gebhart/patrepeval huggingface dataset:
Maternal uterine NK cell–activating receptor KIR2DS1 enhances placentation (2013)

Reduced trophoblast invasion and vascular conversion in decidua are thought to be the primary defect of common pregnancy disorders including preeclampsia and fetal growth restriction. Genetic studies suggest these conditions are linked to combinations of polymorphic killer cell Ig-like receptor (KIR) genes expressed by maternal decidual NK cells (dNK) and HLA-C genes expressed by fetal trophoblast. Inhibitory KIR2DL1 and activating KIR2DS1 both bind HLA-C2, but confer increased risk or protection from pregnancy disorders, respectively. The mechanisms underlying these genetic associations with opposing outcomes are unknown. We show that KIR2DS1 is highly expressed in dNK, stimulating strong activation of KIR2DS1+ dNK. We used microarrays to identify additional responses triggered by binding of KIR2DS1 or KIR2DL1 to HLA-C2 and found different responses in dNK coexpressing KIR2DS1 with KIR2DL1 compared with dNK only expressing KIR2DL1. Activation of KIR2DS1+ dNK by HLA-C2 stimulated production of soluble products including GM-CSF, detected by intracellular FACS and ELISA. We demonstrated that GM-CSF enhanced migration of primary trophoblast and JEG-3 trophoblast cells in vitro. These findings provide a molecular mechanism explaining how recognition of HLA class I molecules on fetal trophoblast by an activating KIR on maternal dNK may be beneficial for placentation.
Methods of array element localization for a towed underwater acoustic array (1994)

The location of the hydrophones on a towed underwater acoustic array as a function of time (array element localization) is needed for signal processing. Methods to perform this localization using least squares polynomial fitting to data from depth sensors, heading sensors, and sensors detecting a ping from a single source are discussed. Arc distance along the array is used as the independent parameter so that all solutions are constrained to be space curves. Examples of application to real data are presented, and techniques to discriminate against bad sensor data are discussed.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Chronic Cellular Dehydration in the Aged Patient (2001)

Diseased elderly persons display reduced ICW and expanded ECW. A cellular dehydration is suggested.
From False Sense of Security to Residual Risk: Communicating the Need for New Floodplain Development Models (2008)

About the Gilbert F. White National Flood Policy ForumTo facilitate national policy discussions on important floodplain management issues, the ASFPM Foundation sponsors an annual gathering of leading experts in the field of flood policy and floodplain management.These Forums will develop policy recommendations and establish an ongoing record of flood policy issues and directions for the future.The Forums have been named in honor of Gilbert F. White, the most influential floodplain management policy expert of the 20th century.The Forums are not only a tribute to his work, but also a recognition of the success of his deliberative approach to policy analysis and research.Periodically, the Forum will explore one pressing national flood policy issue by facilitating a dialogue among about 80 topical experts, representing various stakeholders, including government, industry, and academia.The goal of each Forum will be to provide recommendations for policies that will reduce the human casualties and economic losses associated with flooding, as well as policies to protect and enhance the natural and beneficial functions of floodplains.The discussions and recommendations for action and research formulated at each Forum will be summarized and distributed as a report by the ASFPM Foundation.
Airway Hyperreactivity Is Associated with Specific Leukocyte Subset Infiltration in a Mouse Model of Allergic Airway Inflammation (1996)

Airway hyperreactivity is defined as an increased bronchoconstrictor response to physical, pharmacological, or other stimuli. Patients with asthma develop airway hyperreactivity as well as peribronchial inflammation. We employed an established schistosome soluble egg antigen (SEA)-induced murine model of allergic inflammation to examine the temporal relationship between airway hyperreactivity and leukocyte subset infiltration. Dose response curves of intravenous methacholine were used in mice to characterize airway reactivity at various time points after intranasal SEA rechallenge. Cellular infiltration into the airspace was assessed by bronchoalveolar lavage. Airway hyperreactivity increased as early as 1 h postchallenge. Peak hyperreactivity occurred at 8 h postchallenge. Subsequently, reactivity decreased at 24 h and fell to the level observed in controls by 48 h. Neutrophil influx correlated directly with the increase in airway reactivity, as neutrophils were observed as early as 1 h, peaked at 8 h, diminished by 24 h and were not detected at 48 h post-SEA challenge. In contrast, eosinophil infiltration was not observed until 24 h and peaked at 48 h post-SEA rechallenge when increases in airway reactivity were not detected. Airway resistance induced by methacholine correlated with neutrophil (r2 = 0.90) but not eosinophil (r2 = 0.1) infiltration. These results suggest that the airway hyperreactivity observed during allergic airway inflammation correlates with airways neutrophilia and weakly eosinophil accumulation.
Implementation trade-offs for linear detection in large-scale MIMO systems (2013)

