gebhart/patrepeval huggingface dataset:
Hematopoietic cells express two forms of lyn kinase differing by 21 amino acids in the amino terminus. (1991)

cDNAs for the murine lyn protein tyrosine kinase gene were cloned from mouse bone marrow-derived monocytic cells. Comparison of the human and murine genes demonstrated a 94% homology in peptide sequence. Comparable to the human gene, murine lyn was found to be expressed in myeloid and B-lymphoid lineage cells. During the cloning, two types of cDNAs were obtained that differed by the presence (lynA) or absence (lynB) of 63 bp within the amino-terminal coding region of the gene. The genomic structure of the murine lyn gene demonstrates that the two types of lyn transcripts are derived from alternative splicing utilizing an internal splice donor site. Transcripts for both forms were found to be expressed in myeloid cells. lyn-specific antisera detected comparable levels of proteins of 56 and 53 kDa in hematopoietic cells. these 56- and 53-kDa proteins comigrated with proteins produced by in vitro translation or in vivo expression of the lynA and lynB cDNAs, respectively. The two forms had comparable in vitro kinase activities in immunoprecipitates and showed similar peptide patterns, with partial V8 digestion of the in vitro-phosphorylated proteins. The potential significance of the two lyn proteins is discussed.
Lipoatrophy in Patients with Multiple Sclerosis on Glatiramer Acetate (2004)

Prevalence of lipoatrophy was much higher than expected. Possible reasons for this adverse reaction are explored and suggested treatment recommendations are reviewed. Lipoatrophy can be very disfiguring and is thought to be permanent, and the psychological impact can be significant. It is, therefore, important that patients be aware of the possibility of lipoatrophy, be able to identify it and discontinue injecting in areas where it is identified.
The Direct Closure of the Internal Fistula Opening Without Advancement Flap for Transsphincteric Fistulas-in-Ano (2004)

Direct closure for the treatment of transsphincteric fistulas is a safe and effective approach and achieves a good functional outcome; a small risk of suture line dehiscence, which may lead to a recurrent or persistent fistula, remains.
The effect of topical pilocarpine on intraocular pressure and pupil size in the normotensive and glaucomatous beagle. (1977)

Topical 1, 2, and 4 percent pilocarpine were evaluated in the normotensive and glaucomatous beagles, comparing intraocular pressure (IOP), pupillary size, and time. In normotensive beagles pilocarpine produced maximal decreases of 25 percent (5.5 mm. Hg) at 1 percent concentration; 34 percent (7.26 mm. Hg) at 2 percent concentration; and 25 percent (6.9 mm. Hg) at 4 percent concentration. The maximum reductions in IOP after pilocarpine instillation in the glaucomatous beagle were 30 percent (9.1 mm. Hg) at 1 percent concentration; 44 percent (14.92 mm. Hg) at 2 percent concentration; and 31 percent (10.89 mm. Hg) at 4 percent concentration. The glaucomatous beagles responded with a greater reduction of IOP than did the normotensive beagles.
A model small cinema: Icelandic film policy since 1978 (2010)

This article argues that film policy-making in Iceland offers an example of a marginal European culture that has been able to balance cultural and economic imperatives in a way that acknowledges the reality of transnational film production. Following a brief description of Icelandic film culture, the article discusses film laws of 1978, 1984, 1999, 2001 and 2003. The article also provides a sketch of Icelandic archiving policy and exhibition. Overall, we can see that Icelandic film policy has for several decades been simultaneously locally oriented and internationalist, and has allowed for the simultaneous emergence of popular and less mainstream film-making practices, and that it is quite exceptional by the standards of small countries.
Decoder-side Motion Estimation and Wiener filter for HEVC (2013)

