gebhart/patrepeval huggingface dataset:
Application of dynamic calorimetry for monitoring fermentation processes (1976)

The rate of heat evolution (kcal/liter-hr) in mycelial fermentations for novobiocin and cellulase production with media containing noncellular solids was measured by an in situ dynamic calorimetric procedure. Thermal data so obtained have proved significant both in monitoring cell concentration during the trophophase (growth phase) and in serving as a physiological variable in the fermentation process. The validity of this technique has been demonstrated by closing the overall material and energy balances. The maintenance energy in a batch fermentation can be calculated by integrating heat evolution data. This integration method is applicable to a fermentation lacking a precise cell growth curve. The maintenance coefficient, obtained for the novobiocin fermentation by Streptomyces niveus, is equal to 0.028 g glucose equivalent/g cell-hr. The production of novobiocin in the idiophase (production phase) also correlates well with the amount of energy catabolized for maintenance and this results in an observed conversion yield of glucose to novobiocin of 11.8 mg of novobiocin produced per gram of glucose catabolized. A new physiological variable, kilocalories of heat evolved per millimole of oxygen consumed, has been proposed to monitor the state of cells during the fermentation. This method may provide a simple way to monitor on-line shifts in the efficiency of cell respiration and changes in growth yields during a microbial process.
Calcineurin-Mediated Hypertrophy Protects Cardiomyocytes From Apoptosis In Vitro and In Vivo (2000)

We have previously shown that the calcium-calmodulin-regulated phosphatase calcineurin (PP2B) is sufficient to induce cardiac hypertrophy that transitions to heart failure in transgenic mice. Given the rapid onset of heart failure in these mice, we hypothesized that calcineurin signaling would stimulate myocardial cell apoptosis. However, utilizing multiple approaches, we determined that calcineurin-mediated hypertrophy protected cardiac myocytes from apoptosis, suggesting a model of heart failure that is independent of apoptosis. Adenovirally mediated gene transfer of a constitutively active calcineurin cDNA (AdCnA) was performed in cultured neonatal rat cardiomyocytes to elucidate the mechanism whereby calcineurin affected myocardial cell viability. AdCnA infection, which induced myocyte hypertrophy and atrial natriuretic factor expression, protected against apoptosis induced by 2-deoxyglucose or staurosporine, as assessed by terminal deoxynucleotidyltransferase-mediated dUTP nick end labeling (TUNEL) labeling, caspase-3 activation, DNA laddering, and cellular morphology. The level of protection conferred by AdCnA was similar to that of adenoviral Bcl-x(L) gene transfer or hypertrophy induced by phenylephrine. In vivo, failing hearts from calcineurin-transgenic mice did not demonstrate increased TUNEL labeling and, in fact, demonstrated a resistance to ischemia/reperfusion-induced apoptosis. We determined that the mechanism whereby calcineurin afforded protection from apoptosis was partially mediated by nuclear factor of activated T cells (NFAT3) signaling and partially by Akt/protein kinase B (PKB) signaling. Although calcineurin activation protected myocytes from apoptosis, inhibition of calcineurin with cyclosporine was not sufficient to induce TUNEL labeling in Gqalpha-transgenic mice or in cultured cardiomyocytes. Collectively, these data identify a calcineurin-dependent mouse model of dilated heart failure that is independent of apoptosis.
ICOSL expression in human bone marrow-derived mesenchymal stem cells promotes induction of regulatory T cells (2017)

Mesenchymal stem cells (MSCs) can modulate lymphocyte proliferation and function. One of the immunomodulatory functions of MSCs involves CD4<sup>+</sup>CD25<sup>+</sup>FoxP3<sup>+</sup> regulatory T cells (Tregs), which negatively regulate inflammatory responses. MSC-mediated Treg induction is supposed to be regulated by mechanisms requiring both soluble and cell contact-dependent factors. Although the involvement of soluble factors has been revealed, the contact-dependent mechanisms in MSC-mediated Treg induction remain unclear. We attempted to identify molecule(s) other than secreted factors that are responsible for MSC-mediated Treg induction and to uncover the underlying mechanisms. Under in vitro Treg-inducing conditions, ICOSL expression in MSCs coincided with Treg induction in co-cultures of MSCs with CD4<sup>+</sup> T cells. When cultured in a transwell plate, MSCs failed to induce Tregs. Neutralization or knockdown of ICOSL significantly reduced Tregs and their IL-10 release. ICOSL overexpression in MSCs promoted induction of functional Tregs. ICOSL-ICOS signaling promoted Treg differentiation from CD4<sup>+</sup> T cells through activation of the phosphoinositide 3-kinase-Akt pathway. MSCs primed with Interleukin-1β significantly induced Tregs through ICOSL upregulation. We demonstrated that the Treg-inducing activity of MSCs is proportionate to their basal ICOSL expression. This study provides evidence that ICOSL expression in human MSCs plays an important role in contact-dependent regulation of MSC-mediated Treg induction.
Characterization of the tunneling conductance across DNA bases (2006)