In this paper, we analyze the VLSI implementation tradeoffs for linear data detection in the uplink of large-scale multiple-input multiple-output (MIMO) wireless systems. Specifically, we analyze the error incurred by using the sub-optimal, low-complexity matrix inverse proposed in Wu et al., 2013, ISCAS, and compare its performance and complexity to an exact matrix inversion algorithm. We propose a Cholesky-based reference architecture for exact matrix inversion and show corresponding implementation results on an Virtex-7 FPGA. Using this reference design, we perform a performance/complexity trade-off comparison with an FPGA implementation for the proposed approximate matrix inversion, which reveals that the inversion circuit of choice is determined by the antenna configuration (base-station antennas vs. number of users) of large-scale MIMO systems.
Dinucleotide repeat polymorphism at the D6S89 locus (1990)

Source and Description of Clone: Subclone XL25B of phage 25 from a flow-sorted human X-chromosome specific library contained a (AC)14 repeat. Sequences flanking this repeat (EMBL accession number X52399) were used to design PCR primers. PCR Primers: # 1717 5'-CTTGTTCATCTGCCTTGTGC-3' # 1718 5'-ACCTAAGCGACTGCCTAAAC-3' Polymorphism: Using 5' [32p] end labeled primer 1717 to label the GT containing strand, fragments of variable length were detected on DNA sequencing gels. Lengths of allelic fragments (nt) are expressed relative to Sau3A fragments of pBR322 used as size markers. Al = 227, A2 = 225, A3 = 223, A4 = 221, A5 = 217, A6 = 215, A7 = 213, A8 = 211, A9 = 209, AIO = 207, All = 205, A12 = 203, A13 = 199. Frequencies: Allele frequencies from 27 unrelated European Caucasians: Al = .037, A2 = .204, A3 = .019, A4 = .111, A5 = .130, A6 = .092, A7 = .111, A8 =
Osteoprotegerin is a soluble decoy receptor for tumor necrosis factor-related apoptosis-inducing ligand/Apo2 ligand and can function as a paracrine survival factor for human myeloma cells. (2003)

Myeloma cells grow only in the bone marrow closely associated with bone,suggesting that this microenvironment provides critical signals for their growth and survival. Osteoprotegerin (OPG) is a member of the tumor necrosis factor (TNF) receptor family, which binds to the ligand for receptor activator of nuclear factor kappa B and inhibits bone resorption. However, it is unclear whether OPG can also bind to other TNF family members, such as TNF-related apoptosis-inducing ligand/Apo2 ligand (TRAIL/Apo2L), and, by inhibiting their activity, function as a survival factor for myeloma cells. In the present study MG63 osteoblast-like cells and primary bone marrow stromal cells were both shown to produce OPG, whereas human myeloma cells did not produce OPG but down-regulated release of OPG from MG63 cells. TRAIL/Apo2L induced apoptosis in myeloma cells, and this could be prevented with the addition of recombinant OPG. Medium conditioned by MG63 cells was also shown to inhibit TRAIL/Apo2L-induced apoptosis, an effect that was reversed by the addition of soluble receptor activator of nuclear factor kappa B ligand. Medium conditioned by cocultures of MG63 cells with myeloma cells had a reduced effect on TRAIL/Apo2L-induced apoptosis, reflecting the decreased concentrations of OPG in cocultures of myeloma cells with bone cells. These observations suggest that OPG may function as a paracrine survival factor in the bone marrow microenvironment in multiple myeloma.
Consistency Sensitive Operators in CEDR (2007)

