gebhart/patrepeval huggingface dataset:
Differential expression of p73 splice variants and protein in benign and malignant ovarian tumours (2000)

The p73 gene encodes a protein with substantial structural and functional similarities to the tumour-suppressor p53. Alternative splicing of p73 mRNA leads to expression of 6 known RNA species and proteins (alpha, beta, gamma, delta, epsilon, zeta). We analysed the expression of these splice variants in ovarian adenocarcinoma by RT-PCR followed by detection of amplicons with the Southern technique and by immunoblot in 32 malignant and benign epithelial ovarian tumour specimens and 3 ovarian adenocarcinoma cell lines (A2780, 2008, OVCAR-3). p73alpha mRNA was expressed in all 17 ovarian cancer specimens, and 14 of 17 expressed at least 3 splice variants. In contrast, a different expression pattern was present in the ovarian adenomas: p73alpha was detected in 6 of 12 benign tumours, and only 1 adenoma expressed 3 splice variants. p73 protein was expressed in 9 of 16 ovarian cancer specimens, in all cell lines and in 1 of 3 borderline tumours. In contrast, none of 9 ovarian adenomas expressed detectable amounts of p73 protein. Expression of p73 mRNA and protein was not correlated with FIGO stage and histological grade, but we observed a significant correlation with over-expression of p53 protein. In summary, epithelial ovarian cancers express a more complex p73 isoform pattern and higher levels of p73 mRNA and protein than ovarian adenomas.
Myotubularins, a large disease-associated family of cooperating catalytically active and inactive phosphoinositides phosphatases (2003)

The myotubularin family is a large eukaryotic group within the tyrosine/dual-specificity phosphatase super-family (PTP/DSP). Among the 14 human members, three are mutated in genetic diseases: myotubular myopathy and two forms of Charcot-Marie-Tooth neuropathy. We present an analysis of the myotubularin family in sequenced genomes. The myotubularin family encompasses catalytically active and inactive phosphatases, and both classes are well conserved from nematode to man. Catalytically active myotubularins dephosphorylate phosphatidylinositol 3-phosphate (PtdIns3P) and PtdIns3,5P2, leading to the production of PtdIns and PtdIns5P. This activity may be modulated by direct interaction with catalytically inactive myotubularins. These phosphoinositides are signaling molecules that are notably involved in vacuolar transport and membrane trafficking. Myotubularins are thus proposed to be implicated in these cellular mechanisms, and recent observations on myotubularins homologues in the nematode Caenorhabditis elegans indicate a role in endocytosis.
HMG1 and 2: architectural DNA-binding proteins (2001)

HMG1 and 2 (high mobility group proteins 1 and 2; renamed HMGB1 and 2) contain two DNA-binding HMG-box domains (A and B) and a long acidic C-terminal domain. They bind DNA without sequence specificity, but have a high affinity for bent or distorted DNA, and bend linear DNA. The individual A and B boxes (which, although broadly similar, show both structural and functional differences) exhibit many of the structure-specific properties of the whole protein. The acidic tail modulates the affinity of the tandem HMG boxes in HMG1 and 2 for a variety of DNA targets, including four-way junctions, but not distorted DNA minicircles, to which the proteins bind with very high affinity. HMG1 and 2 appear to play important architectural roles in the assembly of nucleoprotein complexes in a variety of biological processes, for example V(D)J recombination, the initiation of transcription, and DNA repair.
Higher Productivity of Growth-Arrested Chinese Hamster Ovary Cells Expressing the Cyclin-Dependent Kinase Inhibitor p27 (1998)

