gebhart/patrepeval huggingface dataset:
Identification of a Novel Transcriptional Activator, BSAC, by a Functional Cloning to Inhibit Tumor Necrosis Factor-induced Cell Death (2002)

Tumor necrosis factor (TNF) is a multifunctional cytokine, which induces proliferation or death in a cell type-dependent manner. We previously showed that murine embryonic fibroblasts (MEFs) from TNF receptor-associated factor 2 (Traf2) and Traf5 double-deficient (double knockout (DKO)) mice were highly susceptible to TNF-induced cell death. By functional cloning to rescue DKO MEFs from TNF-induced cell death, we have identified a novel gene, Bsac. BSAC is composed of N-terminal basic, SAP (SAF-A/B, Acinus, PIAS), and coiled-coil domains. BSAC is a nuclear protein, and overexpression of BSAC potently activates promoters containing A + T-rich sequences named CArG boxes. Domain mapping analysis revealed that both N-terminal basic and C-terminal proline-rich sequence are required for the transcriptional activity. Overexpression of BSAC in DKO MEFs partially inhibited TNF-induced cell death by suppressing activation of caspases. Interestingly, inhibition of TNF-induced cell death was not observed in DKO MEFs transfected with either N-terminal or C-terminal deletion mutant of BSAC, revealing an intimate correlation between transcriptional activity and antiapoptotic function. Recently, a human homologue of BSAC named MAL/MKL1 (megakaryocytic acute leukemia/megakaryoblastic leukemia-1) was identified as a fusion transcript generated by t(1,22) translocation in acute megakaryoblastic leukemia. Collectively, BSAC is a novel transcriptional activator with antiapoptotic function, which may be involved in the leukemogenesis.
Prostaglandin E2: From Clinical Applications to Its Potential Role in Bone- Muscle Crosstalk and Myogenic Differentiation (2012)

Prostaglandin E(2) (PGE(2)), a prostanoid synthesized from arachidonic acid via the cyclooxygenase pathway, is a modulator of physiological responses including inflammation, fever, and muscle regeneration. Several patents have been filed that are related to PGE(2), one of them being directly related to skeletal muscles. In this report, we first summarize the key patents describing inventions for the utilization of PGE(2) for either diagnostic or therapeutic purposes, including skeletal muscle. In the second part of our work we present new and exciting data that demonstrates that PGE(2) accelerates skeletal muscle myogenic differentiation. Our discovery resulted from our recent and novel concept of bone-muscle crosstalk. Bone and muscle are anatomically intimate endocrine organs and we aimed to determine whether this anatomical intimacy also translates into a biochemical communication from bone cells to muscle cells at the in vitro level. The effects of MLOY4 osteocyte-like cell conditioned medium (CM) and three osteocyte-secreted factors, PGE(2), sclerostin and monocyte chemotactic protein (MCP-3), on C2C12 myogenic differentiation were evaluated using morphological analyses, a customized 96-gene PCR array, and measurements of intracellular calcium levels. MLO-Y4 CM and PGE(2), but not sclerostin and MCP-3, induced acceleration of myogenesis of C2C12 myoblasts that was linked with significant modifications in intracellular calcium homeostasis. This finding should further stimulate the pursuit of new patents to explore the use of PGE(2) and the new concept of bone-muscle crosstalk for the development and application of inventions designed to treat muscle diseases characterized by enhanced muscle wasting, such as sarcopenia.
HOTS: A Hierarchy of Event-Based Time-Surfaces for Pattern Recognition (2016)

