gebhart/patrepeval huggingface dataset:
Global, Regional, and National Cancer Incidence, Mortality, Years of Life Lost, Years Lived With Disability, and Disability-Adjusted Life-Years for 29 Cancer Groups, 1990 to 2016 (2018)

Large disparities exist between countries in cancer incidence, deaths, and associated disability. Scaling up cancer prevention and ensuring universal access to cancer care are required for health equity and to fulfill the global commitments for noncommunicable disease and cancer control.
Phosphoinositide 3′-kinase delta: turning off BCR signaling in Chronic Lymphocytic Leukemia (2011)

PI3K signaling is now targeted in first clinical trials in patients with B cell malignancies, including Chronic Lymphocytic Leukemia (CLL), which represent one of the first molecularly targeted therapies for B cell malignancies.
Interleukin-10 downregulates protective immunity to Brucella abortus (1995)

In vivo neutralization of interleukin-10 (IL-10) with an anti-IL-10 monoclonal antibody resulted in up to 10-fold fewer bacteria in the spleens of BALB/c mice infected with the virulent Brucella abortus strain 2308. In vitro neutralization of endogenous IL-10 in brucella antigen-stimulated cultures of splenocytes from infected mice resulted in increased gamma interferon production in these cultures, whereas exogenous recombinant IL-10 inhibited the ability of peptone-elicited peritoneal macrophages to control intracellular brucellae. These data suggest that IL-10 may be downregulating the immune response to B. abortus by affecting both macrophage effector function and the production of the protective Th1 cytokine gamma interferon.
Serum levels of tumor necrosis factor and soluble interleukin 2 receptor as markers of disease activity and prognosis in childhood leukemia and lymphoma. (1993)

The serum levels of soluble interleukin 2 receptor (SIL-2R) and tumor necrosis factor (TNF) were assessed in 69 children from 6 months to 14 years old who suffered from acute lymphoblastic leukemia (39), Hodgkin's disease (15), non-Hodgkin's lymphoma (15) and in 54 normal age-matched controls prior to any therapy and at remission. Both SIL-2R and TNF levels were significantly higher at diagnosis compared with normal controls (P < 0.001), but decreased significantly at remission. The SIL-2R and TNF levels were significantly higher in an advanced stage of lymphoma than in an early stage. In the patients with acute lymphoblastic leukemia (ALL) and lymphoma, higher levels of SIL-2R (> 1030 units/ml) and TNF (> 30 pg/ml) were associated with a poorer treatment outcome (P < 0.01). Our findings indicate that elevated TNF serum secretion together with SIL-2R are useful markers in childhood ALL and lymphoma and can be used to assess both disease activity and prognosis in this group of malignancies.
Total and High–Molecular Weight Adiponectin in Relation to Metabolic Variables at Baseline and in Response to an Exercise Treatment Program (2007)

These results do not support the superiority of HMW over total adiponectin (measured using currently available assays) in assessing metabolic variables at baseline or in response to physical training. Moreover, there are significant differences in the ability of commercially available assays for total adiponectin to predict metabolic variables.
Spatial Resolution Enhancement of Low-Resolution Image Sequences A Comprehensive Review with Directions for Future Research (1998)

Recent years have seen growing interest in the problem of super-resolution restoration of video sequences. Whereas in the traditional single image restoration problem only a single input image is available for processing, the task of reconstructing super-resolution images from multiple undersampled and degraded images can take advantage of the additional spatiotemporal data available in the image sequence. In particular, camera and scene motion lead to frames in the source video sequence containing similar, but not identical information. The additional information available in these frames make possible reconstruction of visually superior frames at higher resolution than that of the original data. In this paper we review the current state of the art and identify promising directions for future research. The authors are with the Laboratory for Image and Signal Analysis (LISA), University of Notre Dame, Notre Dame, IN 46556. E-mail: rls@nd.edu . Executive Summary This document...
From Erythropoietin to Oxygen: Hypoxia-Inducible Factor Hydroxylases and the Hypoxia Signal Pathway (2002)

The regulation of blood red cell production by the hormone erythropoietin (Epo) provides a paradigm for control of gene expression by oxygen. Analysis of this pathway has revealed a widespread system of gene regulation based on a transcriptional complex termed hypoxia-inducible factor (HIF). Hydroxylation of specific prolyl and asparinyl residues in the alpha subunit of HIF by a series of non-haem iron-dependent dioxygenases has been defined as a novel mechanism of protein modification that transduces the oxygen-sensitive signal.
The Design, Synthesis and Conformation of Some Newβ-Hairpin Mimetics: Novel Reagents for Drug and Vaccine Discovery (2000)

