gebhart/patrepeval huggingface dataset:
The Effects of Platelet-Derived Growth Factor-BB on Healing of the Rabbit Medial Collateral Ligament (1998)

We report a biologic approach to improve medial collateral ligament healing using growth factors normally expressed in healing tissue. Our previous in vitro work demonstrated that platelet-derived growth factor-BB and transforming growth factor-beta 1 promoted fibroblast proliferation and matrix synthesis, respectively. There-fore, these growth factors were used in vivo to determine whether they could improve medial collateral ligament healing, whether this effect was dose-dependent, and if combinations of growth factors could improve healing more than individual growth factors. Thirty-seven rabbits had various doses of growth factors applied to the ruptured right medial collateral ligaments using a fibrin sealant delivery vehicle. The five groups consisted of 1) two groups receiving two doses of platelet-derived growth factor-BB, 2) two groups receiving two doses of this growth factor plus transforming growth factor-beta 1, and 3) one group receiving fibrin sealant only. After sacrifice at 6 weeks, biomechanical and histologic evaluations of the healing ligament were performed. Femur-medial collateral ligament-tibia complexes of the knees given the higher dose of platelet-derived growth factor-BB had ultimate load, energy absorbed to failure, and ultimate elongation values that were 1.6, 2.4, and 1.6 times greater than the same complexes of the control group. Adding transforming growth factor-beta 1 did not lead to any further increase in the structural properties of the complex compared with treatment with platelet-derived growth factor-BB. These encouraging results suggest that use of platelet-derived growth factor-BB may improve the quality of the healing medial collateral ligament, and that it may also have a similar potential for promoting healing of other ligaments.
Glycosylinositol Phospholipid Anchors of the Scrapie and Cellular Prion Proteins Contain Sialic Acid (1992)

The only identified component of the scrapie prion is PrPSc, a glycosylinositol phospholipid (GPI)-linked protein that is derived from the cellular isoform (PrPC) by an as yet unknown posttranslational event. Analysis of the PrPSc GPI has revealed six different glycoforms, three of which are unprecedented. Two of the glycoforms contain N-acetylneuraminic acid, which has not been previously reported as a component of any GPI. The largest form of the GPI is proposed to have a glycan core consisting of Man alpha-Man alpha-Man-(NeuAc-Gal-GalNAc-)Man-GlcN-Ino. Identical PrPSc GPI structures were found for two distinct isolates or "strains" of prions which specify different incubation times, neuropathology, and PrPSc distribution in brains of Syrian hamsters. Limited analysis of the PrPC GPI reveals that it also has sialylated glycoforms, arguing that the presence of this monosaccharide does not distinguish PrPC from PrPSc.
Membrane Topology of the 12- and the 25-kDa Subunits of the Mammalian Signal Peptidase Complex (1996)

The cleavage of signal sequences of secretory and membrane proteins by the signal peptidase complex occurs in the lumen of the endoplasmic reticulum. Mammalian signal peptidase consists of five subunits. Four have been cloned, SPC18, SPC21, SPC22/23, and SPC25, of which all but SPC25 have been demonstrated to be single-spanning membrane proteins exposed to the lumen of the endoplasmic reticulum. We have determined the cDNA sequence of the remaining 12-kDa subunit (SPC12) as well as the membrane topologies of SPC12 and SPC25 in rough microsomes. Both polypeptides span the membrane twice with their N and C termini facing the cytosol and contain only very small, if any, lumenal domains. Therefore, SPC12 and SPC25 are likely to be involved in processes other than the enzymatic cleavage of the signal sequence.
Dopamine, the prefrontal cortex and schizophrenia (1997)

Dysfunction of the prefrontal cortex (PFC) in schizophrenia has been suspected based on observations from clinical, neuropsychological and neuroimaging studies. Since the PFC receives a dense dopaminergic innervation, abnormalities of the mesocortical dopamine system have been proposed to contribute to the pathophysiology of schizophrenia. In this review, aspects of the anatomy, physiology and pharmacology of the mesencephalic-frontal cortical dopamine system as they may relate to schizophrenia are described, and evidence for altered dopaminergic neurotransmission in the frontal cortex of schizophrenic patients is presented.
Determination of tin (IV) in alloys and in canned food by visible spectrophotometric technique using pyrimidine azo compounds in presence of mixed surfactants. (2003)