This paper describes novel event-based spatio-temporal features called time-surfaces and how they can be used to create a hierarchical event-based pattern recognition architecture. Unlike existing hierarchical architectures for pattern recognition, the presented model relies on a time oriented approach to extract spatio-temporal features from the asynchronously acquired dynamics of a visual scene. These dynamics are acquired using biologically inspired frameless asynchronous event-driven vision sensors. Similarly to cortical structures, subsequent layers in our hierarchy extract increasingly abstract features using increasingly large spatio-temporal windows. The central concept is to use the rich temporal information provided by events to create contexts in the form of time-surfaces which represent the recent temporal activity within a local spatial neighborhood. We demonstrate that this concept can robustly be used at all stages of an event-based hierarchical model. First layer feature units operate on groups of pixels, while subsequent layer feature units operate on the output of lower level feature units. We report results on a previously published 36 class character recognition task and a four class canonical dynamic card pip task, achieving near 100 percent accuracy on each. We introduce a new seven class moving face recognition task, achieving 79 percent accuracy.This paper describes novel event-based spatio-temporal features called time-surfaces and how they can be used to create a hierarchical event-based pattern recognition architecture. Unlike existing hierarchical architectures for pattern recognition, the presented model relies on a time oriented approach to extract spatio-temporal features from the asynchronously acquired dynamics of a visual scene. These dynamics are acquired using biologically inspired frameless asynchronous event-driven vision sensors. Similarly to cortical structures, subsequent layers in our hierarchy extract increasingly abstract features using increasingly large spatio-temporal windows. The central concept is to use the rich temporal information provided by events to create contexts in the form of time-surfaces which represent the recent temporal activity within a local spatial neighborhood. We demonstrate that this concept can robustly be used at all stages of an event-based hierarchical model. First layer feature units operate on groups of pixels, while subsequent layer feature units operate on the output of lower level feature units. We report results on a previously published 36 class character recognition task and a four class canonical dynamic card pip task, achieving near 100 percent accuracy on each. We introduce a new seven class moving face recognition task, achieving 79 percent accuracy.
Sorbitol dehydrogenase expression is regulated by androgens in the human prostate (2010)

Sorbitol is an intermediate in the polyol pathway, which converts from glucose to fructose by sorbitol dehydrogenase (SORD). Androgens are essential for the development of prostate cancer. We studied castration-induced gene expression changes in the human prostate using the GeneChip array, and identified SORD as being androgen-regulated in the human prostate. A putative androgen-responsive regulatory region at the SORD 5' promoter was identified using promoter deletion constructs in a luciferase reporter assay in COS-7 cells. Chromatin immunoprecipitation assay was used to assess the binding of androgen receptor to suggested androgen responsive regulatory region. Finally, the expression of SORD in the human prostate was evaluated in 29 prostate tissue samples by immunohistochemistry. The expression of SORD decreased after castration. Androgen supplementation to the LNCaP prostate cancer cell line led to a 7.5-fold increase in SORD mRNA expression. Furthermore, a chromatin immunoprecipitation assay proved that the androgen receptor can bind to this putative androgen-responsive regulatory region. Finally, the expression of SORD in the human prostate was localised to epithelial cells of both benign and malignant prostate tissue by immunohistochemistry. In prostate cancer, increased immunostaining was associated with high Gleason patterns and high serum prostate-specific antigen concentrations. These results show that SORD is a novel androgen-regulated gene in the human prostate and suggest the need for more detailed analysis of the physiological role of SORD in the prostate.
Protective and restorative role of AS101 in combination with chemotherapy. (1991)

The immunomodulator AS101 has been found previously by us to stimulate the secretion of high levels of interleukin 1 and colony stimulating factor (CSF) in vitro, as well as the production of CSF in vivo in mice models. These cytokines are known to induce proliferation and differentiation of hematopoietic progenitor cells from the spleen and bone marrow (BM) and to protect mice from DNA-damaging agents. The present studies were designed to evaluate the effects of prolonged treatment with AS101 on myelopoiesis, BM cellularity, and CSF secretion in mice treated with a sublethal dose of cyclophosphamide (CYP) and on the survival of mice undergoing treatment with lethal doses of this compound. In this model, the hematopoietic progenitors were suppressed during the overbound phase of myelopoiesis resulting from the cytotoxic effects of CYP. This allowed the detection of a significant proliferative effect of AS101 in vivo on BM colony-forming units granulocyte-macrophage progenitor cells, BM cellularity, and the secretion of CSF. Moreover, AS101 protected these animals from the lethal effects of high doses of CYP. These protective effects were demonstrable only when AS101 was administered to mice prior to CYP treatment. The only exception was CSF secretion by spleen cells that had been reconstituted when AS101 was administered both prior to and following CYP treatment. AS101 was found to have a synergistic effect with CYP in the treatment of tumor-bearing mice, suggesting that the combination of these two modalities provides a more effective treatment of their tumors. These results strongly suggest an immunoregulatory role for AS101 in counteracting the chemotherapy-induced hematopoietic suppression as well as usefulness as adjunct treatment of cancer when used in combination with CYP.
Carbopalladation of Maleate and Fumarate Esters and 1,1-Dimethylallene with Ortho-Substituted Aryl Palladium Complexes (2009)

