gebhart/patrepeval huggingface dataset:
Oleochemicals from Isoricinoleic Acid (Wrightia tinctoria Seed Oil) (2008)

Derivatization of methyl 9-hydroxyoctadec-12-ynoate (I) was done to obtain the industrially important fatty compounds. Methyl 9-hydroxyoctadec-12-ynoate (I) was subjected to mesylation and demesylation reactions in which an unknown compound, methyl 9-ethoxyoctadec-12-ynoate (VII), was furnished in good yield, in addition to an inseparable mixture of enynoic esters. In another set of reactions, methyl 9-hydroxyoctadec-12-ynoate (I) was oxidized with trimethyl chlorochromate wherein the resulting methyl 9-oxooctadec-12-ynoate (II) was subjected to three condensation reactionswith 1,2-ethanedithiol, ethylene glycol, and β -mercaptoethanol, separatelyto yield diethyl 9,9-ethylenedisulfide octadec-12-ynoate (III), 9,9-ethylenedioxyoctadec-12-ynoate (IV), and 9-oxathiolaneoctadec-12-ynoate (V), respectively, in excellent yields. Their structures have been established using infrared (IR) spectroscopy, 1H nuclear magnetic resonance (NMR) spectroscopy, 13C NMR spectroscopy, and mass spectral studies.
Sustained response and long-term safety of eculizumab in paroxysmal nocturnal hemoglobinuria (2005)

Paroxysmal nocturnal hemoglobinuria (PNH) is a hematologic disorder characterized by clonal expansion of red blood cells (RBCs) lacking the ability to inhibit complement-mediated hemolysis. Eculizumab, a humanized monoclonal antibody that binds the C5 complement protein, blocks serum hemolytic activity. This study evaluated the long-term safety and efficacy of eculizumab in 11 patients with PNH during an open-label extension trial. After completion of an initial 12-week study, all patients chose to participate in the 52-week extension study. Eculizumab, administered at 900 mg every 12 to 14 days, was sufficient to completely and consistently block complement activity in all patients. A dramatic reduction in hemolysis was maintained throughout the study, with a decrease in lactate dehydrogenase (LDH) levels from 3110.7 IU/L before treatment to 622.4 IU/L (P = .002). The proportion of PNH type III RBCs increased from 36.7% at baseline to 58.4% (P = .005). The paroxysm rate of days with gross evidence of hemoglobinuria per patient each month decreased from 3.0 during screening to 0.2 (P < .001) during treatment. The median transfusion rate decreased from 1.8 U per patient each month before eculizumab treatment to 0.3 U per patient each month (P = .001) during treatment. Statistically significant improvements in quality-of-life measures were also maintained during the extension study. Eculizumab continued to be safe and well tolerated, and all patients completed the study. The close relationship between sustained terminal complement inhibition, hemolysis, and symptoms was demonstrated.
Highly Efficient Red Phosphorescent Osmium(II) Complexes for OLED Applications (2004)

The nonionic, red-emitting complexes [Os(fppz)2L2] (L = PPh2Me (1), PPhMe2 (2)) and [Os(bptz)2L2] (L = PPh2Me (3)) were synthesized, showing highly intense red phosphorescent emission in CH2Cl2 solution at λmax 617, 632, and 649 nm, respectively. The electroluminescent properties of these compounds on OLEDs showed promising device efficiencies required for future OLED applications.
Structure and expression of B-myc, a new member of the myc gene family. (1988)

The myc family of genes contains five functional members. We describe the cloning of a new member of the myc family from rat genomic and cDNA libraries, designated B-myc. A fragment of cloned B-myc was used to map the corresponding rat locus by Southern blotting of DNA prepared from rat X mouse somatic cell hybrids. B-myc mapped to rat chromosome 3. We have previously mapped the c-myc to rat chromosome 7 (J. Sümegi, J. Spira, H. Bazin, J. Szpirer, G. Levan, and G. Klein, Nature [London] 306:497-498, 1983) and N-myc and L-myc to rat chromosomes 6 and 5, respectively (S. Ingvarsson, C. Asker, Z. Wirschubsky, J. Szpirer, G. Levan, G. Klein, and J. Sümegi, Somat. Cell Mol. Genet. 13:335-339, 1987). A partial sequence of B-myc had extensive sequence homology to the c-myc protein-coding region, and the detection of intron homology further indicated that these two genes are closely related. The DNA regions conserved among the myc family members, designated myc boxes, were highly conserved between c-myc and B-myc. A lower degree of homology was detected in other parts of the coding region in c-myc and B-myc not present in N-myc and L-myc. A 1.3-kilobase B-myc-specific mRNA was detected in most rat tissues, with the highest expression in the brain. This resembled the expression pattern of c-myc, although at different relative levels, and was in contrast to the more tissue-specific expression of N-myc and L-myc. B-myc was expressed at uniformly high levels in all fetal tissues and during subsequent postnatal development, in contrast to the stage-specific expression of c-myc.
The effect of increased branched-chain amino acid transaminase activity in yeast on the production of higher alcohols and on the flavour profiles of wine and distillates (2006)

