gebhart/patrepeval huggingface dataset:
Inflammatory Mediators in Chronic Obstructive Pulmonary Disease (2005)

Chronic obstructive pulmonary disease (COPD) is characterised by chronic obstruction of expiratory flow affecting peripheral airways, associated with chronic bronchitis (mucus hypersecretion with goblet cell and submucosal gland hyperplasia) and emphysema (destruction of airway parenchyma), together with fibrosis and tissue damage, and inflammation of the small airways. Inflammatory mediators include lipid mediators, chemokines, cytokines, growth factors, reactive oxygen species and proteinases. Increased levels of interleukin (IL)-6, IL-1beta, tumour necrosis factor-alpha (TNF-alpha) and IL-8 have been measured in sputum, with further increases during exacerbations, and the bronchiolar epithelium over-expresses MCP-1 and IL-8. IL-8 and LTB4 can account for neutrophil chemotactic activity of sputum. The expression of chemokines such as RANTES and eotaxin may underlie the airway eosinophilia observed in some COPD patients. Reactive oxygen species can increase gene expression of many inflammatory mediators, such as IL-1 and TNFalpha from macrophages, alveolar and bronchial epithelial cells. TNFalpha and IL-1beta stimulate macrophages to produced matrix metalloproteinase-9 (MMP-9), and bronchial epithelial cells to produce extracellular matrix glycoproteins such as tenascin. Increased expression of transforming growth factor-beta (TGFbeta) and of epidermal growth factor (EGF) occurs in the epithelium and submucosal cells of patients with chronic bronchitis. TGFbeta and EGF activate proliferation of fibroblasts, while activation of the EGF receptor leads to mucin gene expression.
Characterization of an Avian Influenza A (H5N1) Virus Isolated from a Child with a Fatal Respiratory Illness (1998)

An avian H5N1 influenza A virus (A/Hong Kong/156/97) was isolated from a tracheal aspirate obtained from a 3-year-old child in Hong Kong with a fatal illness consistent with influenza. Serologic analysis indicated the presence of an H5 hemagglutinin. All eight RNA segments were derived from an avian influenza A virus. The hemagglutinin contained multiple basic amino acids adjacent to the cleavage site, a feature characteristic of highly pathogenic avian influenza A viruses. The virus caused 87.5 to 100 percent mortality in experimentally inoculated White Plymouth Rock and White Leghorn chickens. These results may have implications for global influenza surveillance and planning for pandemic influenza.
Host's immune response in electrotherapy of murine tumors by direct current. (1997)

Electrotherapy by low level direct current has been demonstrated to have antitumor effects in different murine tumor models and in clinics. Electrotherapy in "field" configuration, where electrodes are placed subcutaneously outside of the tumor in a way that tumor lies in between the electrodes, was performed in immunodeficient nude and immunocompetent mice. Electrotherapy was much more effective in immunocompetent mice based on the observed tumor growth retardation, thus demonstrating that antitumor effectiveness of electrotherapy greatly depends on host's immune response. Further experiments were conducted by combining electrotherapy with concomitant immunotherapy in order to potentiate the antitumor effect of electrotherapy. Immunotherapy consisted of local delivery of genetically engineered cells selected for IL-2 secretion. This combined treatment was much more effective than any of the treatments alone.
"Guji, Guji, Angela]" Family planning programme. (1997)

Despite the severe social and physical ills associated with adolescent pregnancy, teenagers continue to behave irresponsibly as they copy the sex behavior of adults without taking precautions to prevent pregnancy. Whereas it may be impossible to control the physical and psychological forces which cause teenagers to behave irresponsibly, social forces can be controlled. Currently the adult world mystifies sex while withholding important information about it. The only way to combat teenage pregnancy it to provide youth with regular information about sex which is suitable for their stage of development. Sex should be demystified, and teenagers should be allowed to gain a scientific knowledge of every aspect of puberty.
Cellular Immunity in Breast Cancer Patients Completing Taxane Treatment (2004)

Data from group comparisons with appropriate controls in a sizable clinical sample contravene traditional wisdom that taxanes suppress patients' immune cell functions. Problems in generalizing direct-contact laboratory models to the field of cancer treatment are highlighted.
Photoacoustic imaging of biological tissue with intensity-modulated continuous-wave laser (2008)

