gebhart/patrepeval huggingface dataset:
NF-ϰB-independent activation of β-interferon expression in mouse F9 embryonal carcinoma cells (1994)

We have examined the behaviour of the beta-interferon promoter in mouse F9 embryonal carcinoma cells. In undifferentiated cells, the beta-interferon promoter is not responsive to dsRNA or to Sendai virus. In cells stimulated to differentiate into parietal endoderm by treatment with retinoic acid, the beta-interferon promoter responds to both inducers, but only Sendai virus can activate the transcription factor NF-kappa B previously thought to be essential for beta-interferon induction. Differentiated F9 cells therefore present an unprecedented situation in which induction of the beta-interferon gene does not require NF-kappa B. In addition to these differences, induction by dsRNA, but not by Sendai virus, is significantly enhanced by a pretreatment with interferon (priming). These observations suggest that paramyxo-viruses can participate in beta-interferon induction in a manner that is distinct from a simple generator of dsRNA. Analysis of the promoter requirements for induction in differentiated F9 cells suggests that induction is brought about by a novel mechanism using the currently identified regulatory domains.
Controllable microfluidic synthesis of multiphase drug‐carrying lipospheres for site‐targeted therapy (2009)

We report the production of micrometer-sized gas-filled lipospheres using digital (droplet-based) microfluidics technology for chemotherapeutic drug delivery. Advantages of on-chip synthesis include a monodisperse size distribution (polydispersity index (sigma) values of <5%) with consistent stability and uniform drug loading. Photolithography techniques are applied to fabricate novel PDMS-based microfluidic devices that feature a combined dual hydrodynamic flow-focusing region and expanding nozzle geometry with a narrow orifice. Spherical vehicles are formed through flow-focusing by the self-assembly of phospholipids to a lipid layer around the gas core, followed by a shear-induced break off at the orifice. The encapsulation of an extra oil layer between the outer lipid shell and inner bubble gaseous core allows the transport of highly hydrophobic and toxic drugs at high concentrations. Doxorubicin (Dox) entrapment is estimated at 15 mg mL(-1) of particles packed in a single ordered layer. In addition, the attachment of targeting ligands to the lipid shell allows for direct vehicle binding to cancer cells. Preliminary acoustic studies of these monodisperse gas lipospheres reveal a highly uniform echo correlation of greater than 95%. The potential exists for localized drug concentration and release with ultrasound energy.
Cognitive Performance in Older Women Relative to ApoE-ε4 Genotype and Aerobic Fitness (2007)

The preliminary findings from this study support the possibility that aerobic fitness is positively associated with the memory performance of those individuals at most genetic risk for Alzheimer disease.
NERD: A Framework for Unifying Named Entity Recognition and Disambiguation Extraction Tools (2012)

Named Entity Extraction is a mature task in the NLP field that has yielded numerous services gaining popularity in the Semantic Web community for extracting knowledge from web documents. These services are generally organized as pipelines, using dedicated APIs and different taxonomy for extracting, classifying and disambiguating named entities. Integrating one of these services in a particular application requires to implement an appropriate driver. Furthermore, the results of these services are not comparable due to different formats. This prevents the comparison of the performance of these services as well as their possible combination. We address this problem by proposing NERD, a framework which unifies 10 popular named entity extractors available on the web, and the NERD ontology which provides a rich set of axioms aligning the taxonomies of these tools.
Whole-cell vaccines: A failure or a success waiting to happen? (2010)

Whole-cell vaccination has demonstrated efficacy in small phase I and II clinical trials. However, in the past 3 years several high-profile phase III trials have failed to meet the predicted endpoints, including trials of the GVAX technologies (BioSante Pharmaceuticals Inc [formerly Cell Genesys Inc]) conducted by Cell Genesys. This review discusses the potential reasons for the failure of selected phase III trials and summarizes the current status of whole-cell vaccination, with specific reference to trials conducted in the past 2 years. Recently, new paradigms have emerged in the field of cancer vaccine research. In particular, the potential use of combination therapies that incorporate immune modulators and standard radio- and chemotherapy to synergize with whole-cell vaccines is discussed. In addition, key measures for improvements within the field that may be required for the generation of effective antitumor immunity are identified.
Acetyl-CoA carboxylase activity in Helicobacter pylori and the requirement of increased CO2 for growth (1995)

