gebhart/patrepeval huggingface dataset:
Genetic diversity for lipid content and fatty acid profile in rice bran (2003)

Abstract Rice ( Oryza sativa L.) bran contains valuable nutritional constituents, which include lipids with health benefits. A germplasm collection consisting of 204 genetically diverse rice accessions was grown under field conditions and evaluated for total oil content and fatty acid (FA) composition. Genotype effects were highly statistically significant for lipid content and FA profile ( P &lt;0.001). Environment (year) significantly affected oil content ( P &lt;0.05), as well as stearic, oleic, linoleic, and linolenic acids (all with P &lt;0.01 or lower), but not palmitic acid. The oil content in rice bran varied relatively strongly, ranging from 17.3 to 27.4% (w/w). The major FA in bran oil were palmitic, oleic, and linoleic acids, which were in the ranges of 13.9–22.1, 35.9–49.2, and 27.3–41.0%, respectively. The ratio of saturated to unsaturated FA (S/U ratio) was highly related to the palmitic acid content ( r 2 =0.97). Japonica lines were characterized by a low palmitic acid content and S/U ratio, whereas Indica lines showed a high palmitic acid content and a high S/U ratio. The variation found suggests it is possible to select for both oil content and FA profile in rice bran.
Altered Complexity and Correlation Properties of R-R Interval Dynamics Before the Spontaneous Onset of Paroxysmal Atrial Fibrillation (1999)

A decrease in the complexity of R-R intervals and altered fractal properties in short-term R-R interval dynamics precede the spontaneous onset of AF in patients with no structural heart disease. Further studies are needed to determine the physiological correlates of these new, nonlinear HR variability measures.
Comparative Study of the Strain Signal and the Edited Strain Signal (2011)

This paper presents the comparative study between the strain signal and its edited signal. In this study, a fatigue strain loading was measured on an automobile coil spring, and the purpose to analyse this component is because it been identified as one of the critical component in an automobile. The strain signal editing process was performed by removing low amplitude cycles contained in the original signal using the short-time Fourier transform (STFT) method. This low amplitude cycles were eliminated based on the cut-off level of the signal energy distribution in the time representation. The original and edited strain signals were then analysed for predicting the fatigue damage of the coil spring. A comparison study of the fatigue damage and the most damaged zone obtained from the strain signal and the edited strain signal was also carried out. It was found that, the prediction of the fatigue damage and the most damages zone for both signals was same. Hence, the shortened signal can be used in the laboratory fatigue testing for the purposes of accelerated fatigue testing.
Factors governing the expression of a bacterial gene in mammalian cells. (1981)

Cultured monkey kidney cells transfected with simian virus 40 (SV40)-pBR322-derived deoxyribonucleic acid (DNA) vectors containing the Escherichia coli gene (Ecogpt, or gpt) coding for the enzyme xanthine-guanine phosphoribosyltransferase (XGPRT) synthesize the bacterial enzyme. This paper describes the structure of the messenger ribonucleic acids (mRNA's) formed during the expression of gpt and an unexpected feature of the nucleotide sequence in the gpt DNA segment. Analyses of the gpt-specific mRNA's produced during infection of CV1 cells indicate that in addition to the mRNA's expected on the basis of known simian virus 40 RNA splicing patterns, there is a novel SV40-gpt hybrid mRNA. The novel mRNA contains an SV40 leader segment spliced to RNA sequences transcribed from the bacterial DNA segment. The sequence of the 5'-proximal 345 nucleotides of the gpt DNA segment indicates that the only open translation phase begins with an AUG about 200 nucleotides from the end of the gpt DNA. Two additional AUGs as well as translation terminator codons in all three phases precede the XGPRT initiator codon. Deletion of the two that are upstream of the putative start codon increases the level of XGPRT production in transfected cells; deletion of sequences that contain the proposed XGPRT initiator AUG abolishes enzyme production. Based on the location of the XGPRT coding sequence in the recombinants and the structure of the mRNA's, we infer that the bacterial enzyme can be translated from an initiator AUG that is 400 to 800 nucleotides from the 5' terminus of the mRNA and preceded by two to six AUG triplets.
Small Molecule Integrin Antagonists in Cancer Therapy (2009)