We constructed stable Chinese hamster ovary (CHO) cell lines which conditionally and coordinately express the model product gene secreted alkaline phosphatase (SEAP) and one of the cytostatic genes p21, p27, and p53175P, a p53 mutant deficient in apoptotic but not cell-cycle arrest function. The use of dicistronic expression technology allowed the conditional expression of the model product gene and the cytostatic gene in a coordinated fashion from a single expression unit under the control of the tetracycline-responsive promoter PhCMV-1. Due to the presence of a cytostatic gene in the multicistronic expression unit, the growth behavior of the engineered CHO cell lines could be controlled by the addition or withdrawal of the exogenous agent tetracycline to or from the cell culture medium. Withdrawal of tetracycline resulted in sustained growth arrest of the stable cell lines for a prolonged period. The growth arrest of such cell lines was found to be accompanied by a 10-15-fold increase in their production of SEAP per cell. This controlled proliferation technology allows the design of a novel two-stage production process which consists of a proliferation phase leading to the desired cell density, followed by an extended production phase during which the cells remain growth-arrested and increase cell-specific production of a heterologous protein.
Developmental epidemiologically based preventive trials: Baseline modeling of early target behaviors and depressive symptoms (1991)

Describes a conceptual framework for identifying and targeting developmental antecedents in early childhood that have been shown in previous work to predict delinquency and violent behavior, heavy drug use, depression, and other psychiatric symptoms and possibly disorders in late adolescence and into adulthood. Criteria are described that guided choices of targets for two epidemiologically based, randomized preventive trials carried out in 19 elementary schools in the eastern half of Baltimore, involving more than 2,400 first-grade children over the course of first and second grades. Baseline models derived from the first of two cohorts show the evolving patterns of concurrence among the target antecedents. The central role of concentration problems emerged. From Fall to Spring in first grade, concentration problems led to shy and aggressive behavior and poor achievement in both genders and to depressive symptoms among girls. There was evidence for reciprocal relationships in girls. For example, depressive symptoms led to poor achievement in both girls and boys, whereas poor achievement led to depressive symptoms in girls but not boys, at least over the first-grade year. These results provide important epidemiological data relevant to the developmental paths leading to the problem outcomes and suggest preventive trials.
ALSOD: The Amyotrophic Lateral Sclerosis Online Database (2008)

More than 100 point mutations spanning the 153 amino acid SOD1 sequence have been identified in individuals with ALS. In 1999 the Amyotrophic Lateral Sclerosis Database (ALSOD) was generated to store these mutations along with ALS patient information to facilitate the identification of a correlation between the SOD1 genotype with the ALS phenotype. Here we report our ongoing development and redesign of the ALSOD database and its automated procedures. The significant new features have improved ALSOD, helping link the mutations of the SOD1 gene to the hypothetical three-dimensional protein structural rearrangement, and the resulting ALS phenotype. Additionally, ALSOD now provides a more comprehensive knowledge base for ALS, detailing genetic, proteomic, and bioinformatics information associated with the disease. ALSOD can be accessed at http://alsod.iop.kcl.ac.uk/als/.
The treatment of chronic back pain (1979)

Structures innervated by the dorsal primary ramus play a significant part in the genesis of chronic backache and associated leg pain. The features of this syndrome are described and compared with those in the more familiar clinical picture following intervertebral disc degeneration. However these clinical entities are seldom entirely separate and the diagnosis is often also complicated by psychosomatic factors and the consequences of previous back surgery. A technique of percutaneous facet denervation with a radiofrequency probe, although by no means successful in every case, is entirely safe and a very wothwhile procedure. It has helped many patients, who would otherwise have been disabled by pain and restricted in their activities.
Phase contrast and differential interference contrast instrumentation and applications in cell, developmental, and marine biology (1993)

Progress in modern light microscopy by means of new optic design and optical contrast-enhancement techniques [phase contrast (PhC), differential interference contrast (DIC), polarization, reflection] in combination with inverted microscopes and simultaneously with epifluorescence is described. Today, PhC and DIC optics are available for high-resolution light microscopy up to a numerical aperture of 1.4 (oil) as well as for long working distance optics mainly combined with inverted microscopes. The application of DIC facilitates high-resolution optical microscopy of living cell components, which can be isolated by selective micropreparation for extended microscopic analysis. The high contrast and the use of the full numerical aperture of the DIC optics make it possible to obtain a series of optical sections through rather thick living specimens. Optoelectronic techniques such as video-enhanced contrast microscopy and laser scanning microscopy in combination with optical contrast-enhancement methods are expanding into a new dimension that overlaps the low range of electron microscopy magnification but includes the use of living material.
ATPase Activity of the Cystic Fibrosis Transmembrane Conductance Regulator (1996)