A biotinylated acetyl-CoA carboxylase from the microaerophilic bacterium Helicobacter pylori was partially purified and characterized. The approximate molecular mass of the native enzyme was estimated at 235 kDa by native PAGE. A single band corresponding to approximately 24 kDa was detected by SDS-PAGE, suggesting that the native enzyme is a multi-protein complex. The protein was isolated from the soluble fraction of the cell. Catalytic activity was acetyl-CoA-dependent and inhibited by avidin but unaffected by avidin pretreated with excess biotin. The end-product of the reaction was identified as malonyl-CoA and the reaction was shown to be reversible by NMR spectroscopy. The activity of the enzyme was 0.29 mumol min-1 (mg protein)-1. The Vmax for bicarbonate was calculated at 0.73 mumol min-1 (mg protein)-1, and the affinity of the enzyme for this substrate was relatively low, with an apparent Km of 16.6 mM. These data provide the first evidence of a possible physiological role for the requirement of high levels of CO2 for growth in vitro of this bacterium.
Effects of polyoma virus oncogenes in transgenic mice. (1989)

The effects of polyoma (Py) oncogenes in transgenic mice are reviewed, with emphasis on an analysis of mice carrying individual Py early region genes linked to either the Py early region promoter or to the rat insulin II promoter. The perturbations documented in this series of animals varied with both the Py gene and the promoter. Py promoter-driven transgenes led to the development of pituitary tumors and vascular tumors in a gene-dependent manner, suggesting that the Py T antigens have different tissue specificities of transforming activity. The only pathology found in insulin promoter-driven transgenic mice was a beta cell tumor seen in insulin-promoted Py large T antigen-carrying mice. These results also suggest that the Py oncogenes have different tropisms relative to a specific cell type. Analysis of the Py oncogene-induced perturbations may provide both insights into the molecular events controlling tumorigenesis and access to rare or dispersed cell types for further analysis.
Systemic lupus erythematosus with pure red cell aplasia: a case report. (1993)

Pure red cell aplasia (PRCA) is an unusual early manifestation of systemic lupus erythematosus (SLE). Review of the 13 cases in literature revealed that the immune system played a significant role in disease pathogenesis. Immunosuppression has been thought to be the cause of the efficacy of corticosteroids in treatment. The case of a 28-year-old woman with SLE is described. She presented with PRCA, but has had good response to corticosteroid therapy.
Spatial anti-aliasing for animation sequences with spatio-temporal filtering (1993)

Anti-aliasing is generally an expensive process because it requires super-sampling or sophisticated rendering. This paper presents a new type of anti-aliasing filter for animation sequences, the pixeltracing filter, that does not require any additional sample nor additional calculation in the rendering phase. The filter uses animation information to calculate correlation among the images, and sub-pixel information is extracted from the sequence based on the correlation. Theoretical studies prove that the filter becomes an ideal antialiasing filter when the filter size is infinite.
18F-labeled small molecule inhibitors of prostate specific membrane antigen (PSMA) for PET imaging of prostate cancer (2012)

1721 Objectives Over-expression of PSMA in prostate cancer makes it an attractive target for imaging localized and metastatic disease. Our previous success in developing 123I and 99mTc labeled inhibitors of PSMA for SPECT has lead us to evaluate a series of structurally related fluorine containing compounds as radioligands for PET. Methods MIP-1500, (S)-2-(3-((S)-1-carboxy-5-(3-(3-fluoro-4-nitro-phenyl)ureido)pentyl)-ureido)pentanedioic acid and the corresponding 3,4-difluoro-phenyl analog (MIP-1499) were prepared from a common intermediate. Competitive binding on LNCaP cells against 123I-MIP-1072([123I]-(S)-2-(3-((S)-1-carboxy-5-((4-iodobenzyl)amino)pentyl)ureido)pentanedioic acid) was performed. MIP-1500 was radiolabeled using [18F]NaF/kryptofix in DMSO at 100°C/20 min. 18F-MIP-1500 was isolated by C18 SPE using water/ethanol. RCY and RCP were determined using RP C18 HPLC. Results MIP-1499/1500 were synthesized by the reaction of (S)-di-tert-butyl 2-(3-((S)-6-amino-1-(tert-butoxy)-1-oxohexan-2-yl)ureido)pentanedioate with the respective 3-fluoro-4-nitro or 3,4-difluoro phenylisocyanate followed by deprotection and purification by RP C18 HPLC. MIP-1499 and MIP-1500 exhibited high affinity for PSMA in LNCaP cells with IC50values of 12 and 8 nM, respectively. Radiochemical yields of 18F-MIP-1500 ranged from 10-40% at EOS (n =10). The retention time of the labeled product was identical to the precursor, MIP-1500. Non-optimized specific activity was 250 Ci/mmol. Conclusions MIP-1499 and MIP-1500 bind with high affinity to PSMA. The radiolabeling process resulted in 18F-MIP-1500 in good RCY and RCP. 18F-labeling was the result of an isotopic exchange reaction and not due to displacement of nitro group of the precursor. 18F-MIP-1500 is currently being investigated preclinically for the potential use in the imaging of prostate cancer
Characterization of the Murine Fatty Acid Transport Protein Gene and Its Insulin Response Sequence (1998)

