mice. Peritoneal macrophage IL-1 beta and IL-6 release and splenic macrophage IL-6 and IL-12 release were also significantly depressed in vehicle-treated mice after trauma-hemorrhage, and release of these cytokines was restored by E2 treatment. In summary our findings indicate that the depressed splenic and peritoneal immune responses after trauma-hemorrhage can be normalized by a single dose of E2. Thus estrogen appears to be the causative factor in the maintenance of immunocompetence in females after trauma-hemorrhage, and its administration to ovariectomized or postmenopausal females should be helpful in preventing immune depression under such conditions.
Effect of Anti-mIL-9 Antibody on the Development of Pulmonary Inflammation and Airway Hyperresponsiveness in Allergic Mice (2001)

Interleukin (IL)-9 is a T-cell-derived cytokine with pleiotropic activities on T helper 2 cells, B cells, and mast cells. IL-9 may therefore play an important role in the development of allergic pulmonary inflammatory diseases. In this study, an antimouse IL-9 (anti-mIL-9) antibody (Ab) was evaluated against pulmonary eosinophilia, histopathologic changes in lung tissues, serum immunoglobulin (Ig) E levels, and airway hyperresponsiveness (AHR) to methacholine in mice sensitized and challenged with ovalbumin (OVA). Additionally, steady-state levels of IL-4, IL-5, IL-13, and interferon-gamma messenger RNA (mRNA) in the lungs were measured. The anti-mIL-9 Ab (200 microg/mouse, intraperitoneally) was given as either four doses during the sensitization period or as a single dose before OVA challenge. Sensitized mice challenged with OVA displayed marked pulmonary eosinophilia, epithelial damage, and goblet cell hyperplasia. OVA challenge also increased mRNA levels of IL-4, IL-5, and IL-13 in the lungs. AHR was also increased twofold in sensitized, challenged mice. Treatment of sensitized, challenged mice with four doses of anti-mIL-9 Ab significantly reduced pulmonary eosinophilia, serum IgE levels, goblet cell hyperplasia, airway epithelial damage, and AHR, but had no effect on IL-4, IL-5, and IL-13 mRNA levels in the lungs. A single dose of the antibody was ineffective on all measures. These results indicate that an antibody to mIL-9 inhibits the development of allergic pulmonary inflammation and AHR in mice.