The complex of tin (IV) with 5-(4'-nitro-2',6'-dichlorophenylazo) (I) and 5-(4'-chlorophenylazo)-6-hydroxypyrimidine-2,4-dione (II) in the presence of nonyl phenoxy polyethoxyethanol (NPE) and cetyltrimethylammonium bromide (CTAB) has a sensitive absorption band with lambda max 517 and 488 nm, respectively. Under the optimal conditions, Beer-Lambert law is obeyed over the range 0.05-1.50 and 0.05-1.30 micrograms ml-1 Sn(IV) with molar absorptivity being 9.50 x 10(4) and 1.05 x 10(5) L mol-1 using ligand I and II, respectively. As compared with the visible methods which uses bromopyrogallol red (BPR) as the chromogenic reagent (lambda max = 550 nm) and that using phenylfluorone (lambda max = 360 nm), our method is highly sensitive and selective because the complexes have a high and sharp absorption band. In addition, the present method is simple and rapid, no heating or standing time is needed. By means of the mixed surfactants, the precipitation caused by the ion association of cetyltrimethyl-ammonium cation and I3- anion is avoided if iodide is used for separating micro amounts of tin(IV) from a sample matrix. An application of the proposed method to the determination of tin(IV) in a variety of alloys and in a canned food was made with satisfactory results.
Expression of vegetative storage protein (VSP-β) in soybean raceme tissues in response to flowers set (1995)

Abortion of flowers and pods (>25%) appears to be part of the normal developmental sequence in Glycine max [L.] Merr. Slow growth rates of seeds and pods, and development of an abscission zone in raceme tissues subtending flowers destined to abort contribute to this loss, but the processes leading to these events have not been elucidated. Rescue of soybean flowers destined to abort was accomplished by removal of proximal flowers and/or application of 1 mM benzyladenine (BA) before anthesis. Raceme tissues (axes and pedicels, including the abscission zone) subtending setting and aborting flowers were examined for differential protein expression to identify gene products that were directly associated with the induction of flower set. Induction to set was associated with increased protein concentrations. Transcription and translation of a soybean vegetative storage protein (VSP-β) in the subtending raceme tissues was directly linked to flower set. Cytokinin application increased growth of raceme tissues independent of fruit set. A model system for future studies of regulation of soybean flower set and abortion is presented.
Performance Anomaly Detection and Bottleneck Identification (2015)

In order to meet stringent performance requirements, system administrators must effectively detect undesirable performance behaviours, identify potential root causes, and take adequate corrective measures. The problem of uncovering and understanding performance anomalies and their causes (bottlenecks) in different system and application domains is well studied. In order to assess progress, research trends, and identify open challenges, we have reviewed major contributions in the area and present our findings in this survey. Our approach provides an overview of anomaly detection and bottleneck identification research as it relates to the performance of computing systems. By identifying fundamental elements of the problem, we are able to categorize existing solutions based on multiple factors such as the detection goals, nature of applications and systems, system observability, and detection methods.
A Spectroscopic Analysis of Blue and Ultraviolet Upconverted Emissions from Gd3Ga5O12:Tm3+, Yb3+ Nanocrystals (2005)

The spectroscopic behavior of gadolinium gallium garnet (Gd3Ga5O12, GGG) nanocrystals codoped with 1% each of Tm3+ and Yb3+ prepared via a solution combustion synthesis procedure was investigated. Initial excitation of the codoped nanocrystals with 465.8 nm (into the 1G4 state) showed a dominant blue-green emission ascribed to the 1G4-3H6 transition as well as red and NIR emissions from the 1G4-3F4 and 1G4-3H5/3H4-3H6 transitions, respectively. Excitation at this wavelength (465.8 nm) showed the existence of a Tm3+ --> Yb3+ energy transfer process evidenced by the presence of the 2F5/2-2F7/2 Yb3+ emission in the NIR emission spectrum. The decay time constants proved that the transfer of energy occurred via the 3H4 state. Following excitation of the Yb3+ ion with 980 nm, intense upconverted emission was observed. Emissions in the UV (1D2-3H6), blue (1D2-3F4), blue-green (1G4-3H6), red (1G4-3F4), and NIR (1G4-3H5/3H4-3H6) were observed and were the direct result of subsequent transfers of energy from the Yb3+ ion to the Tm3+ ion. Power dependence studies showed a deviation from expected values for the number of photons involved in the upconversion thus indicating a saturation of the upconversion process. An energy transfer efficiency of 0.576 was determined experimentally.
Algorithm for nonintrusive identification of residential appliances (2002)