Dimethyl maleate and dimethyl and diethyl fumarates (RO2CCH═CHCO2R) have been reacted with [Pd(C6H4Ro-2)Y(N∧N)] (Ro = OH, CHO, CN, Y = Br, I, N∧N = tmeda, bpy, dtbbpy; 1:1:4.5 molar ratio) and TlOTf to afford complexes resulting from the stereoselective insertion of the olefin and coordnation to Pd of one carbonyl oxygen, giving an enantiomeric mixture of the five-membered metallacyclic complexes [Pd{κ2C,O-2-[CH(CO2R)CHCO2R]C6H4Ro}(N∧N)]OTf (R = Me, Et). From dimethyl maleate, the isolated complexes were RR/SS mixtures with Ro = OH, N∧N = tmeda (2aOH), dtbbpy (2cOH) and N∧N = bpy, Ro = CHO (2bCHO), CN (2bCN) and from the fumarates RS/SR mixtures with N∧N = bpy, Ro = CHO, R = Me (3bCHO), Et (4bCHO). Complex 2bCHO reacts with RNC in a 1:1 or 1:3 molar ratio to give the complexes [Pd{2-[CH(CO2R)CHCO2R]C6H4CHO}}(CNR′)n(bpy)3−n]OTf (R = Me, n = 1, R′ = Xy (5bCHO), tBu = (6bCHO); n = 3, R = Xy (7bCHO), tBu = (8bCHO)). Similarly, the fumarate derivative 3bCHO or 4bCHO afforded the corresponding complexes where R = Me, n = 1, R′ = Xy (9bCHO), n = 3, R′ = tBu (10bCHO) or R = Et, n = 3, R′ = Xy (11bCHO), tBu (12bCHO), respectively. 1,1-Dimethylallene reacts with [Pd(C6H4OH-2)I(N∧N)] to give the η3-allyl complexes [Pd{η3-CH2C(C6H4OH-2)CMe2}(N∧N)]OTf (N∧N = tmeda (13aOH), dtbbpy (13cOH)). The crystal structures of 2aOH, 4bCHO, 7bCHO, and 13aOH have been determined.
Use of Mass- and Area-Dimensional Power Laws for Determining Precipitation Particle Terminal Velocities (1996)

Based on boundary layer theory and a comparison of empirical power laws relating the Reynolds and Best numbers, it was apparent that the primary variables governing a hydrometeor's terminal velocity were its mass, its area projected to the flow, and its maximum dimension. The dependence of terminal velocities on surface roughness appeared secondary, with surface roughness apparently changing significantly only during phase changes (i.e., ice to liquid). In the theoretical analysis, a new, comprehensive expression for the drag force, which is valid for both inertial and viscous-dominated flow, was derived. A hydrometeor's mass and projected area were simply and accurately represented in terms of its maximum dimension by using dimensional power laws. Hydrometeor terminal velocities were calculated by using mass- and area-dimensional power laws to parameterize the Best number, X. Using a theoretical relationship general for all particle types, the Reynolds number, Re, was then calculated from the Best number. Terminal velocities were calculated from Re. Alternatively, four Re–X power-law expressions were extracted from the theoretical Re–X relationship. These expressions collectively describe the terminal velocities of all ice particle types. These were parameterized using mass- and area-dimensional power laws, yielding four theoretically based power-law expressions predicting fall speeds in terms of ice particle maximum dimension. When parameterized for a given ice particle type, the theoretical fall speed power law can be compared directly with empirical fall speed-dimensional power laws in the literature for the appropriate Re range. This provides a means of comparing theory with observations. Terminal velocities predicted by this method were compared with fall speeds given by empirical fall speed expressions for the same ice particle type, which were curve fits to measured fall speeds. Such comparisons were done for nine types of ice particles. Fall speeds predicted by this method differed from those based on measurements by no more than 20%. The features that distinguish this method of determining fall speeds from others are that it does not represent particles as spheroids, it is general for any ice particle shape and size, it is conceptually and mathematically simple, it appears accurate, and it provides for physical insight. This method also allows fall speeds to be determined from aircraft measurements of ice particle mass and projected area, rather than directly measuring fall speeds. This approach may be useful for ice crystals characterizing cirrus clouds, for which direct fall speed measurements are difficult.
Phosphoinositide metabolism, lithium and manic depressive illness (2002)