Fatty acid transport protein (FATP) was identified by expression cloning strategies (Schaffer, J. E., and Lodish, H. F. (1994) Cell 79, 427-436) and shown by transfection analysis to catalyze the transfer of long-chain fatty acids across the plasma membrane of cells. It is expressed highly in tissues exhibiting rapid fatty acid metabolism such as skeletal muscle, heart, and adipose. FATP mRNA levels are down-regulated by insulin in cultured 3T3-L1 adipocytes and up-regulated by nutrient depletion in murine adipose tissue (Man, M. Z., Hui, T. Y., Schaffer, J. E., Lodish, H. F., and Bernlohr, D. A. (1996) Mol. Endocrinol. 10, 1021-1028). To determine the molecular mechanism of insulin regulation of FATP transcription, we have isolated the murine FATP gene and its 5'-flanking sequences. The FATP gene spans approximately 16 kilobases and contains 13 exons, of which exon 2 is alternatively spliced. S1 nuclease and RNase protection assays revealed the presence of multiple transcription start sites; the DNA sequence upstream of the predominant transcription start sites lacks a typical TATA box. By transient transfection assays in 3T3-L1 adipocytes, the inhibitory action of insulin on FATP transcription was localized to a cis-acting element with the sequence 5'-TGTTTTC-3' from -1347 to -1353. This sequence is very similar to the insulin response sequence found in the regulatory region of other genes negatively regulated by insulin such as those encoding phosphoenolpyruvate carboxykinase, tyrosine aminotransferase, and insulin-like growth factor-binding protein 1. Fluorescence in situ hybridization analysis revealed that the murine FATP gene is localized to chromosome 8, band 8B3.3. Interestingly, this region of chromosome 8 contains a cluster of three other genes important for fatty acid homeostasis, lipoprotein lipase, the mitochondrial uncoupling protein 1 (UCP1) and sterol regulatory element-binding protein 1. These results characterize the murine FATP gene and its insulin responsiveness as well as present a framework for future studies of its role in lipid metabolism, obesity, and type II diabetes mellitus.
Myelostimulatory activity of recombinant human interleukin-2 in mice (1989)

In a series of studies designed to extend our understanding of interleukin-2 (IL-2) and to study the effect of biologic response modifiers on bone marrow, we observed that administering recombinant human (rH) IL-2 to normal mice resulted in an increase in the frequency of colony-forming units-culture (CFU-C) in bone marrow. In addition, rH IL-2 was able to accelerate host recovery from cyclophosphamide (CTX)- or radiation-induced bone marrow depression and peripheral blood leukopenia. Not only can rH IL-2 accelerate, in a dose-dependent manner, the return of bone marrow, peripheral blood cellularity, and CFU-C frequency to normal levels following cytoreduction by CTX or irradiation, but it also significantly increases CFU-C frequency to greater than normal levels. Furthermore, rH IL-2 can significantly prolong survival of animals receiving a lethal dose of irradiation or CTX. Thus, multiple mechanisms are responsible for the synergistic therapeutic activity associated with rH IL-2 and CTX. rH IL-2 does not act only as an immunomodulatory agent in the presence or absence of suppressor T cells, but also accelerates host recovery from cytoreductive agents, resulting in decreased leukopenia and perhaps resistances to secondary infection. Thus, rH IL-2 plus chemotherapy may increase therapeutic activity against neoplastic disease, not only by adding immune stimulation to the direct antitumor effect of the drug but also by allowing delivery of higher, more effective doses of chemotherapy.
Coefficient-Free Blood Pressure Estimation Based on Pulse Transit Time–Cuff Pressure Dependence (2013)