The gene mutated in cystic fibrosis codes for the cystic fibrosis transmembrane conductance regulator (CFTR), a cyclic AMP-activated chloride channel thought to be critical for salt and water transport by epithelial cells. Plausible models exist to describe a role for ATP hydrolysis in CFTR channel activity; however, biochemical evidence that CFTR possesses intrinsic ATPase activity is lacking. In this study, we report the first measurements of the rate of ATP hydrolysis by purified, reconstituted CFTR. The mutation CFTRG551D resides within a motif conserved in many nucleotidases and is known to cause severe human disease. Following reconstitution the mutant protein exhibited both defective ATP hydrolysis and channel gating, providing direct evidence that CFTR utilizes ATP to gate its channel activity.
A method for the preparation of purified antigens of coxsackievirus B3 from a large volume of cell culture supernatant. (1992)

A simple procedure was used for the concentration and partial purification of coxsackievirus B3 (Nancy strain). For a large-scale production of virus. Vero cells grown in roller bottles were used. Virus concentrate from a large volume of cell culture supernatant was prepared by precipitation with 6% (w/w) polyethylene glycol. This crude antigen was further purified by banding in cesium chloride gradient using ultracentrifugation. The infectivity and haemagglutination activity of virus were checked up during the whole procedure and the final recovery of infections virus was about 60%.
CD81 is an entry coreceptor for hepatitis C virus (2004)

Hepatitis C virus (HCV) envelope glycoproteins E1/E2 can pseudotype retroviral particles and efficiently mediate entry into target cells. Using this experimental system, we determined HCV tropism for different cell types. Only primary hepatocytes and one hepatoma cell line were susceptible to HCV pseudovirus entry, which could be inhibited by sera from HCV-infected individuals. Furthermore, expression of the putative HCV receptor CD81 on nonpermissive human hepatic but not murine cells enabled HCV pseudovirus entry. Importantly, inhibition of viral entry by an anti-CD81 mAb occurred at a step following HCV attachment to target cells. Our results indicate that CD81 functions as a post-attachment entry coreceptor and that other cellular factors act in concert with CD81 to mediate HCV binding and entry into hepatocytes.
Ly-6 Superfamily Members Ly-6A/E, Ly-6C, and Ly-6I Recognize Two Potential Ligands Expressed by B Lymphocytes (2002)

Most hemopoietic cells express one or more members of the Ly-6 supergene family of small glycosylphosphatidylinositol-linked proteins. Although levels of Ly-6 proteins vary with stages of differentiation and activation, their function largely remains unknown. To ascertain whether ligands for Ly-6 proteins exist, chimeric proteins were constructed in which Ly-6E, Ly-6C, and Ly-6I were fused to the murine IgM heavy chain. These chimeras specifically stained both developing and mature B lymphocytes, as assessed by flow cytometry. Analysis of variants of the CH27 B cell lymphoma revealed that Ly-6A/E and Ly-6I recognized different molecules. CH27 cells with low levels of Ly-6A/E ligand activity also lost expression of CD22, and cells transfected with CD22 gained the ability to bind the Ly-6A/E chimera and, to a lesser extent, the Ly-6C and Ly-6I chimeric proteins. As many mature B cells coexpress Ly-6A/E and CD22, the function of Ly-6 molecules may be to associate with other membrane proteins, possibly concentrating these ligands in lipid rafts, rather than acting directly as cell:cell adhesion molecules.
Detection of Salamonella Gallinarum and S. Typhimurium DNA in Experimentally Infected Chicks by Polymerase Chain Reaction. (1995)