Syntheses and conformational studies are presented of some novel templates for use in the construction of β-hairpin mimetics. The templates are relatively rigid molecules that constrain the backbone conformation of an attached peptide loop into the β-region of φ/ψ-space. They include diketopiperazines incorporating substituted proline derivatives, as well as heterochiral diproline units, which can be incorporated efficiently into cyclic peptide β-hairpin mimetics by solid-phase methods. Potential applications of β-hairpin mimetics in drug and synthetic vaccine discovery are discussed.
Novel Solvent System for Metal Ion Separation: Improved Solvent Extraction of Strontium(II) and Lead(II) as Dicyclohexano-18-Crown-6 Complexes (1999)

As a part of our study of hazardous metal ion separations, the extraction of Sr2+ and Pb2+ from solutions containing nitric acid and various nitrate salts has been investigated. High partition ratios (DSr > 100−10)) were observed using comparatively low (10–50 mM) concentrations of dicyclohexano-18-crown-6 in a group of nitrile solvents with relatively high dielectric constants (adiponitrile, glutaronitrile, succinonitrile, malononitrile; ε = 30–60) which are able to participate in coalescence extraction. Equilibria in the solvent extraction system were characterized, with Sr(II) and Pb(II) occurring in the organic phase primarily as partially dissociated ion pairs. A dramatic increase of extraction efficiency over traditional systems is achieved because of the formation of solvated cationic complexes in the organic phase.
Pulsatile Administration of Gonadotropin-Releasing Hormone Advances Ovulation in Cycling Mares (1986)

Cycling standardbred mares were infused with saline or 20 micrograms gonadotropin-releasing hormone (GnRH) in a pulsatile pattern (one 5-sec pulse/h, 2 h or 4 h) beginning on Day 16 of the estrous cycle. Although serum concentrations of luteinizing hormone (LH) increased significantly earlier in all three GnRH-treated groups (within one day of the initiation of infusion) compared to saline-infused controls, there were no differences in peak periovulatory LH concentrations among treatments (overall mean +/- SEM, 8.98 +/- 0.55 ng/ml). The number of days from the start of treatment to ovulation was significantly less in mares infused with 20 micrograms GnRH/h (mean +/- SEM, 2.9 +/- 0.6 days after the initiation of treatment, or 18.9 days from the previous ovulation; N = 7) compared to mares treated with saline (5.9 +/- 0.3 days, or 21.9 days from previous ovulation; N = 7) or 20 micrograms GnRH per 4 h (5.4 +/- 0.9 days or 21.4 days from previous ovulation; N = 5). Although mares infused with 20 micrograms GnRH/2 h ovulated after 4.3 +/- 0.7 days of treatment (Day 20.3; N = 7), this was not significantly different from either the control or 20 micrograms GnRH/h treatment groups. Neither the duration of the resulting luteal phase nor the length of the estrous cycle was different between any of the treatment groups (combined means, 14.7 +/- 0.2 days and 21.3 +/- 0.4 days, respectively). We conclude that pulsatile infusion of GnRH is effective in advancing the time of ovulation in cycling mares, but that the frequency of pulse infusion is a critical variable.
A prospective study of early pregnancy loss (1996)

The New York State Early Pregnancy Detection Study was a prospective study of early pregnancy loss, between implantation and menses, in 217 women attempting to become pregnant during 1989-1992. Women collected urine samples on three consecutive mornings during the late luteal phase of their menstrual cycle, for up to 12 cycles, contributing samples for 1253 menstrual cycles. Urinary human chorionic gonadotrophin (HCG), measured using an immunoradiometric assay, was the biomarker for pregnancy. We observed a range of early pregnancy loss (EPL) rates, from a low estimate of 11.0% to a high estimate of 26.9%, depending on the definition used and the subgroup analysed. Based on a definition of 3 days of HCG concentration > or = 4.00 pmol/l, 2 days > or = 5.33 pmol/l or the last day of HCG > or = 6.67 pmol/l, we identified 115 positive cycles; 95 cycles were clinically confirmed pregnancies and 20 cycles were EPL, giving an EPL rate of 17.4% [95% confidence interval (CI) 11.0-25.6]. In addition, we observed an EPL rate of 19.5% (95% CI 11.3-30.1) for samples collected within a 15 day window around menses, and a rate of 20.3% (95% CI 11.3-32.2) for samples limited to the first three menstrual cycles. Because studies use urine collection schemes other than daily sampling, the definition of pregnancy will be crucial in defining EPL.
Data fusion through cross-modality metric learning using similarity-sensitive hashing (2010)