Integrins are a large family of dimeric receptors composed by alpha and beta subunits that, once bound to extra-cellular matrix (ECM) proteins, regulate a variety of cellular processes such as cell motility, migration, and proliferation. The integrins transduce signals from inside-out and outside-in the cell, thus representing the cellular link to the external environment. For these properties, integrin activation has been involved in pathological processes like tumor growth and metastasis formation. Recent advances in the elucidation of the crystallographic structures of the alphavbeta3 and alphaIIbeta3 integrins are promoting studies focused to the search of small molecule antagonists that can block the integrin binding to ECM and inhibit the biological effects exerted by these receptors. In this review we will focus on small molecule antagonists of alphavbeta3 and alphavbeta5 integrin as tools for cancer therapy while other integrins will only be briefly mentioned. Cilengitide (cyclic peptidic alphavbeta3 and alphavbeta5 antagonist) is currently in clinical trials for anti cancer therapy. Combination of integrin alphavbeta3 antagonists and other traditional therapeutic approaches may represent a future strategy to inhibit tumor growth and metastasis spreading.
The mRNA Capping Apparatus as Drug Target and Guide to Eukaryotic Phylogeny (2001)

The 5′ cap is a distinctive feature of eukaryotic cellularand viral messenger RNA. The cap structure consists of7-methyl guanosine linked via an inverted 5′–5′ triphosphate bridge to the initiating nucleoside of the transcript(Fig. 1). The cap is formed by enzymatic modification ofnascent pre-mRNAs as they are being synthesized by cellular or viral RNA polymerases. Capping of cellularRNAs in vivo is effectively restricted to the transcriptsmade by nuclear RNA polymerase II (i.e., pre-mRNAsand certain small nuclear RNAs). Recent studies haveshown that the targeting of cap formation is achievedthrough direct binding of the cellular capping apparatusto the RNA polymerase II elongation complex (Shuman1997). Many eukaryotic DNA and RNA viruses, especially those that replicate in the cytoplasm, encode theirown RNA polymerase and their own capping apparatus.In such systems, the viral capping enzymes interact with,or are subunits of, the viral transcription complex (Haglerand Shuman 1992; Guarino et al. 1998)...
Spectroscopic imaging and the characterization of the autofluorescence properties of human bronchus tissues using uv laser diodes (2003)

Ultraviolet laser diodes (UV-LD) were used for the excitation source of autofluorescence (AF) measurements and spectroscopic imaging of the AF originating from the human bronchus was obtained. The AF spectra from normal bronchus tissues were measured and a clear AF spectrum was obtained by using a short wavelength (400 nm) laser diode; the overlap of the AF signal and excitation source could be substantially eliminated. In order to study the origin of AF intensity deterioration from bronchus tissue due to the formation of tumor tissues, the fluorescence spectrum was measured for various AF substances under various conditions. The blue AF signal of elastin and NADH solutions, which could not be easily studied by conventional excitation light sources, as well as the green AF became weak by adding lactic acid. The AF spectrum was measured for 512×512 pixels and the intensity mapping as a function of emission wavelength was obtained. Two-dimensional information of the AF signal intensity distribution for a certain wavelength component was measured. The feature originating from a region as small as about 100 μm could be recognized. Numerical calculations of the data were performed and precise features of the AF were revealed.
Lymphocyte Function-Associated Antigen 1 Is a Receptor forPasteurella haemolyticaLeukotoxin in Bovine Leukocytes (2000)