DNA detection with polymerase chain reaction (PCR) as a mean of identifying Salmonella infection in chickens was compared with the conventional culture procedure. DNA was extracted from organs of experimentally infected chicks with either S. Gallinarum or S. Typhimurium. The pair of primers used were those directed at the InvA gene. Bacteria isolation was done by inoculating the pre-enrichment media with samples. As was expected a 284 bp fragment DNA was amplified from extracted DNA of infected organs by PCR. The results of our studies indicate that the PCR method is more sensitive than the conventional culture procedure since we were able to detect both S. Gallinarum and S. Typhimurium DNA not only in samples positive for bacteria isolation but also in negative samples. It was possible to detect Salmonella DNA in 15 out of 20 organ samples from chicks infected with S. Gallinarum 21 hr after infection, but, only five were positive for bacteria isolation. Salmonella DNA was detected throughout the entire test period. The results of this study confirm that PCR is a useful tool for the detection of Salmonella infection in poultry.
Antimicrobial Activity of Nerolidol and its Derivatives against Airborne Microbes and Further Biological Activities (2015)

Nerolidol and its derivatives, namely cis-nerolidol, O-methyl-nerolidol, O-ethyl-nerolidol, (-)-α-bisabolol, trans,trans-farnesol and its main natural source cabreuva essential oil, were tested for their antimicrobial activity against airborne microbes and antifungal properties against plant pathogens. Among the tested compounds, α-bisabolol was the most effective antimicrobial agent and trans,trans-farnesol showed the best antifungal activity.
[Structure and regulation of human thyroid-stimulating hormone (TSH) gene]. (1994)

This article describes the structure of human thyroid-stimulating hormone (TSH) gene and the regulation of its expression. TSH is a heterodimer composed of common alpha subunit and unique beta subunit encoded by genes located on different chromosomes. It is known that the expression of these subunit genes is regulated in different mechanism by several extracellular factors. The DNA sequencing data of the gene demonstrated that these genes were regulated by interaction of several potential regulatory elements with transcription factors. This transcriptional regulation was analyzed by transient expression of chimeric gene fragments and DNA-protein binding assay, in vitro. To identify the essential DNA regulatory elements of the human TSH beta gene in vivo, we introduced 1.1 kbp of the 5' flanking region of the human TSH beta gene-simian virus 40 T-antigen (SVT) fusion gene into the mouse. This region could direct pituitary-specific expression of SVT and tumorigenesis in transgenic mice.
Comparison of fluorescent-antibody-to-membrane-antigen test, indirect immunofluorescence assay, and a commercial enzyme-linked immunosorbent assay for determination of antibody to varicella-zoster virus (1987)

The demand for sensitive and specific assays to determine immune status to varicella can be expected to increase with the anticipated availability of a varicella-zoster virus vaccine for use in nonimmune adults, especially health care personnel, and in immunosuppressed children. Although the fluorescent-antibody-to-membrane-antigen (FAMA) test remains the reference standard to which other tests are compared, simpler alternative assays are needed. In this study, the FAMA was compared with a simple indirect immunofluorescence assay (IFA) and a commercially available enzyme-linked immunosorbent assay (ELISA) for the detection of antibody to varicella-zoster virus. One hundred and twelve serum samples were screened by the FAMA test and IFA at a 1:5 dilution, and 100% agreement was found. Of these samples, 101 were available for testing by ELISA, and identical results were obtained with 97 samples (96% agreement). When the samples were screened at a 1:2 dilution, 99 of 101 results agreed. In addition, 31 spinal fluid samples were tested by all three methods. When screening was at a 1:2 dilution, there was 96.8% agreement between the FAMA test and IFA. When the cutoff value established for sera was used for the spinal fluid samples, there was 90.3% agreement between the ELISA and the FAMA test. Thus, both IFA and ELISA can be considered sensitive and specific alternatives to the FAMA test, and in addition, both use commercially available reagents.
The countrywide effects of aid (1994)