We build a photoacoustic imaging system using an intensity-modulated continuous-wave laser source, which is an inexpensive, compact, and durable 120-mW laser diode. The goal is to significantly reduce the costs and sizes of photoacoustic imaging systems. By using a bowl-shaped piezoelectric transducer, whose numerical aperture is 0.85 and resonance frequency is 2.45 MHz, we image biological tissues with a lateral resolution of 0.45 mm, an axial resolution of 1 mm, and an SNR as high as 43 dB.
Induction of an invasive phenotype in benign tumor cells with a laminin A-chain synthetic peptide. (1992)

K-1735 clones 10 and M2 are cell lines cloned from a UV-induced murine melanoma. While both lines are highly tumorigenic, only the M2 cells are highly invasive in vitro and metastatic in vivo. Here we have exposed the clone 10 cells to the synthetic peptide PA22-2, which contains the IKVAV sequence from the A chain of laminin and which, like laminin, induces collagenase IV production and enhances metastasis formation by B16F10 cells. Zymogram analysis of conditioned media from clone 10 cells cultured on the peptide demonstrated a dose-dependent increase in collagenase IV activity. When clone 10 cells were cultured on a reconstituted basement membrane (Matrigel), this peptide caused an invasive phenotype comparable to the M2 cells. The invasive clone 10 cells were, however, unable to form lung colonies in vivo in the presence of this peptide. We conclude that this peptide represents an active site on laminin which is able to stimulate the invasiveness of this tumor cell line, but that this activity is not sufficient to confer metastatic potential.
Zur Chemie des Phorbols, V (1968)

In phorbol and partial acetates of phorbol the hydroxyl groups in the 20-, 13-, 12- and 4-positions can be etherified with one of the following methods: diazoalkane/Al-i-propylate, tritylchloride/pyridine and methyl-iodide/silveroxide. The investigation of suitable phorbol ethers with Fehling's and Tollens' reagent proves that the tertiary hydroxyl at the cyclopropane ring is solely responsible for the reducing properties of phorbol. Thus, phorbol is the first natural compound in which this reaction of tertiary cyclopropanols was detected.
Molecular diffusion in tissue‐engineered cartilage constructs: Effects of scaffold material, time, and culture conditions (2004)

Diffusion is likely to be the primary mechanism for macromolecular transport in tissue-engineered cartilage, and providing an adequate nutrient supply via diffusion may be necessary for cell proliferation and extracellular matrix production. The goal of this study was to measure the diffusivity of tissue-engineered cartilage constructs as a function of scaffold material, culture conditions, and time in culture. Diffusion coefficients of four different-sized fluorescent dextrans were measured by fluorescence recovery after photobleaching in tissue-engineered cartilage constructs seeded with human adipose-derived stem cells or acellular constructs on scaffolds of alginate, agarose, gelatin, or fibrin that were cultured for 1 or 28 days in either chondrogenic or control conditions. Diffusivities in the constructs were much greater than those of native cartilage. The diffusivity of acellular constructs increased 62% from Day 1 to Day 28, whereas diffusivity of cellular constructs decreased 42% and 27% in chondrogenic and control cultures, respectively. The decrease in diffusivity in cellular constructs is likely due to new matrix synthesis, which may be enhanced with chondrogenic media, and matrix contraction by the cells in the fibrin and gelatin scaffolds. The increase in diffusivity in the acellular constructs is probably due to scaffold degradation and swelling.
Chemical Modification of the Active Site of the Acetylcholine Receptor (1969)