Pasteurella (Mannheimia) haemolytica leukotoxin (Lkt) causes cell type- and species-specific effects in ruminant leukocytes. Recent studies indicate that P. haemolytica Lkt binds to bovine CD18, the common subunit of all beta2 integrins. We designed experiments with the following objectives: to identify which member of the beta2 integrins is a receptor for Lkt; to determine whether Lkt binding to the receptor is target cell (bovine leukocytes) specific; to define the relationships between Lkt binding to the receptor, calcium elevation, and cytolysis; and to determine whether a correlation exists between Lkt receptor expression and the magnitude of target cell cytolysis. We compared Lkt-induced cytolysis in neutrophils from control calves and from calves with bovine leukocyte adhesion deficiency (BLAD), because neutrophils from BLAD-homozygous calves exhibit reduced beta2 integrin expression. The results demonstrate for the first time that Lkt binds to bovine CD11a and CD18 (lymphocyte function-associated antigen 1 [LFA-1]). The binding was abolished by anti-CD11a or anti-CD18 monoclonal antibody (MAb). Lkt-induced calcium elevation in bovine alveolar macrophages (BAMs) was inhibited by anti-CD11a or anti-CD18 MAb (65 to 94% and 37 to 98%, respectively, at 5 and 50 Lkt units per ml; P < 0.05). Lkt-induced cytolysis in neutrophils and BAMs was also inhibited by anti-CD11a or anti-CD18 MAb in a concentration-dependent manner. Lkt bound to porcine LFA-1 but did not induce calcium elevation or cytolysis. In neutrophils from BLAD calves, Lkt-induced cytolysis was decreased by 44% compared to that of neutrophils from control calves (P < 0.05). These results indicate that LFA-1 is a Lkt receptor, Lkt binding to LFA-1 is not target cell specific, Lkt binding to bovine LFA-1 correlates with calcium elevation and cytolysis, and bovine LFA-1 expression correlates with the magnitude of Lkt-induced target cell cytolysis.
[Mutation analysis of retinitis pigmentosa 1 gene in Chinese with retinitis pigmentosa]. (2002)

The nonpathogenicity of R1933X indicates that the C-terminal 224 residues of RP1 protein may be not critical for RP1. Recently, a C-termnal truncating mutation, Y1053(1 bp del), was reported to occur in an RP patient. Thus RP can be caused by lack of the region of RP1 protein after codon 1052 but before 1933. To confirm such a proposition, a large genotyping study is necessary and is likely to reveal more RP causative mutations and uncover more sequence alterations different from those of other ethnic groups.
Correlation between erythrocyte aldose reductase level and human diabetic retinopathy (2002)

It was suggested that the inhibition of AR in patients with early NIDDM might be beneficial in reducing the development of diabetic retinopathy.
Regulation of aspartokinase, aspartate semialdehyde dehydrogenase, dihydrodipicolinate synthase and dihydrodipicolinate reductase in Lactobacillus plantarum (2005)

The use of a lysine-overproducing strain of Lactobacillus plantarum in food or feed fermentations may lead to the production of lysine-rich products. The availability of functional genes and information on the regulation of lysine biosynthesis are required to develop a lysine-overproducing strain. The genome sequence of L. plantarum revealed putative lysine biosynthetic genes, some of which may produce isozymes. This study examined the functionality of the genes and the regulation of the first four enzymes of lysine biosynthesis, together with homoserine dehydrogenase, in L. plantarum. The genes were expressed in Escherichia coli, and the regulation of the enzymes was studied in cell extracts of both recombinant E. coli and L. plantarum. Among seven lysine biosynthetic genes studied (aspartokinase genes, thrA1 and thrA2; aspartate semialdehyde dehydrogenase genes, asd1 and asd2; dihydrodipicolinate synthase genes, dapA1 and dapA2; and the dihydrodipicolinate reductase gene, dapB) plus two homoserine dehydrogenase genes (hom1 and hom2), the products of six genes, i.e. thrA2, asd2, dapA1, dapB, hom1 and hom2, showed obvious enzyme activities in vitro. The product of one of the homoserine dehydrogenase genes, hom1, exhibited both homoserine dehydrogenase and aspartokinase activities. However, the aspartokinase activity was mainly due to ThrA2 and was inhibited by L-lysine and repressed by L-threonine, and the homoserine dehydrogenase activity was mainly due to Hom2 and was inhibited by L-threonine. The aspartate semialdehyde dehydrogenase, dihydrodipicolinate synthase and dihydrodipicolinate reductase were not regulated by the end-products of the pathway.
Sharing enriched multimedia experiences across heterogeneous network infrastructures (2010)

Today's consumers have a wide variety of interactive media and services at their disposal, for instance, through IPTV networks, the Internet, and in-home and mobile networks. A major problem, however, is that media and services do not interoperate across networks because they use different user identities, metadata formats, and signaling protocols, for example. As a result, users cannot easily combine media and services from different network infrastructures and share them in an integrated manner with their family and friends. In addition to limiting people's media experience, this also hinders the introduction of new services and business models as providers cannot easily develop and operate cross-network services. The goal of our work is to overcome this problem by means of an open and intelligent service platform that allows applications to easily combine media and services from different network infrastructures, and enables consumers to easily share them in an integrated way. The platform includes support for managing multi-user sessions across networks, context-aware recommendations, and cross-network identity management. While there has been prior work on platforms for converged media, our platform is unique in that it provides open, intelligent, and interoperable facilities for sharing media and services across network infrastructures. In addition, our work involves several specific innovations, for instance, pertaining to cross-network session management and synchronization. In this article we discuss the platform, its most important enabling services, and some of the applications we have built on top of it. We also briefly consider the new kinds of business models our platform makes possible.
Leveraging Usage Data of Software Architecture Artefacts (2019)