This paper presents the coding techniques of Decoder-side Motion Vector Derivation (DMVD) and Adaptive Loop Filter (ALF) to apply on the state-of-the-art High Efficiency Video Coding (HEVC) standard. Both DMVD and ALF can provide the improvement of coding efficiency on HEVC test Model (HM) reference software, which are reported in multiple proposals during the development period of HEVC. In DMVD algorithm, Motion Vectors (MVs) are derived at video decoder side by utilizing the spatial and temporal correlation among decoded pictures without the signaling of motion vectors from video encoder side. The transmission of MVs from video encoder is skipped and thus better coding efficiency of inter prediction can be achieved. In ALF algorithm, a group of adaptive Wiener filters are applied to the samples of reconstructed pictures to improve the output video visual quality. The filter coefficients can be trained by video encoder and will be conveyed to video decoder signaled by the slice header to apply for the entire pixels in the slice. The utilization of DMVD and ALF can be controlled by the process of coding mode decision at video encoder side based on Rate-Distortion Optimization (RDO) metric. Experiments have demonstrated that the DMVD achieves 0.6%-1.1% BD rate reduction when compared to HM10.0 on the Random Access (RA) test condition. For ALF, average BD rate savings of 1.5%-2.6% are observed compared to HM10.0 under the HM common test condition. Experiment results also demonstrate that the coding gain from the integrated pipe of DMVD and ALF can be additive.
Interleukin-17 Stimulates the Expression of Interleukin-8, Growth-Related Oncogene- α, and Granulocyte–Colony-Stimulating Factor by Human Airway Epithelial Cells (2002)

Interleukin (IL)-17 is a recently discovered cytokine, which is proposed to play a role in neutrophilic airway inflammation via the release of proinflammatory cytokines and chemokines. To evaluate the role of IL-17 in inflammatory protein production from the airway epithelium, we have analyzed the effects of IL-17 on primary human bronchial epithelial cells (HBECs). Using gene arrays, changes in gene expression in response to IL-17 stimulation were investigated and only IL-8, growth-related oncogene (Gro)alpha, and granulocyte colony-stimulating factor (G-CSF) were found to be upregulated. Secretion of IL-8, Groalpha, and G-CSF in response to IL-17 was measured in HBEC cell culture supernatants by enzyme-linked immunosorbent assay. Upregulation of Groalpha, IL-8, and G-CSF was observed to be 8-, 5-, and 8-fold, respectively, after 48 h stimulation with IL-17. When tested at equivalent concentrations, IL-17 was found to be 2- to 3-fold more potent than tumor necrosis factor (TNF)-alpha in stimulating release of Groalpha and G-CSF from HBECs. In addition, IL-17 was found to synergistically enhance TNF-alpha-induced production of IL-8, Groalpha, and G-CSF. It is proposed that IL-17 may play an important role in neutrophil recruitment via stimulating the release of IL-8, Groalpha, and G-CSF from airway epithelial cells.
Diffusion-Ordered NMR Spectroscopy:  A Versatile Tool for the Molecular Weight Determination of Uncharged Polysaccharides (2003)

Diffusion-ordered NMR spectroscopy (DOSY) experiments have been carried out on dilute aqueous solutions of uncharged saccharide systems and, in particular, on six well characterized pullulan fractions of different molecular weights. The values of diffusion coefficients and hydrodynamic radii determined for the pullulan fractions are in good agreement with the results obtained with other methodologies such as light scattering. Fitting the diffusion coefficients data as a function of the molecular weight allows for the determination of a calibration curve that can be applied to a wide range of mono-, oligo-, and polysaccharides. Therefore, DOSY is proposed as a versatile tool for achieving a simple estimation of the molecular weight of uncharged polysaccharides. Mixtures of homopolymers of different molecular weight can be nicely separated. An advantage of the method is that the same sample used for the NMR characterization can be used for the molecular weight determination without any further manipulation. Other water soluble polymers, such as poly(ethylene oxide) and poly(vinylpyrrolidone), can be roughly characterized using the same calibration curve.
Toward an understanding of epithelial morphogenesis in health and disease (1992)

Mechanisms governing the biogenesis of the epithelial phenotype have been the focus of increasing attention in recent years. With respect to kidney development, investigators have attempted to address a wide range of relevant issues using cellular and molecular biologic techniques. Nevertheless, insights into the mechanisms of renal epithelial morphogenesis have evolved slowly. In part, this limitation reflects the prior emphasis on the embryonic kidney in organ culture, a system in which many important morphogenetic events occur simultaneously, making it difficult to define causality unambiguously. This is not to belittle the organ culture system: it, and even more so the embryonic kidney itself, represent the equivalent of a gold standard for students of nephrogenesis. But given the complexity of the morphogenetic processes under consideration, we believe it appropriate to call attention to simpler and more readily accessible model systems.
Exploring Multiple Execution Paths for Malware Analysis (2007)