The receptor for acetylcholine in the subsynaptic membrane of the electroplax of Electrophorus electricus is a protein with a disulfide bond in the vicinity of the active site. This disulfide can be reduced and reoxidized with concomitant inhibition and restoration of the response to acetylcholine and other monoquaternary ammonium-depolarizing agents. Conversely, the bisquaternary hexamethonium, normally a competitive inhibitor, causes depolarization, and the activity of decamethonium is increased following reduction of the disulfide. The reduced receptor can be alkylated by various maleimide derivatives and is then no longer reoxidizable. Some quaternary ammonium maleimide derivatives act as affinity labels of the reduced receptor, alkylating it at a rate three orders of magnitude faster then do uncharged maleimide derivatives. Other types of potential affinity labels also react only with the reduced receptor and the resulting covalently attached quaternary ammonium moieties interact with the active site, strongly activating the receptor. These results suggest a model for the active site and its transitions in which an activator such as acetylcholine bridges between a negative subsite and a hydrophobic subsite in the vicinity of the disulfide, causing an altered conformation around the negative subsite and a decrasee of a few angstroms in the distance between the two subsites.
Effect of Temperature and Light on Growth of and Photosynthesis bySynechococcusIsolates Typical of Those Predominating in the Octopus Spring Microbial Mat Community of Yellowstone National Park (2006)

ABSTRACT Previous molecular analysis of the Octopus Spring cyanobacterial mat revealed numerous genetically distinct 16S rRNA sequences from predominant Synechococcus populations distantly related to the readily cultivated unicellular cyanobacterium Synechococcus lividus . Patterns in genotype distribution relative to temperature and light conditions suggested that the organisms contributing these 16S rRNA sequences may fill distinct ecological niches. To test this hypothesis, Synechococcus isolates were cultivated using a dilution and filtration approach and then shown to be genetically relevant to natural mat populations by comparisons of similarities of 16S rRNA genes and 16S-23S internal transcribed spacer (ITS) regions. Most isolates were identical or nearly identical at both loci to predominant mat genotypes; others showed 1- to 2-nucleotide differences at the 16S rRNA locus and even greater difference in ITS sequences. Isolates with predominant mat genotypes had distinct temperature ranges and optima for growth that were consistent with their distributions in the mat. Isolates with genotypes not previously detected or known to be predominant in the mat exhibited temperature ranges and optima that were not representative of predominant mat populations and also grew more slowly. Temperature effects on photosynthesis did not reflect temperature relations for growth. However, the isolate with the highest temperature optimum and upper limit was capable of performing photosynthesis at a higher temperature than other isolates. Growth rate and photosynthetic responses provided evidence for light acclimation but evidence of, at best, only subtle light adaptation.
Image-position error associated with a quadrant detector (1982)

An exact expression is obtained that evaluates the error associated with angular-position measurement of an incoherently illuminated object when a quadrant detector is used in the image plane of an optical system. The accuracy of such a measurement is inversely proportional to the signal-to-noise voltage ratio associated with the four quadrants summed to act as a single detector. In the particular case of a circular object, the rms angular measurement error is given by the expression σθ = π[(3/16)2 + (n/8)2]1/2(λ/D)/SNRv, where n is the angular subtense of the object divided by the diffraction angle λ/D, SNRv is the signal-to-noise voltage ratio, λ is the wavelength of the light used, and D is the diameter of the limiting aperture in the optical system under consideration.
Sensing Characteristics of Charge Transfer Type pH Sensor by Accumulative Operation (2006)

We present about a pH sensor, which is capable of measuring high sensitivity using charge transfer technique. The sensitivity of pH was obtained 1130 mV/pH by charge accumulation operation. The proposed pH sensor using charge transfer technique is possible to increase a sensing signal without an extra amplifier. It is expected that charge transfer type pH sensor increases sensitivity and decreases random noise.
Transgenic Nude Mouse with Ubiquitous Green Fluorescent Protein Expression as a Host for Human Tumors (2004)

We report here the development of the transgenic green fluorescent protein (GFP) nude mouse with ubiquitous GFP expression. The GFP nude mouse was obtained by crossing nontransgenic nude mice with the transgenic C57/B6 mouse in which the beta-actin promoter drives GFP expression in essentially all tissues. In crosses between nu/nu GFP male mice and nu/+ GFP female mice, the embryos fluoresced green. Approximately 50% of the offspring of these mice were GFP nude mice. Newborn mice and adult mice fluoresced very bright green and could be detected with a simple blue-light-emitting diode flashlight with a central peak of 470 nm and a bypass emission filter. In the adult mice, the organs all brightly expressed GFP, including the heart, lungs, spleen, pancreas, esophagus, stomach, and duodenum. The following systems were dissected out and shown to have brilliant GFP fluorescence: the entire digestive system from tongue to anus; the male and female reproductive systems; brain and spinal cord; and the circulatory system, including the heart and major arteries and veins. The skinned skeleton highly expressed GFP. Pancreatic islets showed GFP fluorescence. The spleen cells were also GFP positive. Red fluorescent protein (RFP)-expressing human cancer cell lines, including PC-3-RFP prostate cancer, HCT-116-RFP colon cancer, MDA-MB-435-RFP breast cancer, and HT1080-RFP fibrosarcoma were transplanted to the transgenic GFP nude mice. All of these human tumors grew extensively in the transgenic GFP nude mouse. Dual-color fluorescence imaging enabled visualization of human tumor-host interaction by whole-body imaging and at the cellular level in fresh and frozen tissues. The GFP mouse model should greatly expand our knowledge of human tumor-host interaction.
Role of TIMPs (tissue inhibitors of metalloproteinases) in pericellular proteolysis: the specificity is in the detail (2003)