Characterization of the electrical properties of the DNA bases (adenine, cytosine, guanine, and thymine), in addition to building the basic knowledge on these fundamental constituents of a DNA, is a crucial step in developing a DNA sequencing technology. We present a first-principles study of the current-voltage characteristics of nucleotidelike molecules of the DNA bases, placed in a 1.5 nm gap formed between gold nanoelectrodes. The quantum transport calculations in the tunneling regime are shown to vary strongly with the electrode-molecule geometry and the choice of the density-functional theory exchange-correlation functionals. Analysis of the results in the zero-bias limit indicates that distinguishable current-voltage characteristics of different DNA bases are dominated by the geometrical conformations of the bases and nanoelectrodes.
Acceleration of the Dess-Martin Oxidation by Water (1994)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTAcceleration of the Dess-Martin Oxidation by WaterStephanie D. Meyer and Stuart L. SchreiberCite this: J. Org. Chem. 1994, 59, 24, 7549–7552Publication Date (Print):December 1, 1994Publication History Published online1 May 2002Published inissue 1 December 1994https://pubs.acs.org/doi/10.1021/jo00103a067https://doi.org/10.1021/jo00103a067research-articleACS PublicationsRequest reuse permissionsArticle Views20646Altmetric-Citations416LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Growth mechanism for single-crystalline thin film of InGaO3(ZnO)5 by reactive solid-phase epitaxy (2004)

The growth mechanism for a single-crystalline film of InGaO3(ZnO)5 (IGZO) on a (111)-oriented yttria-stabilized-zirconia substrate by reactive solid-phase epitaxy was studied by high-resolution x-ray diffraction, transmission electron microscopy, and atomic force microscopy. We focused on the role of the 2-nm-thick ZnO epitaxial layer during the structural evolution of the 200-nm-thick polycrystalline- (poly-) IGZO layer while thermal annealing. When a thin ZnO epitaxial layer was formed before depositing the poly-IGZO layer, thin single-crystalline epitaxial IGZO seeds were initially formed only on the substrate surface or on the thin ZnO epitaxial layer through a solid-phase reaction between the ZnO epitaxial layer and the poly-IGZO layer. A single-crystalline IGZO layer grew from the IGZO seeds toward the top surface of the film along with a much faster lateral grain growth, which formed a large-area single-crystalline IGZO film with an atomically flat terraced and stepped surface. On the other hand, an epitaxial film was not obtained unless a ZnO epitaxial layer was used, demonstrating that the ZnO epitaxial layer plays a crucial role as the seed for subsequent crystallite growth and a template for determining the crystallographic orientation.
Cardiac and Renal Effects of Standard Versus Rigorous Blood Pressure Control in Autosomal-Dominant Polycystic Kidney Disease (2002)

This study sought to investigate the cardiac and renal effects of rigorous versus standard BP control on autosomal-dominant polycystic kidney disease (ADPKD). A prospective, randomized, 7-yr study was performed to examine the effect of rigorous (<120/80 mmHg) versus standard (135-140/85-90 mmHg) BP control on left ventricular mass index (LVMI) and kidney function in 75 hypertensive ADPKD patients with left ventricular hypertrophy. LVMI was measured by echocardiogram at baseline and at 1 and 7 yr. Renal function was assessed by measuring serum creatinine and 24-h creatinine clearance every 6 mo for 3 yr, then annually for an additional 4 yr. The baseline characteristics were comparable in the two groups. During the study, average mean arterial pressure was 90 +/- 5 mmHg for the rigorous group and 101 +/- 4 mmHg for the standard group (P < 0.0001). The LVMI decreased by 21% in the standard group and by 35% in the rigorous group. A mixed model longitudinal data analysis revealed that rigorous BP control was significantly more effective in decreasing LVMI (P < 0.01). There was no statistically significant difference in renal function between the two groups. In conclusion, left ventricular hypertrophy, a major cardiovascular risk factor, was decreased to a significantly greater extent by rigorous than standard BP control. This finding has particular clinical importance because cardiovascular complications are the most common cause of death in ADPKD patients.
Investigation of single and joint fumigant insecticidal action of citruspeel oil components (1996)

Following gas chromatographic analysis of citruspeel oils, 30 components of these oils were tested against Callosobruchus maculatus (F.). Several compounds (22), including the major component of all citruspeel oils—(+)-limonene—were found to be bioactive, having a strong vapour insecticidal activity. These components and some of their isomers were shown to have varying levels of activity (α-terpineol, 24-h LC50 4·05 μl litre−1 to n-tridecane, LC50 13·3 μl litre−1), but no single component could account for the activity measured for a typical citruspeel oil (lime) on a proportional basis. Joint action studies established that in artificial mixtures several pure components of citruspeel oil potentiated their individual fumigant action in a manner consistent with an additive model against C. maculatus.
A storage subsystem for image and records management (1993)