International audience
Long‐Term Efficacy and Immune Responses following Immunization with the RTS,S Malaria Vaccine (1998)

The malaria sporozoite vaccine candidate RTS,S, formulated with an oil-in-water emulsion plus the immunostimulants monophosphoryl lipid A and the saponin derivative QS21 (vaccine 3), recently showed superior efficacy over two other experimental formulations. Immunized volunteers were followed to determine the duration of protective immune responses. Antibody levels decreased to between one-third and one-half of peak values 6 months after the last dose of vaccine. T cell proliferation and interferon-gamma production in vitro were observed in response to RTS,S or hepatitis B surface antigen. Seven previously protected volunteers received sporozoite challenge, and 2 remained protected (1/1 for vaccine 1, 0/1 for vaccine 2, and 1/5 for vaccine 3). The prepatent period was 10.8 days for the control group and 13.2 days for the vaccinees (P < .01). Immune responses did not correlate with protection. Further optimization in vaccine composition and/or immunization schedule will be required to induce longer-lasting protective immunity.
The Measurement of Proliferation in Tissue Cultures by Enumeration of Cell Nuclei (1951)

Journal Article The Measurement of Proliferation in Tissue Cultures by Enumeration of Cell Nuclei Get access Katherine K. Sanford, Katherine K. Sanford Search for other works by this author on: Oxford Academic PubMed Google Scholar Wilton R. Earle, Wilton R. Earle Search for other works by this author on: Oxford Academic PubMed Google Scholar Virginia J. Evans, Virginia J. Evans Search for other works by this author on: Oxford Academic PubMed Google Scholar Helen K. Waltz, Helen K. Waltz Search for other works by this author on: Oxford Academic PubMed Google Scholar John E. Shannon John E. Shannon National Cancer Institute, National Institutes of Health, U. S. Public Health Service, Bethesda, Md. Search for other works by this author on: Oxford Academic PubMed Google Scholar JNCI: Journal of the National Cancer Institute, Volume 11, Issue 4, February 1951, Pages 773–795, https://doi.org/10.1093/jnci/11.4.773 Published: 01 February 1951 Article history Received: 27 September 1950 Published: 01 February 1951
Cancer metabolism: Key players in metabolic reprogramming (2012)

Over 80 years ago, Warburg discovered that cancer cells generate ATP through the glycolytic pathway, even in the presence of oxygen. The finding of this phenomenon, termed the "Warburg effect," stimulated much research on tumorigenesis, but few explanations were forthcoming to explain the observation. Recently, advanced developments in molecular biology and high-throughput molecular analyses have revealed that many of the signaling pathways altered by gene mutations regulate cell metabolism in cancer. Furthermore, mutations in isocitrate dehydrogenase 1 and 2 were shown to elevate 2-hydroxyglutarate, which led to changes in α-ketoglutarate-dependent dioxygenase enzyme activity, resulting in an increased risk of malignant tumors. Although these findings led to a renewed interest in cancer metabolism, our knowledge on the specifics of tumor metabolism is still fragmented. This paper reviews recent findings related to key transcription factors and enzymes that play an important role in the regulation of cancer metabolism.
TGF‐β‐induced profibrotic signaling is regulated in part by the WNT receptor Frizzled‐8 (2016)

TGF-β is important in lung injury and remodeling processes. TGF-β and Wingless/integrase-1 (WNT) signaling are interconnected; however, the WNT ligand-receptor complexes involved are unknown. Thus, we aimed to identify Frizzled (FZD) receptors that mediate TGF-β-induced profibrotic signaling. MRC-5 and primary human lung fibroblasts were stimulated with TGF-β1, WNT-5A, or WNT-5B in the presence and absence of specific pathway inhibitors. Specific small interfering RNA was used to knock down FZD8. In vivo studies using bleomycin-induced lung fibrosis were performed in wild-type and FZD8-deficient mice. TGF-β1 induced FZD8 specifically via Smad3-dependent signaling in MRC-5 and primary human lung fibroblasts. It is noteworthy that FZD8 knockdown reduced TGF-β1-induced collagen Iα1, fibronectin, versican, α-smooth muscle (sm)-actin, and connective tissue growth factor. Moreover, bleomycin-induced lung fibrosis was attenuated in FZD8-deficient mice in vivo Although inhibition of canonical WNT signaling did not affect TGF-β1-induced gene expression in vitro, noncanonical WNT-5B mimicked TGF-β1-induced fibroblast activation. FZD8 knockdown reduced both WNT-5B-induced gene expression of fibronectin and α-sm-actin, as well as WNT-5B-induced changes in cellular impedance. Collectively, our findings demonstrate a role for FZD8 in TGF-β-induced profibrotic signaling and imply that WNT-5B may be the ligand for FZD8 in these responses.-Spanjer, A. I. R., Baarsma, H. A., Oostenbrink, L. M., Jansen, S. R., Kuipers, C. C., Lindner, M., Postma, D. S., Meurs, H., Heijink, I. H., Gosens, R., Königshoff, M. TGF-β-induced profibrotic signaling is regulated in part by the WNT receptor Frizzled-8.
Visualization and Visual Analysis of Multifaceted Scientific Data: A Survey (2012)