Oscillometry is a popular technique for automatic estimation of blood pressure (BP). However, most of the oscillometric algorithms rely on empirical coefficients for systolic and diastolic pressure evaluation that may differ in various patient populations, rendering the technique unreliable. A promising complementary technique for automatic estimation of BP, based on the dependence of pulse transit time (PTT) on cuff pressure (CP) (PTT-CP mapping), has been proposed in the literature. However, a theoretical grounding for this technique and a nonparametric BP estimation approach are still missing. In this paper, we propose a novel coefficient-free BP estimation method based on PTT-CP dependence. PTT is mathematically modeled as a function of arterial lumen area under the cuff. It is then analytically shown that PTT-CP mappings computed from various points on the arterial pulses can be used to directly estimate systolic, diastolic, and mean arterial pressure without empirical coefficients. Analytical results are cross-validated with a pilot investigation on ten healthy subjects where 150 simultaneous electrocardiogram and oscillometric BP recordings are analyzed. The results are encouraging whereby the mean absolute errors of the proposed method in estimating systolic and diastolic pressures are 5.31 and 4.51 mmHg, respectively, relative to the Food and Drug Administration approved Omron monitor. Our work thus shows promise toward providing robust and objective BP estimation in a variety of patients and monitoring situations.
Staphylococcus aureus capsular types and antibody response to lung infection in patients with cystic fibrosis (1988)

Chronic respiratory tract infections caused by Staphylococcus aureus are common in patients with cystic fibrosis (CF). Recently, it was shown in a few CF patients that S. aureus isolates produce capsular polysaccharides (CPs). However, it is not known whether this is a common feature and whether an immune response to CPs in CF is detectable. Therefore, we examined 170 S. aureus isolates from CF patients and healthy individuals for production of CP types 5 and 8 by using monoclonal antibodies. We found that CP-producing staphylococcal isolates were randomly distributed among CF patients and healthy carriers. Eighty-five percent of all isolates produced CPs, 77% of which were type 8. Examination of one sputum sample by an immunofluorescence technique suggested that production of CPs is not an in vitro phenomenon. S. aureus isolates from various sites of a single person often yielded more than one CP type. A random distribution of S. aureus strains with CP type 5 or 8 from the skin and respiratory tracts of patients and from the skin of healthy individuals was found. Antibody response to CP types 5 and 8, measured by enzyme-linked immunosorbent assay, was not elevated in CF patients with chronic S. aureus lung infection in comparison with healthy carriers. On the contrary, in CF patients the ratios of antibodies to CP 8 were significantly lower (P less than 0.005; alpha = 0.025). The ratios of antibodies to CP types did not change when monitored longitudinally over several months. This study suggests that the production of CPs is a universal property of S. aureus and that infected CF patients do not have elevated ratios of antibodies to these antigens.
Histological evaluation of a chronically-implanted electrocorticographic electrode grid in a non-human primate (2016)

These results suggest that ECoG may provide a means by which stable chronic cortical recordings can be obtained with comparatively little tissue damage, facilitating the development of clinically viable BMI systems.
INFANTS FED DOCOSAHEXAENOIC ACID AND ARACHIDONIC ACID SUPPLEMENTED FORMULA HAVE DECREASED INCIDENCE OF RESPIRATORY ILLNESSES THE FIRST YEAR OF LIFE (2005)

Long chain polyunsaturated fatty acids may enhance immune function (Uauy R., Proc. Nutr. Soc., 2000; 59: 3). To assess the effects of docosahexaenoic acid (DHA) and arachidonic acid (ARA) supplementation in infant formula on common illnesses during the first year of life, 357 pediatricians throughout Spain enrolled 1388 term infants. Infants were assigned to be fed either DHA (17 mg/100 kcal) and ARA (34 mg/100 kcal) supplemented formula (DHA+, n = 1133) (Enfalac Premium, Mead Johnson Company) or non-supplemented formula (Control, n = 255) (4.4:1 ratio) for 1 year. Infants returned at 1, 3, 5, 7, 9, and 12 months of age for follow up anthropometrics. At each visit, physician records were reviewed for diagnoses of medical illnesses. Counts (incidence of illnesses) were analyzed by chi-square. There were no significant differences between the DHA+ and Control formula groups for baseline measurements (age of enrollment, weight, length, head circumference, and past medical history) or follow-up measurements (weight, length, and head circumference). The incidence of physician recorded respiratory illness was lower in the DHA+ group, particularly bronchitis/bronchiolitis:FIGURECompared to DHA+, controls had a higher incidence of pneumonia at 3 months (p = 0.03), upper respiratory infections at 12 months (p = 0.011), and rhinitis at 1 month (p = 0.02); and a lower incidence of cough at 7 months (p = 0.04). Infants fed DHA+ formula have a decreased incidence of bronchitis/bronchiolitis, pneumonia and upper respiratory infection in the first year of life compared to infants fed Control formula.
Stability of the input-output properties of chronically implanted multiple contact nerve cuff stimulating electrodes (1998)