Pericellular proteolysis represents one of the key modes by which the cell can modulate its environment, involving not only turnover of the extracellular matrix but also the regulation of cell membrane proteins, such as growth factors and their receptors. The metzincins are active players in such proteolytic events, and their mode of regulation is therefore of particular interest and importance. The TIMPs (tissue inhibitors of metalloproteinases) are established endogenous inhibitors of the matrix metalloproteinases (MMPs), and some have intriguing abilities to associate with the pericellular environment. It has been shown that TIMP-2 can bind to cell surface MT1-MMP (membrane-type 1 MMP) to act as a 'receptor' for proMMP-2 (progelatinase A), such that the latter can be activated efficiently in a localized fashion. We have examined the key structural features of TIMP-2 that determine this unique function, showing that Tyr36 and Glu192-Asp193 are vital for specific interactions with MT1-MMP and proMMP-2 respectively, and hence activation of proMMP-2. TIMP-3 is sequestered at the cell surface by association with the glycosaminoglycan chains of proteoglycans, especially heparan sulphate, and we have shown that it may play a role in the regulation of some ADAMs (a disintegrin and metalloproteinases), including tumour necrosis factor alpha-converting enzyme (TACE; ADAM17). We have established that key residues in TIMP-3 determine its interaction with TACE. Further studies of the features of TIMP-3 that determine specific binding to both ADAM and glycosaminoglycan are required in order to understand these unique properties.
A taxonomy of anomalies in backbone network traffic (2014)

The potential threat of network anomalies on Internet has led to a constant effort by the research community to design reliable detection methods. Detection is not enough, however, because network administrators need additional information on the nature of events occurring in a network. Several works try to classify detected events or establish a taxonomy of known events. But, these works are non-overlapping in terms of anomaly type coverage. On the one hand, existing classification methods use a limited set of labels. On the other hand, taxonomies often target a single type of anomaly or, when they have wider scope, fail to present the full spectrum of what really happens in the wild. We thus present a new taxonomy of network anomalies with wide coverage of existing work. We also provide a set of signatures that assign taxonomy labels to events. We present a preliminary study applying this taxonomy with six years of real network traffic from the MAWI repository. We classify previously documented anomalous events and draw to main conclusions. First, the taxonomy-based analysis provides new insights regarding events previous classified by heuristic rule labeling. For example, some RST events are now classified as network scan response and the majority of ICMP events are split into network scans and network scan responses. Moreover, some previously unknown events now account for a substantial number of all UDP network scans, network scan responses and port scans. Second, the number of unknown events decreases from 20 to 10% of all events with the proposed taxonomy as compared to the heuristic approach.
The Vertical Profile of Radar Reflectivity of Convective Cells: A Strong Indicator of Storm Intensity and Lightning Probability? (1994)