An algorithm has been developed to use at a central processing site for identifying appliances and appliance usage at remotely monitored residences. This algorithm is part of a nonintrusive system that uses sampled data for real and reactive power accumulated over an extended period of time. Using a logic analysis, the algorithm can recognize at least six major appliances, including a heat pump, as well as any two appliances that turn on or off at nearly the same time. Data from several residences in the Rochester, NY, and Columbus, OH, areas have been analyzed during this study.
Dendrimer-Modified Magnetic Nanoparticles Enhance Efficiency of Gene Delivery System (2007)

Magnetic nanoparticles (MNP) with a diameter of 8 nm were modified with different generations of polyamidoamine (PAMAM) dendrimers and mixed with antisense survivin oligodeoxynucleotide (asODN). The MNP then formed asODN-dendrimer-MNP composites, which we incubated with human tumor cell lines such as human breast cancer MCF-7, MDA-MB-435, and liver cancer HepG2 and then analyzed by 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide, quantitative reverse transcription-PCR, Western blotting, laser confocal microscopy, and high-resolution transmission electron microscopy. Results showed that the asODN-dendrimer-MNP composites were successfully synthesized, can enter into tumor cells within 15 min, caused marked down-regulation of the survivin gene and protein, and inhibited cell growth in dose- and time-dependent means. No.5 generation of asODN-dendrimer-MNP composites exhibits the highest efficiency for cellular transfection and inhibition. These results show that PAMAM dendrimer-modified MNPs may be a good gene delivery system and have potential applications in cancer therapy and molecular imaging diagnosis.
Methotrexate as rescue/adjunctive immunotherapy in infant and adult heart transplantation. (1993)

Methotrexate may be a useful adjunct to more conventional immunosuppression in heart transplantation, but experience is limited. We report our findings in 18 patients aged 19 days to 64 years, who were treated with methotrexate. Five patients were less than 1 year of age; 11 patients were over 16 years of age. Indications could be divided in two groups. Seven patients were treated with methotrexate as rescue therapy for unresolving acute grade 3 rejection or for early recurrence after one rejection episode that had been treated with steroids and antilymphocyte serum. All infants were treated with methotrexate for life-threatening rejection. Methotrexate was given as an adjunct to conventional treatment in six patients for mild rejection, which occurred while steroids were being decreased or in patients with relative contraindications to high-dose steroids. One grade 3b rejection could not be reversed with methotrexate and led to the patient's death 3 months later. One grade 1b rejection only temporarily improved and was actually reversed with high-dose steroids after 4 months. All other rejections were rapidly reversed with the use of methotrexate. Tolerance of methotrexate has been very good with transient leukopenia in four patients, with ulcerative stomatitis in one patient, and with transient elevation of liver enzymes in two patients. We conclude that methotrexate is a valuable rescue/adjunctive immunotherapeutic agent that is capable of altering heart rejection with considerable safety and efficacy.
The Effect of Universal Fluorinated Nucleobases on the Catalytic Activity of Ribozymes (2003)

Four fluoro modified universal nucleobases have been synthesized. The universal nucleobases 1 and 2, containing a 2,4-difluorobenzene as nucleobase and a 4,6-difluorobenzimidazole, respectively, were chemically incorporated into a selected hammerhead ribozyme sequence which has already been retrovirally expressed as an anti-HIV ribozyme to investigate their effect on the catalytic activity of the ribozymes. The substitution of the natural nucleosides with either 1 or 2 results only in a small decrease of the catalytic activity. The Km value for the monosubstituted ribozyme with a 2,4-difluorobenzene is 309 nM(-1), the corresponding kcat is 2.91 x 10(-3) min(-1). A disubstituted hammerhead ribozyme carrying one of each modification has also been synthesized. For a further stabilization of the ribozyme/substrate complex 2'-(beta-aminoethoxy) modified fluorinated nucleosides 15 and 16 have been developed.
Identification and characterization of genes that are required for the accelerated degradation of mRNAs containing a premature translational termination codon. (1995)