This technical report consists of two concatenated papers. The first is a theoretical paper describing interesting tradeoffs when designing speculative streaming operators. In addition, it describes specific algorithms with specific tradeoffs and the associated complexity analysis for the aggregate operator The second paper describes the other operator algorithms in the overall CEDR context and their associated complexity analyses. In all, the papers describe the necessary operator algorithms for building an efficient, computationally rich, speculative stream processing engine.
In situ nucleic acid hybridization of cytokines in primary biliary cirrhosis: Predominance of the Th1 subset (1997)

Primary biliary cirrhosis (PBC) is an autoimmune liver disease characterized by destruction of the intrahepatic bile ducts. It is generally believed that cellular immune mechanisms, particularly involving T cells, result in this bile duct damage. The relative strength of Th1 and Th2 responses has recently been proposed to be an important factor in the pathophysiology of various autoimmune diseases. In this study, we have attempted to identify the Th subset balance in PBC, by detection of cytokines specific to the two T-cell subsets, i.e., interferon gamma (IFN-gamma) for Th1 cells and interleukin-4 (IL-4) for Th2 cells. We analyzed IFN-gamma and IL-4 messenger RNA (mRNA) positive cells in liver sections from 18 patients with PBC and 35 disease controls including chronic active hepatitis C, extrahepatic biliary obstruction (EBO), and normal liver, using nonisotopic in situ hybridization and immunohistochemistry. Mononuclear cells expressing IFN-gamma and IL-4 mRNA were aggregated in inflamed portal tracts in PBC livers, but were rarely present in extrahepatic biliary obstruction, alcoholic fibrosis, or normal liver sections. The IFN-gamma and IL-4 mRNA positive cells in PBC livers were detected in significantly higher numbers than in control livers (P < .01). Moreover, IFN-gamma mRNA expression was more commonly detected than IL-4 expression in PBC livers, and the levels of IFN-gamma mRNA expression were highly correlated with the degree of portal inflammatory activity. IFN-gamma mRNA-positive cells were detected primarily around damaged bile ducts that were surrounded by lymphoid aggregates. The data indicate that Th1 cells are the more prominent T-cell subset in the lymphoid infiltrates in PBC.
Future perspectives of selective estrogen receptor modulators used alone and in combination with DHEA (2006)

Breast cancer is the most frequently diagnosed and the second cause of cancer death in women, thus making breast cancer a most feared disease. Since breast cancer metastasizes early and it is unlikely that improvements in the treatment of metastatic disease could permit a cure in most cases in the foreseeable future, it is clear that prevention is essential in order practically to eliminate deaths from breast cancer. Tamoxifen is the only selective estrogen receptor modulator (SERM) currently registered for use in breast cancer prevention; the tamoxifen versus raloxifene study should indicate the efficacy of this compound compared with raloxifene. The recent benefits of aromatase inhibitors over tamoxifen indicate the advantages of a blockade of estrogens more complete than the one achieved with tamoxifen, a SERM having some estrogenic activity in the mammary gland and an even higher estrogenic action in the uterus. However, it is unlikely that the general estrogen ablation achieved with aromatase inhibitors will be acceptable for the long-term use required for prevention. It is thus important to develop SERMs with highly potent and pure antagonistic activity in the mammary gland and uterus while possessing estrogen-like activity in tissues of particular importance for women's health, namely the bones and the cardiovascular system. However, it is expected that a SERM alone will not meet all the requirements of women's health at the postmenopause when ovarian estrogen secretion has ceased and peripheral formation of androgens and estrogens from DHEA by intracrine mechanisms is decreased by 60% or more. One possibility is to combine a SERM with DHEA, a precursor of sex steroids that permits, somewhat like SERMs, tissue-specific formation of androgens and/or estrogens according to the level of expression of the steroidogenic and steroid-inactivating enzymes. DHEA could thus compensate for the important loss of androgens that accompanies aging and could also permit sex steroid formation and action in the brain while breast cancer prevention would be achieved by the SERM.
Risk Analysis of Blood Glucose Data: A Quantitative Approach to Optimizing the Control of Insulin Dependent Diabetes (2000)