Malicious code (or Malware) is defined as software that fulfills the deliberately harmful intent of an attacker. Malware analysis is the process of determining the behavior and purpose of a given Malware sample (such as a virus, worm, or Trojan horse). This process is a necessary step to be able to develop effective detection techniques and removal tools. Currently, Malware analysis is mostly a manual process that is tedious and time-intensive. To mitigate this problem, a number of analysis tools have been proposed that automatically extract the behavior of an unknown program by executing it in a restricted environment and recording the operating system calls that are invoked. The problem of dynamic analysis tools is that only a single program execution is observed. Unfortunately, however, it is possible that certain malicious actions are only triggered under specific circumstances (e.g., on a particular day, when a certain file is present, or when a certain command is received). In this paper, we propose a system that allows us to explore multiple execution paths and identify malicious actions that are executed only when certain conditions are met. This enables us to automatically extract a more complete view of the program under analysis and identify under which circumstances suspicious actions are carried out. Our experimental results demonstrate that many Malware samples show different behavior depending on input read from the environment. Thus, by exploring multiple execution paths, we can obtain a more complete picture of their actions.
Oxalate-Bridged Bimetallic Complexes {NH(prol)3}[MCr(ox)3] (M = MnII, FeII, CoII; NH(prol)3+ = Tri(3-hydroxypropyl)ammonium) Exhibiting Coexistent Ferromagnetism and Proton Conduction (2009)

The oxalate-bridged bimetallic complexes {NH(prol)(3)}[M(II)Cr(III)(ox)(3)] (M(II) = Mn(II), Fe(II), Co(II)) with hydrophilic tri(3-hydroxypropyl)ammonium (NH(prol)(3)(+)) were prepared by a new synthetic procedure, and the effects of the NH(prol)(3)(+) ion upon the structure, magnetism, and electrical conduction were studied. An X-ray crystallographic study of the MnCr dihydrate, {NH(prol)(3)}[MnCr(ox)(3)].2H(2)O, was performed. Crystal data: hexagonal, P6(3), a = b = 9.3808(14) A, c = 15.8006(14) A, Z = 2. The structure comprises oxalate-bridged bimetallic layers interleaved by NH(prol)(3)(+) ions. The ions assume a tripodal configuration and are hydrogen bonded to the bimetallic layers together with water molecules, giving rise to a short interlayer separation (7.90 A) and unsymmetrical faces to the bimetallic layer. Cryomagnetic studies demonstrate ferromagnetic ordering with transition temperature of 5.5 K for the MnCr complex, 9.0 K for the FeCr complex, and 10.0 K for the CoCr complex. The interlayer magnetic interaction is negligibly weak in all of the complexes despite the short interlayer separation. A slow magnetization is observed in all the complexes. This is explained by spin canting associated with the unsymmetrical feature of the bimetallic layer. The complexes show proton conduction of 1.2 x 10(-10) to 4.4 x 10(-10) S cm(-1) under 40% relative humidity (RH) and approximately 1 x 10(-4) S cm(-1) under 75% RH. On the basis of water adsorption/desorption profiles, the conduction under 40% RH is mediated through the hydrogen-bonded network formed by the bimetallic layer, NH(prol)(3)(+) ions, and water molecules (two per MCr). Under 75% RH, additional water molecules (three per MCr) are concerned with the high proton conduction. This is the first example of a metal complex system exhibiting coexistent ferromagnetism and proton conduction.
AntiTNF-α agents in the treatment of inflammation (1998)