Digital storage and communications are becoming cost effective for massive collections of document images with access not only for nearby users but also for those who are hundreds of miles from their libraries. The Document Storage Subsystem (DocSS) provides generic library services such as searching, storage, and retrieval of document pages and sharing of objects with appropriate data security and integrity safeguards. A library session has three components: a manager of remote catalogs, a set of managers of large-object stores, and a manager of cache services. DocSS supports all kinds of page data—text, pictures, spreadsheets, graphics, programs—and can be extended to audio and video data. Document models can be built as DocSS applications; the paper describes a folder manager as an example. What differentiates DocSS among digital library projects is its approach to data distribution over wide area networks, its client-server approach to the heterogeneous environment, and its synergism with other components of evolving open systems.
Attenuation in the Escherichia coli tryptophan operon: role of RNA secondary structure involving the tryptophan codon region. (1979)

The secondary structure of the terminated trp leader transcript from Escherichia coli was analyzed by RNase T1 partial digestion. Base-paired regions were recovered by nondenaturing gel electrophoresis and identified by denaturing gel electrophoresis and fingerprinting. The tandem tryptophan codons in the leader peptide coding region were found to be base paired with a more distal region of the transcript. This and other secondary structures that the trp leader RNA can form help explain the physiological response of the operon as well as the behavior of regulatory mutants.
Aligning temporal data by sentinel events (2008)

Electronic Health Records (EHRs) and other temporal databases contain hidden patterns that reveal important cause-and-effect phenomena. Finding these patterns is a challenge when using traditional query languages and tabular displays. We present an interactive visual tool that complements query formulation by providing operations to align, rank and filter the results, and to visualize estimates of the intervals of validity of the data. Display of patient histories aligned on sentinel events (such as a first heart attack) enables users to spot precursor, co-occurring, and aftereffect events. A controlled study demonstrates the benefits of providing alignment (with a 61% speed improvement for complex tasks). A qualitative study and interviews with medical professionals demonstrates that the interface can be learned quickly and seems to address their needs.
Phospholipase D Activity in PC12 Cells (1997)

PC12 neuronal cells express a membrane phospholipase D (PLD) activity that is detected at similar levels in undifferentiated or differentiated cells. The regulation of this activity by agonists was explored. Membrane phospholipase D activity was increased by treatment of cells with the phorbol ester phorbol 12-myristate 13-acetate (PMA) or with nerve growth factor. The ability of PMA to activate PLD was confirmed in intact PC12 cells. Basal activity of PLD in membranes was reduced in RG20, a PC12 cell line overexpressing the human alpha2A-adrenergic receptor. PMA did not increase PLD activity in RG20 cells, as assessed both in membrane preparations and in intact cells. Cyclic AMP levels did not regulate phospholipase D activity in either cell type. However, incubation of RG20 cells with the alpha2-adrenergic antagonist rauwolscine or with pertussis toxin increased membrane PLD activity and restored activation of PLD by PMA. These data suggest that the effects of the overexpressed alpha2A-adrenergic receptor on PLD activity are mediated by precoupling of the receptor to the heterotrimeric GTP-binding protein, Gi, but are independent of adenylate cyclase regulation. The results of this study suggest that membrane phospholipase D activity can be negatively regulated via Gi in PC12 cells.
<title>Semiautomatic 3D-model extraction from uncalibrated 2D-camera views</title> (1995)

Scenes that contain every-day man-made objects often possess sets of parallel lines and orthogonal planes, the projective features of which possess enough structural information to constrain possible scene element geometries as well as a camera's intrinsic and extrinsic parameters. In particular, in a scene with three mutually orthogonal sets of parallel lines, detection of the corresponding three vanishing points of the imaged lines allows us to determine the camera's image-relative principal point and effective focal length. In this paper we introduce a new technique to solve for radial and decentering lens distortion directly from the results of vanishing point estimation, thus precluding the need for special calibration templates. This is accomplished by using an iterative method to solve for the parameters that minimize vanishing point dispersion. Dispersion here is measured as covariance of vanishing point estimation error projected on the Gaussian sphere whose origin is the estimated center of projection. Having found a complete model for each camera's intrinsic parameters, corresponding points are used in the relative orientation technique to determine the camera's extrinsic parameters as well as point-wise structure. Surfaces inherit planar geometry and extent from manually identified coplanar lines and points. View independent textures are created for each surface by finding the 2-D homographic texture transformation which corrects for planar perspective foreshortening. We utilize the local Jacobian of this transformation in two important ways: to prevent aliasing in the plane's texture space and to merge correctly texture data arising from varying sampling resolutions in multiple views.
Trifluoromethyl group: an effective xenobiotic function for peptide backbone modification (2004)