A number of existing fields (such as computational wear, social navigation, collaborative filtering, social filtering, and wear-based filtering) have shown that usage data (comprising interaction and annotation data) can be leveraged to provide assistance for sense-making of materials, for finding and filtering information, and for exploring an information space. We believe providing such assistance in Software Architecture Knowledge Management (SAKM) can enhance two of the five knowledge management activities of SAKM, namely, Architecture Knowledge (AK) sharing and AK application/using. To this end, we propose to include usage data capture and visualization as essential features of SAKM tools. We discuss key requirements and challenges for SAKM tools leveraging such usage data. We describe KaitaroCap, an exemplar tool that captures and provides visualization of usage data, in particular the usage data of software architecture documents.
Effect of Ge addition on postannealed CoCrGePt thin film media (2002)

The effect of Ge addition to postannealed CoCrGe and CoCrGePt thin film media with CrMn overlayer is discussed. It is found that the postannealing at about 410 °C drastically reduces intergranular exchange interaction and increases coercivity of the media, which is probably due to the diffusion of nonmagnetic elements to the grain boundary in the magnetic layer. It is clarified that Ge addition increases the anisotropy field of postannealed CoCrGe or CoCrGePt media, which agrees well with the previous results obtained in CoCrGe bulk polycrystalline alloy. In particular, the anisotropy field of postannealed CoCr5 media is increased by 70% with 10 at. % Ge addition. The increase of coercivity is mainly due to the increase of anisotropy field. It is confirmed that Ge addition to CoCr-based media can increase Hc and Hkgrain significantly, in case where the grains of the magnetic layer can be magnetically isolated.
Fluorogenic Hg2+-Selective Chemodosimeter Derived from 8-Hydroxyquinoline (2006)

[reaction: see text] A new thioamide derivative of 8-hydroxyquinoline-benzothiazole was prepared, and its fluorogenic chemodosimetric behaviors toward transition-metal ions were investigated. The thioamide derivative showed highly Hg2+-selective fluorescence enhancing properties (167-fold) in 30% aqueous acetonitrile solution. The selective and sensitive signaling behaviors were found to originate from the Hg2+ ion induced transformation of the very weak fluorescent thioamide derivative into a highly fluorescent amide analogue.
Multiplex polymerase chain reaction for the detection of herpes simplex virus, varicella-zoster virus and cytomegalovirus in ocular specimens (2003)

We found the assay very useful in our set-up whenever a differential diagnosis of herpetic infections was suggested by the ophthalmologist. The multiplex PCR we have described here can be of greater value in clinics with larger number of patients suspected of having HSV, VZV or CMV infections.
THE INTERACTION OF PARTICULATE HORSERADISH PEROXIDASE (HRP)-ANTI HRP IMMUNE COMPLEXES WITH MOUSE PERITONEAL MACROPHAGES IN VITRO (1972)

The uptake, distribution, and fate of particulate horseradish peroxidase (HRP)-anti HRP aggregates has been studied in homogeneous monolayers of mouse macrophages in vitro. Macrophages rapidly interiorize the immune complexes after binding to the cell surface. The rate of interiorization is maximal for complexes formed in a broad zone of 4-fold antibody excess to equivalence and corresponds to a rate of 10% of the administered load/10(6) cells per hour. This rate is 4000-fold greater than the uptake of soluble HRP. The binding and endocytosis of HRP-anti HRP by macrophages is mediated by the trypsin insensitive F(c) receptor. Cytochemically, intracellular HRP is localized within membrane bound vacuoles. After uptake of HRP, the enzymatic activity is degraded exponentially with a half-life of 14-18 hr until enzyme is no longer detectable. This half-life is twice as long as that previously observed for soluble uncomplexed HRP and is related to the combination of HRP with anti-HRP rather than the absolute amounts of enzyme or antibody ingested. The half-life of HRP-(125)I was 30 hr. Exocytosis of cell associated enzyme or TCA precipitable counts was not detected, nor were persistent surface complexes demonstrable. The extensive capacity of macrophages to interiorize and destroy large amounts of antigen after the formation of antibody illustrates a role of this cell in the efferent limb of the immune response.
Block-by-Block Growth of Single-Crystalline Si/SiGe Superlattice Nanowires (2002)