Reflectivity data from Doppler radars are used to construct vertical profiles of radar reflectivity (VPRR) of convective cells in mesoscale convective systems (MCSS) in three different environmental regimes. The National Center for Atmospheric Research CP-3 and CP-4 radars are used to calculate median VPRR for MCSs in the Oklahoma-Kansas Preliminary Regional Experiment for STORM-Central in 1985. The National Oceanic and Atmospheric Administration-Tropical Ocean Global Atmosphere radar in Darwin, Australia, is used to calculate VPRR for MCSs observed both in oceanic, monsoon regimes and in continental, break period regimes during the wet seasons of 1987/88 and 1988/89. The midlatitude and tropical continental VPRRs both exhibit maximum reflectivity somewhat above the surface and have a gradual decrease in reflectivity with height above the freezing level. In sharp contrast, the tropical oceanic profile has a maximum reflectivity at the lowest level and a very rapid decrease in reflectivity with height beginning just above the freezing level. The tropical oceanic profile in the Darwin area is almost the same shape as that for two other tropical oceanic regimes, leading to the conclusion that it is characteristic. The absolute values of reflectivity in the 0° to −20°C range are compared with values in the literature thought to represent a threshold for rapid storm electrification leading to lightning, about 40 dBZ at −10°C. Most oceanic cells have reflectivities below the threshold; most midlatitude continental cells exceed the threshold, and the tropical continental cells are about equally divided above and below the threshold. The large negative vertical gradient of reflectivity in this temperature range for oceanic storms is hypothesized to be a direct result of the characteristically weaker vertical velocities observed in MCSs over tropical oceans. It is proposed, as a necessary condition for rapid electrification, that a convective cell must have its updraft speed exceed some threshold value. Based upon field program data, a tentative estimate for the magnitude of this threshold is 6–7 m s−1 for mean speed and 10–12 m s−1 for peak speed.
A Non-invasive Dual-Channel Oximeter based on Near-Infrared Spectroscopy (NIRS) (2007)

Near-infrared spectroscopy (NIRS) has been used as non-invasive sensor of blood oxygen level. In this paper, we demonstrate our implementation of a compact dual-channel blood-oxygen level monitoring system based on NIRS.
LXR, a nuclear receptor that defines a distinct retinoid response pathway. (1995)

We have identified a new retinoid response pathway through which 9-cis retinoic acid (9cRA) activates transcription in the presence of LXR alpha, a member of the nuclear receptor superfamily. LXR alpha shows a specific pattern of expression in visceral organs, thereby restricting the response to certain tissues. Retinoid trans-activation occurs selectively on a distinct response element termed an LXRE. Significantly, neither RXR homodimers nor RXR/RAR heterodimers are able to substitute for LXR alpha in mediating this retinoid response. We provide evidence that the retinoid response on the LXRE is the result of a unique interaction between LXR alpha and endogenous RXR, which, unlike in the RXR/RAR heterodimer, makes RXR competent to respond to retinoids. Thus, the interaction with LXR alpha shifts RXR from its role described previously as a silent, DNA-binding partner to an active ligand-binding subunit in mediating retinoid responses through target genes defined by LXREs.
Phytol-based novel adjuvants in vaccine formulation: 1. assessment of safety and efficacy during stimulation of humoral and cell-mediated immune responses (2006)

Vaccine efficacy depends significantly on the use of appropriate adjuvant(s) in the formulation. Phytol, a dietary diterpene alcohol, is similar in structure to naturally occurring isoprenoid adjuvants; but little is known of its adjuvanticity. In this report, we describe the relative safety and efficacy of phytol and its hydrogenated derivative PHIS-01 compared to commercial adjuvants. We tested adjuvant properties using a formulation consisting of either a hapten, phthalate-conjugated to a protein, keyhole limpet hemocyanin (KLH), or ovalbumin (OVA) emulsified with the test adjuvants in mice without any surfactant. Humoral immunity was assessed in terms of titer, specificity, and isotypic profiles. The effect on cell-mediated immunity was studied by assaying the induction of either OVA- or B-lymphoma-specific cytotoxic T-lymphocyte (CTL) activity. The phytol compounds, particularly PHIS-01, elicit increased titers of all major IgG subclasses, especially IgG2a. Unlike commercial adjuvants, both phytol compounds are capable of inducing specific cytotoxic effector T cell responses specific to both OVA and B-lymphoma tested. Phytols as adjuvants are also distinctive in that they provoke no adverse anti-DNA autoimmune response. Intraperitoneally administered phytol is comparable to complete Freund's adjuvant in toxicity in doses over 40 ug/mouse, but PHIS-01 has no such toxicity. These results and our ongoing studies on antibacterial immunity show that phytol and PHIS-01 are novel and effective adjuvants with little toxicity.