Visualization and visual analysis play important roles in exploring, analyzing, and presenting scientific data. In many disciplines, data and model scenarios are becoming multifaceted: data are often spatiotemporal and multivariate; they stem from different data sources (multimodal data), from multiple simulation runs (multirun/ensemble data), or from multiphysics simulations of interacting phenomena (multimodel data resulting from coupled simulation models). Also, data can be of different dimensionality or structured on various types of grids that need to be related or fused in the visualization. This heterogeneity of data characteristics presents new opportunities as well as technical challenges for visualization research. Visualization and interaction techniques are thus often combined with computational analysis. In this survey, we study existing methods for visualization and interactive visual analysis of multifaceted scientific data. Based on a thorough literature review, a categorization of approaches is proposed. We cover a wide range of fields and discuss to which degree the different challenges are matched with existing solutions for visualization and visual analysis. This leads to conclusions with respect to promising research directions, for instance, to pursue new solutions for multirun and multimodel data as well as techniques that support a multitude of facets.
Ion selectivity and gating of small conductance Ca(2+)‐activated K+ channels in cultured rat adrenal chromaffin cells. (1994)

1. The ion selectivity and gating of apamin-sensitive, small conductance Ca(2+)-activated K+ (SK) channels were studied in cultured rat adrenal chromaffin cells using patch clamp techniques. 2. The amplitude of slow tail currents showed a bell-shaped dependence on depolarization potentials. Slow tail currents were abolished in a Ca(2+)-free external solution or by adding 100 microM Cd2+ to the external solution. Reversal potentials followed the predictions of the Nernst equation for a K+ electrode. 3. Slow tail currents were largely blocked by external application of apamin (dissociation constant, Kd, 4.4 nM), (+)-tubocurarine (Kd, 20 microM), and tetraethylammonium (Kd, 5.4 mM). 4. The relative permeability (PX/PK, where X may be any one of the ions listed) of SK channels was: Tl+ (1.87) > K+ (1.0) > Rb+ (0.81) > Cs+ (0.16) > NH4+ (0.11). Na+, Li+ and methylamine were not measurably permeant (PX/PK < 0.005). Open SK channels seem to have an effective pore diameter of 0.34-0.38 nm. The relative conductance (gX/gK) was: Tl+ (1.29) > K+ (1.0) > Rb+ (0.85) > Cs+ (0.45) approximately NH4+ (0.44). 5. With mixtures of Tl+ and K+, SK channels showed anomalous mole-fraction behaviour. 6. Ca2+ dependence of SK channel gating was studied using inside-out macropatches. The [Ca2+] required for half-maximal activation and the Hill coefficient were 0.69 microM and 1.7, respectively, and independent of membrane potentials. 7. Single-channel conductance was 13-14 pS (160 mM K+).
The human cytokine I-309 is a monocyte chemoattractant. (1992)

The human cytokine I-309 is a small glycoprotein secreted by activated T lymphocytes and structurally related to a number of inflammatory cytokines. To investigate the biological activities of I-309 protein, we produced a stable Chinese hamster ovary cell transfectant, CDI.10, which constitutively secretes I-309 protein into culture supernatant. Affinity chromatography on a heparin-Sepharose matrix followed by reverse-phase HPLC was used to purify to homogeneity a glycoprotein doublet of 15-16 kDa from culture supernatant. Biochemical analysis showed the purified recombinant I-309 glycoprotein to be indistinguishable from the natural I-309 glycoprotein constitutively secreted by the T-cell line IDP2. Purified recombinant I-309 stimulated migration of human monocytes but not neutrophils when tested by in vitro chemotaxis assay. Furthermore, the purified protein transiently increased cytoplasmic free calcium concentration in human peripheral blood monocytes but did not do so in lymphocytes or neutrophils. These results demonstrate that the I-309 gene encodes an inflammatory mediator that specifically stimulates human monocytes.
Prostaglandin E2 production is synergistically increased in cultured human glomerular mesangial cells by combinations of IL-1 and tumor necrosis factor- alpha 1. (1989)