There are three main approaches to analyzing the effects of aid money and aid-supported reform: before-and-after comparison; control group (simple and modified) studies; and modeling. All three approaches have been used to carry out macroeconomic analysis of policy reform. But before-and-after and simple control group approaches are not valid explanatory techniques, say the authors; the results may be used to describe what happened, but not why it happened. Theoretically, the modified control group is the strongest approach. In practice, it has many shortcomings - in particular, its failure to allow for the effects of aid and other capital flows as an explanatory variable. The macroeconomic impact of aid inflows is best understood within the context of an accounting framework, say the authors. The literature on the macroeconomic effects of aid funds has relied almost entirely on modeling. But much work has used only single equations, so that many potentially important relationships - notably aid's effects on output and income - are excluded from the analysis. Even the simultaneous models used are mostly partial, not general, equilibrium models - which makes the findings doubtful. And much of the empirical work suffers from methodological shortcomings. Much research is needed on how aid affects the private sector macroeconomically; more is known about how to analyze the public sector's response to aid inflows. The analysis of aidmoney and aid-supported policy reform can be incorporated into a single framework - but with the effects of each clearly separable. The authors favor a country-specific modeling approach because it allows the separate analysis of policies and money as well as the separate analysis of different policies. Country-specific analysis can capture local factors that may be omitted from cross-country analyses. They argue that counterfactual analysis using econometric or general equilibrium models may be the most legitimate approach to analyzing the relationship between poverty and economic reform. Modeling has yielded results quite different from the common view about the social impact of reform policies, they say, but existing models fail to incorporate aid as an important macroeconomic variable. Project aid, program aid, commodity (mainly food) aid, and technical assistance are the four main types of aid. One problem in much of the literature is that an aggregate aid figure is used, even though the macroeconomic repercussions of these different types of aid will differ. Much analysis is also flawed by considering the effects of a program (despite different intensities and compliance rates) rather than the policies implemented.
Pulsed MO CVD Processes of MgO Layer Deposition from Mg(thd)2 (2009)

Dipivaloylmethane was used as a precursor to deposit MgO layers on polished silicon (100) plane in a hot-wall pulsed MO CVD reactor. A detailed investigation of the thermal parameters of the precursor was carried out to optimize the conditions for film deposition experiments. Temperature dependencies of vapour pressure were measured using the flow procedure and Knudsen's method with the mass spectrometric identification of the composition of the gas phase. The processes of Mg(thd)2 decomposition in vacuum, in oxygen and in water vapour were investigated by means of high-temperature mass spectrometry. The major products of precursor decomposition were established; the mechanism of its decomposition was proposed. Investigation of the deposition of MgO layers was carried out within the substrate temperature range 350-450оС, source temperature 190÷210оC in the presence of oxygen. The resulting layers were characterized using AFM, ellipsometry, XRD. The morphology, structure and secondary electron emission of MgO films were investigated.
Endogenous Cell Repair of Chronic Demyelination (2006)

In multiple sclerosis lesions, remyelination typically fails with repeated or chronic demyelinating episodes and results in neurologic disability. Acute demyelination models in rodents typically exhibit robust spontaneous remyelination that prevents appropriate evaluation of strategies for improving conditions of insufficient remyelination. In the current study, we used a mouse model of chronic demyelination induced by continuous ingestion of 0.2% cuprizone for 12 weeks. This chronic process depleted the oligodendrocyte progenitor population and impaired oligodendrocyte regeneration. Remyelination remained limited after removal of cuprizone from the diet. Fibroblast growth factor 2 (FGF2) expression was persistently increased in the corpus callosum of chronically demyelinated mice as compared with nonlesioned mice. We used FGF2 mice to determine whether removal of endogenous FGF2 promoted remyelination of chronically demyelinated areas. Wild-type and FGF2 mice exhibited similar demyelination during chronic cuprizone treatment. Importantly, in contrast to wild-type mice, the FGF2 mice spontaneously remyelinated completely during the recovery period after chronic demyelination. Increased remyelination in FGF2 mice correlated with enhanced oligodendroglial regeneration. FGF2 genotype did not alter the density of oligodendrocyte progenitor cells or proliferating cells after chronic demyelination. These findings indicate that attenuating FGF2 created a sufficiently permissive lesion environment for endogenous cells to effectively remyelinate viable axons even after chronic demyelination.