Tumour necrosis factor/cachecin (TNF-alpha) and lymphotoxin (LTalpha / TNF-alpha), 2 members of the TNF family of cytokines, have numerous biological functions, such as induction of apoptosis, cytotoxicity, inflammation, immunoregulation, proliferation and antiviral responses. Although TNF-alpha is produced by many cell types, the majority comes from activated macrophages. The related molecule, LT-alpha is produced mainly by activated lymphocytes and shares many of TNF's properties. TNF-alpha is active in both of its molecular forms, a secreted 17 kDa mature form and a transmembrane 26 kDa precursor. It induces activity by stimulating 2 distinct receptor subtypes, TNFR1 (55 kDa) and TNFR2 (75 kDa). The activation of TNFR1 is generally thought to trigger the majority of inflammatory and apoptotic effects, although TNFR2 has recently been shown to play more of a role in signal transduction than was initially thought. TNF-alpha is responsible for the induction of apoptosis in certain cell types, where it plays a pivotal role in the induction of cytotoxicity, killing of neoplastic cells and deletion of autoreactive T-cell clones. This cytokine, and in particular, its overproduction, has been implicated in the pathogenesis of a variety of immunologically mediated inflammatory diseases, including endotoxic shock, inflammatory bowel disease (IBD), multiple sclerosis (MS) and rheumatoid arthritis (RA). Currently, there is an intense effort underway to regulate TNF-alpha production and activity, in order to treat diseases where TNF-alpha is thought to be pathologically indicated. To achieve this goal, the pharmaceutical industry is currently pursuing a 2 pronged strategy: a) testing biological agents such as antibodies against TNF-alpha or soluble TNF-alpha receptor constructs, and b) identifying small molecular inhibitors directed against targets such as phosphodiesterase-IV (PDE-IV) and TNF-alpha converting enzyme (TACE), a subgroup of the matrix metalloproteinases (MMP). The main difficulties in the clinical implementation of the biological agents are: development of immunogenicity, lack of oral availability and the high cost of production. The currently available small molecular compounds exhibit poor bio-availability and low selectivity, resulting in unacceptable side effects and a low therapeutic index. Despite these hurdles, numerous companies are actively pursuing agents that inhibit TNF-alpha.
Vaccinia topoisomerase binds circumferentially to DNA. (1994)

Vaccinia DNA topoisomerase, a member of the eukaryotic type I enzyme family, binds duplex DNA and forms a covalent adduct at sites containing a conserved sequence element 5'-CCCTT decreases in the scissile strand. The protein-DNA interface entails essential contacts with four phosphate moieties within the CCCTT motif, including the scissile phosphate, and three phosphates within the GGGAA sequence on the noncleaved strand. Critical protein-phosphate contacts are arrayed across the minor groove of the DNA helix. Base-specific contacts with the pentamer element are within the major groove and are situated on the opposite face of the helix. Thus, vaccinia topoisomerase binds circumferentially to its target site in duplex DNA. This binding mode suggests that the eukaryotic enzyme adopts a toroidal shape in the DNA-bound state. Conformational isomerization of the bound protein provides a plausible mechanism for DNA relaxation.
Huge magnetoresistance and low junction resistance in magnetic tunnel junctions with crystalline MgO barrier (2006)

Inserting a 4 /spl Aring/-Mg metal layer between the amorphous CoFeB bottom electrode layer and the MgO barrier layer was found to be effective in realizing huge magnetoresistance effect in low-resistance CoFeB/MgO/CoFeB magnetic tunnel junctions (MTJs). As a result, magnetoresistance (MR) ratio as high as 138% at resistance-area product (RA) of about 2.4 /spl Omega//spl middot//spl mu/m/sup 2/ was obtained. This value is about seven times that of state-of-the-art MTJs for magnetic sensor application. X-ray diffraction analysis clarified that crystal orientation of the poly-crystalline MgO(001) barrier layer was improved by the Mg layer. It is suggested that the higher crystalline orientation of the MgO(001) barrier layer could have enhanced the coherent tunneling of /spl Delta//sub 1/ electrons, resulting in an increase of MR ratio at the low RA (thin MgO thickness) region. The annealing temperature and free layer materials have also been optimized to satisfy the requirements for practical read head application. Although this optimization resulted in a reduction in the MR ratio to about 45%-53%, this value is still more than twice the highest MR ratio of conventional MTJs. The currently developed fabrication process will accelerate the development of highly sensitive read heads for ultrahigh-density hard-disk drives.
Development of Novel Formulations That Enhance Adenoviral-Mediated Gene Expression in the Lung in Vitro and in Vivo (2001)

Despite remarkable progress in the development of both viral and non-viral gene delivery vectors for cystic fibrosis therapy, low efficiency of gene transfer to the airway epithelium is a major obstacle to clinical application. Here we develop formulations that enhance cellular absorption of adenoviral vectors. We selected excipients from a panel of pharmaceutically acceptable com-pounds known to enhance drug absorption. Transduction efficiency of the virus in the presence of each ingredient was assessed in vitro and in vivo. Mannitol and chitosan substantially enhanced transduction efficiency in vitro and augmented expression in vivo by 4 and 8 log units, respectively. The most successful formulation (a blend of sucrose, mannitol, and Pluronic F68) transduced 100% of an A549 cell population in vitro and produced areas of intense gene expression in both large and small airways in vivo with minimal toxicity. Dose response studies also indicate that when placed in this formulation, the viral dose can be lowered by 1/2 log while maintaining superior levels of transgene expression. This formulation also enhanced the physical stability of the virus. No significant loss in titer was detected from a lyophilized formulation after storage at 25 degrees C for 30 days.
Ehrlichiosis--A Disease of Animals and Humans (1990)