Physiology underlying manic depressive illness and treating effects of its most commonly used remedy – “lithium” is yet to be elucidated. Recent years of psychopharmacology research witnessed sparkling developments in our understanding of the mechanisms underlying lithium’s mood stabilizing effects. Recent data on molecular biology and in vivo magnetic resonance spectroscopy suggest that some of the initial actions of lithium may occur through the inhibition of the enzyme inositol monophosphatase (IMPase) and reduction of myo –inositol, which in turn initiate a cascade of events at different levels of signal transduction process and gene expression in brain; such as the effects on protein kinase C, myristoylated alenine rich C kinase substrate protein, glycogen synthase kinase 3 β , B cell lymphoma–2 protein, and activator protein–I. It is likely that the enzyme IMPase other that being the key point in initiating lithium’s therapeutic effects, may also play a critical role in the physiology underlying manic depressive illness.
Transduction of Receptor Signals by ß-Arrestins (2005)

The transmission of extracellular signals to the interior of the cell is a function of plasma membrane receptors, of which the seven transmembrane receptor family is by far the largest and most versatile. Classically, these receptors stimulate heterotrimeric G proteins, which control rates of generation of diffusible second messengers and entry of ions at the plasma membrane. Recent evidence, however, indicates another previously unappreciated strategy used by the receptors to regulate intracellular signaling pathways. They direct the recruitment, activation, and scaffolding of cytoplasmic signaling complexes via two multifunctional adaptor and transducer molecules, beta-arrestins 1 and 2. This mechanism regulates aspects of cell motility, chemotaxis, apoptosis, and likely other cellular functions through a rapidly expanding list of signaling pathways.
Inactivation of Leukocytes in Platelet Concentrates by Photochemical Treatment With Psoralen Plus UVA (1998)

A photochemical treatment (PCT) process using a novel psoralen and long wavelength ultraviolet light (UVA, 320-400 nm) has been developed to inactivate bacteria and viruses in platelet concentrates. This study evaluated the efficacy of PCT for inactivation of leukocytes that contaminate platelet preparations. Three psoralens, 8-methoxypsoralen (8-MOP), 4'-aminomethyl 4,5', 8-trimethylpsoralen (AMT), and the novel psoralen S-59, were compared using the following four independent but complementary biological and molecular assays. (1) T-cell viability: Treatment with 150 mumol/L S-59 and 1.0 to 3.0 Joules/cm2 UVA inactivated >5.4 +/- 0.3 log10 of T cells in full-sized single-donor plateletpheresis units. Using 1.0 Joule/cm2 UVA, the lowest dose of S-59, AMT and 8-MOP required to reduce the number of T cells to the limit of detection was 0.05 micromol/L, 1.0 micromol/L, and 10.0 micromol/L, respectively. (2) Cytokine synthesis: Treatment with 1.9 Joules/cm2 UVA and 150 micromol/L S-59 or AMT completely inhibited synthesis of the cytokine IL-8 by contaminating leukocytes during 5 days of platelet storage. After treatment with 75 micromol/L 8-MOP and 1.9 Joules/cm2 UVA, only low levels of IL-8 were detected. (3) Psoralen-DNA adduct formation: The combination of 1.9 Joules/cm2 UVA and 150 micromol/L S-59, AMT, or 8-MOP induced 12.0 +/- 3.0, 6.0 +/- 0. 9, and 0.7 psoralen adducts per 1,000 bp DNA, respectively. (4) Replication competence: Polymerase chain reaction (PCR) amplification of small genomic DNA sequences (242-439 bp) after PCT was inhibited. The degree of PCR amplification inhibition correlated with the level of adduct formation (S-59 > AMT > 8-MOP). In contrast, 2,500 cGy gamma radiation, a dose that inactivates >5 log10 of T cells in blood products, had minimal effect on cytokine synthesis and did not induce sufficient DNA strand breaks to inhibit PCR amplification of the same small DNA sequences. These results demonstrate that leukocytes are sensitive to PCT with psoralens and among the psoralens tested S-59 is the most effective. Therefore, PCT has the potential to reduce the incidence of leukocyte-mediated adverse immune reactions associated with platelet transfusion.
Sequence of the GLT1 gene from Saccharomyces cerevisiae reveals the domain structure of yeast glutamate synthase (1996)