Peptides modified with fluoroalkyl functions in key backbone positions have been scarcely studied so far. Thus, little is known about their synthesis, their structural and physico-chemical properties, and their biological features. Our interest in this field of research led to the development of stereocontrolled synthetic protocols, both in solution and in the solid phase, for many different fluoroalkyl peptidomimetics, which are reviewed in this paper: (a) bis-trifluoromethyl (Tfm) analogues of Pepstatin A, which are nanomolar and selective inhibitors of the protozoal aspartyl protease Plasmepsin II; (b) Tfm-malic peptidomimetics that are micromolar inhibitors of some matrix metalloproteinases; (c) partially modified retro (PMR) and retro-inverso (PMRI) ψ[CH(CF3)NH] peptides with a strong proclivity to assume turn-like conformations; (d) ψ[CH(CF3)NH] peptide mimics having a great potential as hybrids between natural peptides and hydrolytic transition state analogues; (e) the first PMR peptides incorporating a trifluoroalanine surrogate. These novel classes of fluorinated peptide mimics are likely to represent just the top of an iceberg formed by new peptidomimetic structures with unique biomedicinal and pharmaceutical properties.
Inhibition of CD73 Improves B Cell-Mediated Anti-Tumor Immunity in a Mouse Model of Melanoma (2012)

CD73 is a cell surface enzyme that suppresses T cell-mediated immune responses by producing extracellular adenosine. Growing evidence suggests that targeting CD73 in cancer may be useful for an effective therapeutic outcome. In this study, we demonstrate that administration of a specific CD73 inhibitor, adenosine 5'-(α,β-methylene)diphosphate (APCP), to melanoma-bearing mice induced a significant tumor regression by promoting the release of Th1- and Th17-associated cytokines in the tumor microenvironment. CD8+ T cells were increased in melanoma tissue of APCP-treated mice. Accordingly, in nude mice APCP failed to reduce tumor growth. Importantly, we observed that after APCP administration, the presence of B cells in the melanoma tissue was greater than that observed in control mice. This was associated with production of IgG2b within the melanoma. Depletion of CD20+ B cells partially blocked the anti-tumor effect of APCP and significantly reduced the production of IgG2b induced by APCP, implying a critical role for B cells in the anti-tumor activity of APCP. Our results also suggest that APCP could influence B cell activity to produce IgG through IL-17A, which significantly increased in the tumor tissue of APCP-treated mice. In support of this, we found that in melanoma-bearing mice receiving anti-IL-17A mAb, the anti-tumor effect of APCP was ablated. This correlated with a reduced capacity of APCP-treated mice to mount an effective immune response against melanoma, as neutralization of this cytokine significantly affected both the CD8+ T cell- and B cell-mediated responses. In conclusion, we demonstrate that both T cells and B cells play a pivotal role in the APCP-induced anti-tumor immune response.
Development and testing of a human collagen graft material (1990)

Human Type I collagen was extracted from placenta using pepsin and salt fractionation. The collagen was characterized by SDS-PAG electrophoresis dispersed in acidic medium, freeze-dried, and cross-linked in an 0.25% glutaraldehyde solution pH 4.5 for 2 days. After washing for 7 days and freeze drying the resultant collagen sponge was tested with regard to mechanical, physical, enzymatic degradation properties and biological responses. The modulus of elasticity was found to be 289 +/- 10 g/mm2 and the sponge was insoluble in water, buffered saline, or tissue culture medium over a period of 6 weeks with swelling occurring at less than 5% of volume. The sponge had a high fluid binding capacity, amounting to 56 +/- 5 mL tissue culture medium per gram of dry weight. Bacterial collagenase produced slow degradation of the sponge with complete disappearance by 24 h only when high concentrations (200 units enzyme per mg of the collagen sponge) were used. Cytotoxicity studies using human gingival and periodontal ligament fibroblasts revealed less than 5% apparent cytotoxicity or proliferation. Subcutaneous implantation was followed by resorption and vascularization over a period of 6-8 weeks. It was concluded that the collagen sponge prepared from human Type I collagen has potential as a graft material in oral surgical procedures.
Vagal nerve stimulation effects on cerebellar tremor in multiple sclerosis (2005)

Although vagal nerve stimulation (VNS) is a common alternative&#13;\nadd-on treatment for epilepsy, the effects of the possible combination&#13;\nof VNS programmable options other than those established in&#13;\nantiepileptic protocols (e.g., current intensity, on-off operating&#13;\ntime) have not been fully investigated. This study reports the&#13;\neffect of low-intensity, low cycling VNS on a subject with persistent&#13;\ncerebellar tremor due to multiple sclerosis (MS).