Ehrlichiae are one of several kinds of obligate intracellular bacteria. Taxonomically, they are grouped with rickettsiae, but they can be distinguished by their unique tropism for circulating leukocytes. Ehrlichia canis causes a pancytopenia in dogs that becomes chronic if untreated. Certain breeds develop severe infections, characterized by fever, anorexia, dramatic weight loss, marked pancytopenia, anemia, peripheral edema, and hemorrhage. Ehrlichia risticii, a recently discovered species, is the cause of a serious diarrheal disease of horses. Other species of ehrlichiae have been documented as being veterinary pathogens. Recent data indicate that E. canis or a closely related species causes an acute febrile illness in humans. Clinically, the disease is similar to Rocky Mountain spotted fever, except that most patients do not have a rash. Human ehrlichiosis appears to be tickborne and is prevalent primarily in the southern Atlantic and south-central states. A mild from of ehrlichiosis has also been documented.
Kinase-Catalyzed Biotinylation for Phosphoprotein Detection (2006)

Protein phosphorylation plays a critical role in a variety of cellular functions. As a result, the monitoring of phosphoproteins in cells represents an important goal for proteomics research. To facilitate phosphoprotein detection, the first enzymatic phosphorylation-dependent biotinylation reaction of proteins is described. Specifically, kinase enzymes were coupled with an ATP-biotin conjugate to efficiently biotinylate substrate peptides and proteins after phosphate transfer. The kinase-mediated biotinylation reaction enables efficient detection of phosphoproteins in cell lysates or phosphopeptides after trypsin proteolysis, demonstrating its utility for proteomics research. Importantly, the studies reveal the cosubstrate promiscuity of kinase enzymes, laying the foundation for development of new chemical tools targeting the phosphoproteome.
A Comparison of Methods to Determine Benzene in Gasoline Boiling Range Material (1992)

Several chromatographic methods are compared for the determination of benzene in a set of 200 samples containing gasoline boiling range material. These methods included ASTM D 3606, a liquid chromatographic method, and a multicolumn PIONA (paraffins, isoparaffins, aromatics, naphthalenes, and olefins) method. In addition, a coupled capillary method is evaluated for a smaller set of samples. Although a small bias is detected among these methods, the extent of disagreement among methods is not large. For example, a least-squares fit of D 3606 results (x-axis) against LC results (y-axis) gives a slope of 0.99 and an intercept of -0.03 wt% benzene. In this evaluation, the repeatability of D 3606 is approximately three times better than that of the LC method.
Phylogenetic analysis reveals a low rate of homologous recombination in negative-sense RNA viruses (2003)

Recombination is increasingly seen as an important means of shaping genetic diversity in RNA viruses. However, observed recombination frequencies vary widely among those viruses studied to date, with only sporadic occurrences reported in RNA viruses with negative-sense genomes. To determine the extent of homologous recombination in negative-sense RNA viruses, phylogenetic analyses of 79 gene sequence alignments from 35 negative-sense RNA viruses (a total of 2154 sequences) were carried out. Powerful evidence was found for recombination, in the form of incongruent phylogenetic trees between different gene regions, in only five sequences from Hantaan virus, Mumps virus and Newcastle disease virus. This is the first report of recombination in these viruses. More tentative evidence for recombination, where conflicting phylogenetic trees were observed (but were without strong bootstrap support) and/or where putative recombinant regions were very short, was found in three alignments from La Crosse virus and Puumala virus. Finally, patterns of sequence variation compatible with the action of recombination, but not definitive evidence for this process, were observed in a further ten viruses: Canine distemper virus, Crimean-Congo haemorrhagic fever virus, Influenza A virus, Influenza B virus, Influenza C virus, Lassa virus, Pirital virus, Rabies virus, Rift Valley Fever virus and Vesicular stomatitis virus. The possibility of recombination in these viruses should be investigated further. Overall, this study reveals that rates of homologous recombination in negative-sense RNA viruses are very much lower than those of mutation, with many viruses seemingly clonal on current data. Consequently, recombination rate is unlikely to be a trait that is set by natural selection to create advantageous or purge deleterious mutations.