In Saccharomyces cerevisiae, branched-chain amino acid transaminases (BCAATases) are encoded by the BAT1 and BAT2 genes. BCAATases catalyse the transfer of amino groups between those amino acids and alpha-keto-acids. alpha-Keto-acids are precursors for the biosynthesis of higher alcohols, which significantly influence the aroma and flavour of yeast-derived fermentation products. The objective of this study was to investigate the influence of BAT-gene expression on general yeast physiology, on aroma and flavour compound formation and on the sensory characteristics of wines and distillates. For this purpose, the genes were overexpressed and deleted in a laboratory strain, BY4742, and overexpressed in an industrial wine yeast strain, VIN13. The data show that, with the exception of a slow growth phenotype observed for the BAT1 deletion strain, the fermentation behaviour of the strains was unaffected by the modifications. The chemical and sensory analysis of fermentation products revealed a strong correction between BAT gene expression and the formation of many aroma compounds. The data suggest that the adjustment of BAT gene expression could play an important role in assisting winemakers in their endeavour to produce wines with specific flavour profiles.
Implementing database operations using SIMD instructions (2002)

Modern CPUs have instructions that allow basic operations to be performed on several data elements in parallel. These instructions are called SIMD instructions, since they apply a single instruction to multiple data elements. SIMD technology was initially built into commodity processors in order to accelerate the performance of multimedia applications. SIMD instructions provide new opportunities for database engine design and implementation. We study various kinds of operations in a database context, and show how the inner loop of the operations can be accelerated using SIMD instructions. The use of SIMD instructions has two immediate performance benefits: It allows a degree of parallelism, so that many operands can be processed at once. It also often leads to the elimination of conditional branch instructions, reducing branch mispredictions.We consider the most important database operations, including sequential scans, aggregation, index operations, and joins. We present techniques for implementing these using SIMD instructions. We show that there are significant benefits in redesigning traditional query processing algorithms so that they can make better use of SIMD technology. Our study shows that using a SIMD parallelism of four, the CPU time for the new algorithms is from 10% to more than four times less than for the traditional algorithms. Superlinear speedups are obtained as a result of the elimination of branch misprediction effects.
Antipsychotic-Induced Weight Gain: A Comprehensive Research Synthesis (1999)

Both conventional and newer antipsychotics are associated with weight gain. Among the newer agents, clozapine appears to have the greatest potential to induce weight gain, and ziprasidone the least. The differences among newer agents may affect compliance with medication and health risk.
Reversal of Oncogenesis by the Expression of a Major Histocompatibility Complex Class I Gene (1985)

The classical transplantation antigens (the major histocompatibility complex class I antigens) play a key role in host defense against cells expressing foreign antigens. Several naturally occurring tumors and virally transformed cells show an overall suppression of these surface antigens. Since the class I molecules are required in the presentation of neoantigens on tumor cells to the cytotoxic T lymphocytes, their absence from the cell surface may lead to the escape of these tumors from immunosurveillance. To test this possibility, a functional class I gene was transfected into human adenovirus 12-transformed mouse cells that do not express detectable levels of class I antigens; the transformants were tested for expression of the transfected gene and for changes in oncogenicity. The expression of a single class I gene, introduced by DNA-mediated gene transfer into highly tumorigenic adenovirus 12-transformed cells, was sufficient to abrogate the oncogenicity of these cells. This finding has important implications for the regulation of the malignant phenotype in certain tumors and for the potential modulation of oncogenicity through derepression of the endogenous class I genes.
On extending Goppa codes to cyclic codes (Corresp.) (1975)

The class of linear codes introduced by Goppa are noncyclic in general. The only Goppa codes known to be cyclic are the Bose--Chaudhuri-Hocquengbem (BCH) codes which are a special class of Goppa codes. Recently, Berlekamp and Moreno showed that certain double-error-correcting binary Goppa codes become cyclic when extended by an overall parity check. In this correspondence, results of a further investigation on extending Goppa codes to cyclic codes are presented. It is shown that a large class of multiple-error-correcting <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">q</tex> -ary Goppa codes also become cyclic when extended by an overall parity check. These Goppa codes are found to be reversible. The Goppa codes considered in this correspondence consist of two subclasses that, after extension, give rise to the two subclasses of reversible cyclic codes of primitive and nonprimitive length, respectively. These cyclic codes are noted to include, respectively, the expurgated Melas codes and the Zetterberg codes as special cases.
Msk is required for nuclear import of TGF-β/BMP-activated Smads (2007)