Glutamate synthase (GOGAT) and glutamine synthetase play a crucial role in ammonium assimilation and glutamate biosynthesis in the yeast Saccharomyces cerevisiae. The GOGAT enzyme has been purified and the GOGAT structural gene (GLT1) has been cloned, showing that this enzyme is a homotrimeric protein with a monomeric size of 199 kDa. We report the GLT1 nucleotide sequence and the amino acid sequence of its deduced protein product. Our results show that there is a high conservation with the corresponding genes of Escherichia coli, Medicago sativa (alfalfa) and Zea mais (maize). Binding domains for glutamine, cofactors (FMN and NADH) and the cysteine clusters (which comprise the iron-sulfur centres) were tentatively identified on the basis of sequence comparison with GOGAT sequences from E. coli, alfalfa and maize.
<title>Polymer-based optical waveguide circuits for photonic phased-array antennas</title> (1999)

Photonic phased array antennas represent one of the most critical technologies for both national defense and civilian wireless communications. In this paper, we present a novel compact detector-switched polymeric waveguide true-time- delay module, which is a crucial building block for advanced wideband photonic phased array antennas. The photolithographically defined ultra-low-loss polymeric waveguides provide us an attractive solution for achieving ultra long delay time over tens of nsec with ultra fine resolution of less than 1 ps. The 2D distributed waveguide grating couplers tap the optically encoded microwave signal, propagating along the polymeric channel waveguide, to high- speed photodetectors. These photodetectors can be electrically switched on and off independently for selecting different delay times. The appropriate delay time is equal to the time of flight along the waveguide. We have demonstrated that such optical true-time-delays can be implemented in such a device scheme with the RF spectrum of 11 GHz to 40 GHz. The optically encoded microwave signals are obtained by using semiconductor-laser-based optical heterodyne technique. Such a monolithic integrated module not only reduces the cost associated with optoelectronic packaging, but also reduces the system payload with an improved reliability.
Low-Molecular-Weight Heparins (1997)

After almost two decades of intensive research, low-molecular-weight heparins have established their niche as an important class of antithrombotic compounds. The demonstration that these compounds are safe and effective for the prevention and treatment of venous thromboembolism has led to the licensing of several of them in Europe and North America. In addition, danaparoid sodium, which is a mixture of dermatan sulfate, heparan sulfate, and chondroitin sulfate, is often used for the treatment of heparin-induced thrombocytopenia.1 Low-molecular-weight heparins have replaced unfractionated heparin in many parts of Europe but are only now finding their place in North America. Their use is . . .
Chiral ionic liquids improved the asymmetric cycloaddition of CO2 to epoxides (2009)

The new catalyst system of chiral SalenCo(OAc)/chiral ionic liquid was developed to catalyze the asymmetric cycloaddition reaction of CO2 and epoxides yielding the chiral cyclic carbonates. The synergistic effect between them is discussed.
Stereoselective Synthesis of 3,5-Dialkyl-3,5-dihydro-3,5-diphenyl-4H-pyrazol-4-ones (2005)

We report stereoselective five-step syntheses of cis-3-ethyl-3,5-dihydro-3,5-diphenyl-5-methyl-4H-pyrazol-4-one (cis-1b) and trans-3,5-diethyl-3,5-dihydro-3,5-diphenyl-4H-pyrazol-4-one (trans-1c). The key synthon was 1,3-diphenylpent-2-en-1-one (5b) synthesized in a new one-pot crossed aldol/dehydration reaction of acetophenone with propiophenone using titanium(IV) chloride/tributylamine, followed by treatment with methanesulfonyl chloride and triethylamine.
Expression of a human proprotein processing enzyme: correct cleavage of the von Willebrand factor precursor at a paired basic amino acid site. (1990)

Intracellular proteolytic processing of precursor polypeptides is an essential step in the maturation of many proteins, including plasma proteins, hormones, neuropeptides, and growth factors. Most frequently, propeptide cleavage occurs after paired basic amino acid residues. To date, no mammalian propeptide processing enzyme with such specificity has been purified or cloned and functionally characterized. We report the isolation and functional expression of a cDNA encoding a propeptide-cleaving enzyme from a human liver cell line. The encoded protein, called PACE (paired basic amino acid cleaving enzyme), has structural homology to the well-characterized subtilisin-like protease Kex2 from yeast. The functional specificity of PACE for mediating propeptide cleavage at paired basic amino acid residues was demonstrated by the enhancement of propeptide processing of human von Willebrand factor when coexpressed with PACE in COS-1 cells.