Patients with Insulin‐Dependent Diabetes are continuously involved in a clinical optimization process: to maintain strict glycemic control without increasing their risk for hypoglycemia. This study offers quantitative tools for on‐line assessment of the quality of this optimization, based on self‐monitoring of blood glucose (SMBG). Ninety‐six adults with Insulin Dependent Diabetes Mellitus (IDDM), age 35 ± 8 yrs., duration of diabetes 16 ± 10 yrs., HbA lc 8.6 ± 1.8%, 43 of whom had a recent history of severe hypoglycemia (SH), while 53 did not, used Lifescan One Touch II meters for 135 ± 53 SMBG readings over a month. For the following six months the subjects recorded occurrence of SH. The two patient groups, with and without a history of SH, did not differ in age, duration of diabetes, HbA lc , insulin units/day, average BG or BG variability. We suggest a computational procedure based on a symmetrization of the BG measurement scale and on a superimposed BG risk function, that allows for computation of two glycemic control markers: the Low BG Index (LBGI) and the High BG Index (HBGI). The LBGI is associated with SH: the LBGI and the rate of change of the BG risk, classified correctly 77% of the subjects with vs. without a history of SH and accounted for 46% of the variance of future SH. The HBGI, in combination with age, duration of diabetes and daily insulin dose, accounted for 57% of the variance of patients′ glycosylated hemoglobin. We conclude that the LBGI and the HBGI are accurate on‐line SMBG measures for patients′ glycemic control.
A segment-based approach to protein secondary structure prediction (1992)

Amino acid sequence patterns have been used to identify the location of turns in globular proteins [Cohen et al. (1986) Biochemistry 25, 266-275]. We have developed sequence patterns that facilitate the prediction of helices in all helical proteins. Regular expression patterns recognize the component parts of a helix: the amino terminus (N-cap), the core of the helix (core), and the carboxy terminus (C-cap). These patterns recognize the core features of helices with a 95% success rate and the N- and C-capping features with success rates of 56% and 48%, respectively. A metapattern language, ALPPS, coordinates the recognition of turns and helical components in a scheme that predicts the location and extent of alpha-helices. On the basis of raw residue scoring, a 71% success rate is observed. By focusing on the recognition of core helical features, we achieve a 78% success rate. Amended scoring procedures are presented and discussed, and comparisons are made to other predictive schemes.
Statins inhibit the dimerization of β-secretase via both isoprenoid- and cholesterol-mediated mechanisms (2006)

We have previously reported that protein lipidation in the form of palmitoylation and farnesylation is critical for the production of Abeta (amyloid beta-peptide), the dimerization of beta-secretase and its trafficking into cholesterol-rich microdomains. As statins influence these lipid modifications in addition to their effects on cholesterol biosynthesis, we have investigated the effects of lovastatin and SIMVA (simvastatin) at a range of concentrations chosen to distinguish different cellular effects on Abeta production and beta-secretase structure and its localization in bHEK cells [HEK-293 cells (human embryonic kidney cells) transfected with the Asp-2 gene plus a polyhistidine coding tag] cells. We have compared the changes brought about by statins with those brought about by the palmitoylation inhibitor cerulenin and the farnesyltransferase inhibitor CVFM (Cys-Val-Phe-Met). The statin-mediated reduction in Abeta production correlated with an inhibition of beta-secretase dimerization into its more active form at all concentrations of statin investigated. These effects were reversed by the administration of mevalonate, showing that these effects were mediated via 3-hydroxy-3-methylglutaryl-CoA-dependent pathways. At low (1 microM) statin concentrations, reduction in Abeta production and inhibition of beta-secretase dimerization were mediated by inhibition of isoprenoid synthesis. At high (>10 microM) concentrations of statins, inhibition of beta-secretase palmitoylation occurred, which we demonstrated to be regulated by intracellular cholesterol levels. There was also a concomitant concentration-dependent change in beta-secretase subcellular trafficking. Significantly, Abeta release from cells was markedly higher at 50 microM SIMVA than at 1 microM, whereas these concentrations resulted in similar reductions in total Abeta production, suggesting that low-dose statins may be more beneficial than high doses for the therapeutic treatment of Alzheimer's disease.
Physicochemical characterization of siRNA‐peptide complexes (2008)