Nuclear translocation of Smad proteins is a critical step in signal transduction of transforming growth factor beta (TGF-beta) and bone morphogenetic proteins (BMPs). Using nuclear accumulation of the Drosophila Smad Mothers against Decapentaplegic (Mad) as the readout, we carried out a whole-genome RNAi screening in Drosophila cells. The screen identified moleskin (msk) as important for the nuclear import of phosphorylated Mad. Genetic evidence in the developing eye imaginal discs also demonstrates the critical functions of msk in regulating phospho-Mad. Moreover, knockdown of importin 7 and 8 (Imp7 and 8), the mammalian orthologues of Msk, markedly impaired nuclear accumulation of Smad1 in response to BMP2 and of Smad2/3 in response to TGF-beta. Biochemical studies further suggest that Smads are novel nuclear import substrates of Imp7 and 8. We have thus identified new evolutionarily conserved proteins that are important in the signal transduction of TGF-beta and BMP into the nucleus.
KOJAK encodes a cellulose synthase-like protein required for root hair cell morphogenesis in Arabidopsis (2001)

The cell wall is an important determinant of plant cell form. Here we define a class of Arabidopsis root hair mutants with defective cell walls. Plants homozygous for kojak (kjk) mutations initiate root hairs that rupture at their tip soon after initiation. The KJK gene was isolated by positional cloning, and its identity was confirmed by the molecular complementation of the Kjk(-) phenotype and the sequence of three kjk mutant alleles. KOJAK encodes a cellulose synthase-like protein, AtCSLD3. KOJAK/AtCSLD3 is the first member of this subfamily of proteins to be shown to have a function in cell growth. Subcellular localization of the KOJAK/AtCSLD3 protein using a GFP fusion shows that KOJAK/AtCSLD3 is located on the endoplasmic reticulum, indicating that KOJAK/AtCSLD3 is required for the synthesis of a noncellulosic wall polysaccharide. Consistent with the cell specific defect in the roots of kjk mutants, KOJAK/AtCSDL3 is preferentially expressed in hair cells of the epidermis. The Kjk(-) phenotype and the pattern of KOJAK/AtCSLD3 expression suggest that this gene acts early in the process of root hair outgrowth. These results suggest that KOJAK/AtCSLD3 is involved in the biosynthesis of beta-glucan-containing polysaccharides that are required during root hair elongation.
Flow-sensitive type qualifiers (2002)

We present a system for extending standard type systems with flow-sensitive type qualifiers. Users annotate their programs with type qualifiers, and inference checks that the annotations are correct. In our system only the type qualifiers are modeled flow-sensitively---the underlying standard types are unchanged, which allows us to obtain an efficient constraint-based inference algorithm that integrates flow-insensitive alias analysis, effect inference, and ideas from linear type systems to support strong updates. We demonstrate the usefulness of flow-sensitive type qualifiers by finding a number of new locking bugs in the Linux kernel.
Dynamics of capillary infiltration of liquids into a highly aligned multi-walled carbon nanotube film (2011)

The physical compatibility of a highly aligned carbon nanotube (HACNT) film with liquids was established using a fast and convenient experimental protocol. Two parameters were found to be decisive for the infiltration process. For a given density of nanotube packing, the thermodynamics of the infiltration process (wettability) were described by the contact angle between the nanotube wall and a liquid meniscus (θ). Once the wettability criterion (θ < 90°) was met, the HACNT film (of free volume equal to 91%) was penetrated gradually by the liquid in a rate that can be linearly correlated to dynamic viscosity of the liquid (η). The experimental results follow the classical theory of capillarity for a steady process (Lucas-Washburn law), where the nanoscale capillary force, here supported by gravity, is compensated by viscous drag. This most general theory of capillarity can be applied in a prediction of both wettability of HACNT films and the dynamics of capillary rise in the intertube space in various technological applications.
Simple and selective one-pot replacement of the N-methyl group of tertiary amines by quaternization and demethylation with sodium sulfide or potassium thioacetate: an application to the synthesis of pergolide (2001)

The paper describes a mild, selective, and rapid replacement of an N-methyl group of tertiary amines with other alkyl groups via a simple one-pot procedure. This transformation is easily achieved by preparation of the appropriate quaternary ammonium salt in sulfolane and in situ treatment with sodium sulfide or potassium thioacetate. The protocol is successfully applied to the transformation of dihydrolysergol, dextromethorphan and laudanosine (as models of ergot and opium N-methyl alkaloids) into various N-alkyl congeners.
Comparison of the Outer Membrane Proteins of 50 Strains of Branhamella catarrhalis (1988)