Heterojunction and superlattice formation is essential for many potential applications of semiconductor nanowires in nanoscale optoelectronics. We have developed a hybrid pulsed laser ablation/chemical capor deposition (PLA-CVD) process for the synthesis of semiconductor nanowires with longitudinal ordered heterostructures. The laser ablation process generates a programmable pulsed vapor source, which enables the nanowire growth in a block-by-block fashion with a well-defined compositional profile along the wire axis. Single-crystalline nanowires with longitudinal Si/SiGe superlattice structure have been successfully synthesized. This unique class of heterostructured one-dimensional nanostructures holds great potential in applications such as light emitting devices and thermoelectrics.
Blind Source Separation by Sparse Decomposition in a Signal Dictionary (2001)

The blind source separation problem is to extract the underlying source signals from a set of linear mixtures, where the mixing matrix is unknown. This situation is common in acoustics, radio, medical signal and image processing, hyperspectral imaging, and other areas. We suggest a two-stage separation process: a priori selection of a possibly overcomplete signal dictionary (for instance, a wavelet frame or a learned dictionary) in which the sources are assumed to be sparsely representable, followed by unmixing the sources by exploiting the their sparse representability. We consider the general case of more sources than mixtures, but also derive a more efficient algorithm in the case of a nonovercomplete dictionary and an equal numbers of sources and mixtures. Experiments with artificial signals and musical sounds demonstrate significantly better separation than other known techniques.
Human Papillomavirus Type 16 E7 Maintains Elevated Levels of the cdc25A Tyrosine Phosphatase during Deregulation of Cell Cycle Arrest (2002)

Essential to the oncogenic properties of human papillomavirus type 16 (HPV-16) are the activities encoded by the early gene product E7. HPV-16 E7 (E7.16) binds to cellular factors involved in cell cycle regulation and differentiation. These include the retinoblastoma tumor suppressor protein (Rb) and histone deacetylase (HDAC) complexes. While the biological significance of these interactions remains unclear, E7 is believed to help maintain cells in a proliferative state, thus establishing an environment that is conducive to viral replication. Most pathways that govern cell growth converge on downstream effectors. Among these is the cdc25A tyrosine phosphatase. cdc25A is required for G(1)/S transition, and its deregulation is associated with carcinogenesis. Considering the importance of cdc25A in cell cycle progression, it represents a relevant target for viral oncoproteins. Accordingly, the present study focuses on the putative deregulation of cdc25A by E7.16. Our results indicate that E7.16 can impede growth arrest induced during serum starvation and keratinocyte differentiation. Importantly, these E7-specific phenotypes correlate with elevated cdc25A steady-state levels. Reporter assays performed with NIH 3T3 cell lines and human keratinocytes indicate that E7 can transactivate the cdc25A promoter. In addition, transcriptional activation by E7.16 requires the distal E2F site within the cdc25A promoter. We further demonstrate that the ability of E7 to abrogate cell cycle arrest, activate cdc25A transcription, and increase cdc25A protein levels requires intact Rb and HDAC-1 binding domains. Finally, by using the cdk inhibitor roscovitine, we reveal that E7 activates the cdc25A promoter independently of cell cycle progression and cdk activity. Consequently, we propose that E7.16 can directly target cdc25A transcription and maintains cdc25A gene expression by disrupting Rb/E2F/HDAC-1 repressor complexes.
Microwave Ablation of Myocardial Tissue (1999)

Simple element designs can be used to produce a range of lesions from very small sizes to lesions that are transmural in the ventricle. The temperature half-time for microwave ablation is far greater than that of RF ablation. Like RF lesions, the lesions produced by microwave ablation have greater width than depth. Deep penetration of lesions into the ventricular myocardium can only be achieved with these elements by producing lesions of perhaps unnecessarily large volume.