Both IL-1 alpha and IL-1 beta and TNF-alpha induced a time- and dose-dependent release of authentic PGE2 from cultured human glomerular mesangial cells (HMC). This release became significant only after a 4- to 6-h lag phase, and was abolished by inhibition of protein synthesis, and was not related to cell proliferation. Combinations of IL-1 and TNF-alpha when added simultaneously to HMC resulted in a dose-dependent synergistic increase in PGE2 production. These stimulatory effects were specifically inhibited by anticytokine antibodies and the synergistic effect required the simultaneous presence of both IL-1 and TNF-alpha. Arachidonic acid (AA) release experiments and measurement of cyclooxygenase activity, revealed that while both were increased by IL-1 beta and TNF-alpha alone (IL-1 beta greater than TNF-alpha), combinations of IL-1 beta and TNF-alpha resulted in only additive increases in AA release and cyclooxygenase activity. Taken together, these data suggest that stimulation of PGE2 in HMC, by combinations of these cytokines, is not rate limited by AA release or cyclooxygenase activation, but may be related to the induction of the distal enzymes controlling specific PG synthesis.
Liquid crystal Bragg gratings: dynamic optical elements for spatial light modulators (2007)

Bragg gratings yield a single diffracted order when irradiated by a coherent beam at the appropriate Bragg angle. In many cases, nearly all of the energy of the incident beam can be coupled to the diffracted beam. Hence these gratings can form many useful optical elements, and this has been realized in 1-D, 2-D, and 3-D photonic crystals. Bragg gratings made with liquid crystals offer the added dimension of dynamic properties through the large electro-optical effect in liquid crystals. Applications for spatial light modulators are numerous, including optical switches, modulators, active optical elements (e.g., lenses), laser sources, and tunable filters. We have been exploring a number of approaches for making liquid crystal Bragg gratings, including holographic polymer-dispersed liquid crystals, cholesteric liquid crystals, and homogenous nematic liquid crystals in hybrid devices. We have studied the dynamic properties of these Bragg gratings by electrical, thermal, and optical stimulation. Modification and control of optical and dynamic properties have been obtained through combinations of liquid crystals with polymers, combinations of various dopant materials, and interactions of liquid crystals with organic and inorganic interfaces. We discuss the materials, fabrication, characterization, and physics of liquid crystal Bragg gratings and present the results of various devices we have studied in our lab. We will also discuss potential applications.
Receptor functions for the integrin VLA-3: fibronectin, collagen, and laminin binding are differentially influenced by Arg-Gly-Asp peptide and by divalent cations. (1991)

The capability of the integrin VLA-3 to function as a receptor for collagen (Coll), laminin (Lm), and fibronectin (Fn) was addressed using both whole cell adhesion assays and ligand affinity columns. Analysis of VLA-3-mediated cell adhesion was facilitated by the use of a small cell lung carcinoma line (NCI-H69), which expresses VLA-3 but few other integrins. While VLA-3 interaction with Fn was often low or undetectable in cells having both VLA-3 and VLA-5, NCI-H69 cells readily attached to Fn in a VLA-3-dependent manner. Both Arg-Gly-Asp (RGD) peptide inhibition studies, and Fn fragment affinity columns suggested that VLA-3, like VLA-5, may bind to the RGD site in human Fn. However, unlike Fn, both Coll and Lm supported VLA-3-mediated adhesion that was not inhibited by RGD peptide, and was totally unaffected by the presence of VLA-5. In addition, VLA-3-mediated binding to Fn was low in the presence of Ca++, but was increased 6.6-fold with Mg++, and 30-fold in the presence of Mn++. In contrast, binding to Coll was increased only 1.2-fold with Mg++, and 1.7-fold in Mn++, as compared to the level seen with Ca++. Together, these experiments indicate that VLA-3 can bind Coll, Lm, and Fn, and also show that (a) VLA-3 can recognize both RGD-dependent and RGD-independent ligands, and (b) different VLA-3 ligands have distinctly dissimilar divalent cation sensitivities.