In both prokaryotes and eukaryotes nonsense mutations in a gene can enhance the decay rate of the mRNA transcribed from the gene, a phenomenon described as nonsense-mediated mRNA decay. In yeast, the products of the UPF1 and UPF3 genes are required for this decay pathway, and in this report we focus on the identification and characterization of additional factors required for rapid decay of nonsense-containing mRNAs. We present evidence that the product of the UPF2 gene is a new factor involved in this decay pathway. Mutation of the UPF2 gene or deletion of it from the chromosome resulted in stabilization of nonsense-containing mRNAs, whereas the decay of wild-type transcripts was not affected. The UPF2 gene was isolated, and its transcript was characterized. Our results demonstrate that the UPF2 gene encodes a putative 126.7-kD protein with an acidic region at its carboxyl terminus (-D-E)n found in many nucleolar and transcriptional activator proteins. The UPF2 transcript is 3600 nucleotides in length and contains an intron near its 5' end. The UPF2 gene is dispensable for vegetative growth, but upf2 delta strains were found to be more sensitive to the translational elongation inhibitor cycloheximide than UPF2+. A genetic analysis of other alleles proposed to be involved in nonsense-mediated mRNA decay revealed that the UPF2 gene is allelic to the previously identified sua1 allele, a suppressor of an out-of-frame ATG insertion shown previously to reduce translational initiation from the normal ATG of the CYC1 gene. In addition, we demonstrate that another suppressor of this cyc1 mutation, sua6, is allelic to upf3, a previously identified lesion involved in nonsense-mediated mRNA decay.
Enhancing Stability of Perovskite Solar Cells to Moisture by the Facile Hydrophobic Passivation (2015)

In this study, a novel and facile passivation process for a perovskite solar cell is reported. Poor stability in ambient atmosphere, which is the most critical demerit of a perovskite solar cell, is overcome by a simple passivation process using a hydrophobic polymer layer. Teflon, the hydrophobic polymer, is deposited on the top of a perovskite solar cell by a spin-coating method. With the hydrophobic passivation, the perovskite solar cell shows negligible degradation after a 30 day storage in ambient atmosphere. Suppressed degradation of the perovskite film is proved in various ways: X-ray diffraction, light absorption spectrum, and quartz crystal microbalance. This simple but effective passivation process suggests new kind of approach to enhance stability of perovskite solar cells to moisture.
ISG15 as a novel tumor biomarker for drug sensitivity (2008)

Tumor cells are known to exhibit highly varied sensitivity to camptothecins (CPT; e.g., irinotecan and topotecan). However, the factors that determine CPT sensitivity/resistance are largely unknown. Recent studies have shown that the ubiquitin-like protein, IFN-stimulated gene 15 (ISG15), which is highly elevated in many human cancers and tumor cell lines, antagonizes the ubiquitin/proteasome pathway. In the present study, we show that ISG15 is a determinant for CPT sensitivity/resistance possibly through its effect on proteasome-mediated repair of topoisomerase I (TOP1)-DNA covalent complexes. First, short hairpin RNA-mediated knockdown of either ISG15 or UbcH8 (major E2 for ISG15) in breast cancer ZR-75-1 cells decreased CPT sensitivity, suggesting that ISG15 overexpression in tumors could be a factor affecting intrinsic CPT sensitivity in tumor cells. Second, the level of ISG15 was found to be significantly reduced in several tumor cells selected for resistance to CPT, suggesting that altered ISG15 regulation could be a significant determinant for acquired CPT resistance. Parallel to reduced CPT sensitivity, short hairpin RNA-mediated knockdown of either ISG15 or UbcH8 in ZR-75-1 cells resulted in increased proteasomal degradation of CPT-induced TOP1-DNA covalent complexes. Taken together, these results suggest that ISG15, which interferes with proteasome-mediated repair of TOP1-DNA covalent complexes, is a potential tumor biomarker for CPT sensitivity.
Microarray analysis of differentially expressed genes in the liver between Bai’er layers and broilers (2015)

In this study, we profiled gene expression in chicken liver and screened differentially expressed genes in the Bai'er layers and fat line broilers. Birds were derived from the 14th generation of Northeast Agricultural University fat broiler lines and Bai'er layers. Chicken genome arrays were used to screen differentially expressed genes in liver tissue from the Bai'er layers and fat line broilers. We screened 671 differentially expressed genes between broilers and layers at the ages of 2 and 4 weeks. We observed enrichment of a series of significant pathways, including the mitogen-activated protein kinase signaling pathway, cell cycle, mammalian target of rapamycin signaling pathway, and p53 signaling pathway. At 2 and 4 weeks, 94 shared differentially expressed genes were observed. We speculated that these genes regulate chicken lipid metabolism.
Local and Systemic Protumorigenic Effects of Cancer-Associated Fibroblast-Derived GDF15 (2014)