The objective of this investigation was to measure the input-output (I-O) properties of chronically implanted nerve cuff electrodes. Silicone rubber spiral nerve cuff electrodes, containing 12 individual platinum electrode contacts, were implanted on the sciatic nerve of seven adult cats for 28-34 weeks. Measurements of the torque generated at the ankle joint by electrical stimulation of the sciatic nerve were made every 1-2 weeks for the first 6 weeks post-implant and every 3-5 weeks between 6 weeks and 32 weeks post-implant. In three implants the percutaneous lead cable was irreparably damaged by the animal within 4 weeks after implant and further testing was not possible. One additional lead cable was irreparably damaged by the animal at 17 weeks post-implant. The three remaining implants functioned for 28, 31, and 32 weeks. Input-output curves of ankle joint torque as a function of stimulus current amplitude were repeatable within an experimental session, but there were changes in I-O curves between sessions. The degree of variability in I-O properties differed between implants and between different contacts within the same implant. After 8 weeks, the session to session changes in the stimulus amplitude required to generate 50% of the maximum torque (I50) were smaller (15+/-19%, mean +/- s.d.) than the changes in I50 measured between 1 week and 8 weeks post-implant (34+/-42%). Furthermore, the I-O properties were more stable across changes in limb position in the late post-implant period than in acutely implanted cuff electrodes. These results suggest that tissue encapsulation acted to stabilize chronically implanted cuff electrodes. Electrode movement relative to the nerve, de- and regeneration of nerve fibers, and the inability to precisely reproduce limb position in the measurement apparatus all may have contributed to the variability in I-O properties.
A Pathway of Chitosan Formation in Mucor rouxii (1975)

1. An enzyme that catalyzes hydrolysis of acetamido groups of chitin derivatives was found in the supernatant fraction of Mucor rouxii. 2. Partially O-hydroxyethylated chitin (glycol chitin) was used as a substrate in the purification and characterization of this enzyme. A 140-fold purification was obtained by means of ammonium sulfate fractionation followed by chromatography on carboxymethylcellulose and DEAE-cellulose. 3. The enzyme releases about 30% of the acetyl groups of glycol chitin, giving a product with a decreased sensitivity to lysozyme. The enzyme also deacetylates chitin and N-acetylchitooligoses, whereas it is inactive toward bacterial cell wall peptidoglycan, N-acetylated heparin, a polymer of N-acetylgalactosamine, di-N-acetylchitobiose and monomeric N-acetylglucosamine derivatives. 4. This enzyme shows a pH optimum of 5.5. The Km value for glycol chitin is 0.87 g/l or 2.6 mM with respect to monosaccharide residues. 5. The occurrence of this enzyme accounts for the formation of chitosan in fungi.
A novel pathway of human T lymphocyte activation. Identification by a monoclonal antibody generated against a rheumatoid synovial T cell line. (1988)

Substantial evidence indicates that compartmentalized infiltrates of T lymphocytes are central to the pathogenesis of autoimmune diseases such as rheumatoid arthritis, but the mechanisms by which such cells become activated remain unknown. To define surface components of activation pathways important in the function of these cells, we have generated mAb against a rheumatoid synovial T cell line. One such antibody, termed anti-UM4D4, reacts with an Ag, termed UM4D4, which is strongly expressed on most rheumatoid synovial T cell lines and clones, and on a subset of peripheral blood T cells, resting or activated. Anti-UM4D4 is mitogenic in soluble form for PBMC and certain T cell clones, and is comitogenic with the phorbol ester PMA for purified resting T lymphocytes. These functional effects are similar to those previously observed with antibodies to epitopes of CD2 and CD3, surface Ag involved in two well defined pathways of human T cell activation. Binding of anti-UM4D4 to T cells is not, however, blocked by antibodies directed at various epitopes of CD2 and CD3. Moreover, UM4D4 does not comodulate with CD3, and is expressed on a T cell line that lacks CD2, CD3, and CD28. The data, therefore, indicate that anti-UM4D4 identifies a T cell activation pathway, distinct from those previously described, that could play a role in the pathogenesis of T cell-mediated autoimmune diseases.