Short interfering RNAs (siRNAs) trigger RNA interference (RNAi), where the complementary mRNA is degraded, resulting in silencing of the encoded protein. A delivery carrier is desired to increase the solution stability of siRNA and improve its cellular uptake to overcome its rapid enzymatic degradation and low transfection efficiency. In this study, Arginine-9 (R9), a cell-penetrating peptide derived from the HIV 1 Tat protein, was investigated as a potential carrier for siRNAs. A connective tissue growth factor (CTGF) encoding siRNA was used because of its therapeutic potential of treating breast cancer. The interaction between R9 and siRNA was studied by UV/vis spectroscopy and circular dichroism (CD). The hydrodynamic diameter of the siRNA-R9 complexes was determined by dynamic light scattering (DLS), and the Zeta potential of the complexes was obtained by measuring the electrophoretic mobility. The effect of salt addition is also quantified using UV-vis spectroscopy. The siRNA and R9 readily formed complexes/aggregates through molecular association, accompanying a change in surface charge with increasing peptide concentration, reaching a maximum hydrodynamic diameter of approximately 1 mum at siRNA saturation. The highest binding ratio of R9 to siRNA determined from the UV/vis spectra and CD is 10.3:1 and 39.1:1 from DLS (corresponds to charge ratios of 2.2:1 (+/-) and 8.4:1, respectively). The difference in binding ratio is possibly because of the difference in signal contribution between absorption and light scattering. The physicochemical characterization of CTGF siRNA-R9 complexes presented here have shown that various methods can be used to control the properties of the siRNA-peptide complexes, which provide a basis for the formulation of siRNA therapeutics with peptide carriers.
Engineering the largest RNA virus genome as an infectious bacterial artificial chromosome (2000)

The construction of cDNA clones encoding large-size RNA molecules of biological interest, like coronavirus genomes, which are among the largest mature RNA molecules known to biology, has been hampered by the instability of those cDNAs in bacteria. Herein, we show that the application of two strategies, cloning of the cDNAs into a bacterial artificial chromosome and nuclear expression of RNAs that are typically produced within the cytoplasm, is useful for the engineering of large RNA molecules. A cDNA encoding an infectious coronavirus RNA genome has been cloned as a bacterial artificial chromosome. The rescued coronavirus conserved all of the genetic markers introduced throughout the sequence and showed a standard mRNA pattern and the antigenic characteristics expected for the synthetic virus. The cDNA was transcribed within the nucleus, and the RNA translocated to the cytoplasm. Interestingly, the recovered virus had essentially the same sequence as the original one, and no splicing was observed. The cDNA was derived from an attenuated isolate that replicates exclusively in the respiratory tract of swine. During the engineering of the infectious cDNA, the spike gene of the virus was replaced by the spike gene of an enteric isolate. The synthetic virus replicated abundantly in the enteric tract and was fully virulent, demonstrating that the tropism and virulence of the recovered coronavirus can be modified. This demonstration opens up the possibility of employing this infectious cDNA as a vector for vaccine development in human, porcine, canine, and feline species susceptible to group 1 coronaviruses.
Premonitory sensory phenomenon in Tourette's syndrome (2003)

We administered a questionnaire designed to probe for premonitory sensations associated with motor tics to 50 patients with Tourette's syndrome (TS). Premonitory sensations were reported by 46 (92%) patients, and the most common sensation was an urge to move and an impulse to tic ("had to do it"). Intensification of premonitory sensations, if prevented from performing a motor tic, was reported also in 37 patients (74%), 36 patients (72%) reported relief of premonitory sensations after performing the tic, and 27 of 40 (68%) described a motor tic as a voluntary motor response to an involuntary sensation, rather than a completely involuntary movement. The "just right" sensation correlated with the presence of co-morbid obsessive-compulsive disorder. We conclude that premonitory sensations are an important aspect of motor tics and some patients perceive motor tics as a voluntary movement in response to an involuntary sensation.