The tumor stroma is vital to tumor development, progression, and metastasis. Cancer-associated fibroblasts (CAF) are among the abundant cell types in the tumor stroma, but the range of their contributions to cancer pathogenicity has yet to be fully understood. Here, we report a critical role for upregulation of the TGFβ/BMP family member GDF15 (MIC-1) in tumor stroma. GDF15 was found upregulated in situ and in primary cultures of CAF from prostate cancer. Ectopic expression of GDF15 in fibroblasts produced prominent paracrine effects on prostate cancer cell migration, invasion, and tumor growth. Notably, GDF15-expressing fibroblasts exerted systemic in vivo effects on the outgrowth of distant and otherwise indolent prostate cancer cells. Our findings identify tumor stromal cells as a novel source of GDF15 in human prostate cancer and illustrate a systemic mechanism of cancer progression driven by the tumor microenvironment. Further, they provide a functional basis to understand GDF15 as a biomarker of poor prognosis and a candidate therapeutic target in prostate cancer.
Life-cycle Costing Applied to Playgrounds (2007)

Using a life-style model to playground management costing is discussed. Playground management should begin at the definition and planning phases of the playground project. It should continue into the execution and delivery phases, and throughout the working life of the playground, and finishing when the playground is decommissioned and disposed.
Primary manual aspiration thrombectomy (MAT) for acute ischemic stroke: safety, feasibility and outcomes in 112 consecutive patients (2014)

Primary MAT is an alternative endovascular recanalization technique with reasonable first pass efficacy that will likely improve with technology and experience.
A spectroscopic study of the binding of m7GTP and m7GpppG to human protein synthesis initiation factor 4E (1989)

The binding of analogues of the 7-methylguanosine-containing cap, m7GTP and m7GpppG, to eIF-4E from human erythrocytes as a function of pH, temperature, and ionic strength is described. From the pH-dependent binding of m7GTP and m7GpppG to eIF-4E, a new model describing the nature of the cap.eIF-4E interaction is proposed. The thermodynamic values and ionic strength dependence of binding are consistent with a binding site which is primarily hydrophobic. Fluorescence and circular dichroism data indicate that tryptophan residues may be involved in base-stacking interactions with the cap in a somewhat buried environment. The model presented here confirms the earlier proposal [Rhoads et al. (1983) Biochemistry 22, 6084-6088] that the enolate tautomer of the cap is preferred for interaction and further proposes that the interaction is with a protonated amino acid residue, such as histidine, while stacking with an aromatic amino acid, such as tryptophan.
H-2RIIBP, a member of the nuclear hormone receptor superfamily that binds to both the regulatory element of major histocompatibility class I genes and the estrogen response element. (1989)

Transcription of major histocompatibility complex (MHC) class I genes is regulated by the conserved MHC class I regulatory element (CRE). The CRE has two factor-binding sites, region I and region II, both of which elicit enhancer function. By screening a mouse lambda gt 11 library with the CRE as a probe, we isolated a cDNA clone that encodes a protein capable of binding to region II of the CRE. This protein, H-2RIIBP (H-2 region II binding protein), bound to the native region II sequence, but not to other MHC cis-acting sequences or to mutant region II sequences, similar to the naturally occurring region II factor in mouse cells. The deduced amino acid sequence of H-2RIIBP revealed two putative zinc fingers homologous to the DNA-binding domain of steroid/thyroid hormone receptors. Although sequence similarity in other regions was minimal, H-2RIIBP has apparent modular domains characteristic of the nuclear hormone receptors. Further analyses showed that both H-2RIIBP and the natural region II factor bind to the estrogen response element (ERE) of the vitellogenin A2 gene. The ERE is composed of a palindrome, and half of this palindrome resembles the region II binding site of the MHC CRE. These results indicate that H-2RIIBP (i) is a member of the superfamily of nuclear hormone receptors and (ii) may regulate not only MHC class I genes but also genes containing the ERE and related sequences. Sequences homologous to the H-2RIIBP gene are widely conserved in the animal kingdom. H-2RIIBP mRNA is expressed in many mouse tissues, in agreement with the distribution of the natural region II factor.