Branhamella catarrhalis colonizes the respiratory tract of humans and commonly causes otitis media in children and respiratory infections in adults with chronic lung disease. In view of the emergence of this organism as an important human pathogen, we used sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) to examine the outer membrane proteins (OMPs) of 50 strains of B. catarrhalis. OMPs were isolated from broth culture supernatants. Typical of other gram-negative bacteria, eight proteins ranging in molecular weight (MW) from approximately 98,000 to 21,000 daltons were revealed by SDS-PAGE; these proteins were designated OMP A-OMP H. Of the OMPs identified, four were heat modifiable (C, D, E, and H). The 50 strains were obtained from diverse geographic and clinical sources. The OMP patterns were strikingly homogeneous; there was minimal variability in the MW of OMPs between strains. Future studies should establish whether the similarity in MWs of OMPs is paralleled by their antigenic characteristics.
Phase behavior of gradient copolymers (1999)

Phase properties of gradient AB copolymer melts which consist of chains with the specified chemical distribution of A and B monomers have been studied within the Landau–Ginzburg model. All the melts with the linear distribution of the monomers exhibit only a direct continuous phase transition from disordered to the lamellar phase. The hexagonal, body-centered-cubic, double-gyroid (G), and lamellar-ordered structures have been found in the melts with the monotonic but nonlinear distribution of the monomers. The G structure has been also found in the gradient copolymer melts with the distribution function of monomers similar to the A–B–A triblock copolymers.
Thyroid Receptor Ligands. 6. A High Affinity “Direct Antagonist” Selective for the Thyroid Hormone Receptor (2006)

A new high-affinity thyroid hormone antagonist 6 with druglike properties was designed and synthesized. The compound behaved as an antagonist in a cell transactivation assay, and in a first in vivo experiment in rats.
The Transporter Associated With Antigen Processing (TAP): Structural Integrity, Expression, Function, and Its Clinical Relevance (2001)

The transporter associated with antigen processing (TAP), a member of the family of ABC transporters, plays a crucial role in the processing and presentation of the major histocompatibility complex (MHC) class I restricted antigens. TAP transports peptides from the cytosol into the endoplasmic reticulum, thereby selecting peptides matching in length and sequence to respective MHC class I molecules. Upon loading on MHC class I molecules, the trimeric MHC class I/beta2-microglobulin/ peptide complex is then transported to the cell surface and presented to CD8+ cytotoxic T cells. Abnormalities in MHC class I surface expression have been found in a number of different malignancies, including tumors of distinct histology, viral infections, and autoimmune diseases, and therefore represent an important mechanism of malignant or virus-infected cells to escape proper immune response. In many cases, this downregulation has been attributed to impaired TAP expression, which could be due to structural alterations or dysregulation. This review summarizes the physiology and pathophysiology of TAP, thereby focusing on its function in immune responses and its role in human diseases.
N-Myc Downstream-Regulated Gene 4 ( NDRG4 ): A Candidate Tumor Suppressor Gene and Potential Biomarker for Colorectal Cancer (2009)

NDRG4 is a candidate tumor suppressor gene in colorectal cancer whose expression is frequently inactivated by promoter methylation. NDRG4 promoter methylation is a potential biomarker for the noninvasive detection of colorectal cancer in stool samples.
Inflammatory Cytokines Cause Coronary Arteriosclerosis-Like Changes and Alterations in the Smooth-Muscle Phenotypes in Pigs (1997)

We recently developed a porcine model in which chronic, local treatment with interleukin-1 beta (IL-1 beta) causes coronary arteriosclerosis-like changes and hyperconstrictive responses. This study was designed to examine whether or not other major inflammatory cytokines [tumor necrosis factor-alpha (TNF-alpha) and interleukin-1 alpha (IL-1 alpha) might also cause similar coronary responses and whether those responses are associated with alterations in the smooth-muscle phenotypes. A segment of the porcine coronary artery was aseptically wrapped with cotton mesh, absorbing IL-1 beta, TNF-alpha, and IL-1 alpha. Two weeks after the operation, coronary arteriography showed the development of mild stenotic lesions at the cytokine-treated sites, where hyperconstrictive responses were repeatedly induced by intracoronary serotonin or histamine. Histologically mild intimal thickening was noted at those cytokine-treated sites. Immunostaining and immunoblotting demonstrated that all three myosin heavy chain isoforms, SM1, SM2 (smooth-muscle type), and SMemb (nonmuscle type), were noted in the normal coronary segments, whereas in the segments treated with inflammatory cytokines, SM1 and SM2 were markedly reduced, and only SMemb was noted. These results indicate that inflammatory cytokines all have a similar ability to induce coronary arteriosclerosis-like changes and hyperconstrictive responses, which are associated with alterations in smooth-muscle phenotypes toward dedifferentiation.
Gangliosides as a Possible Receptor on the Bovine Erythrocytes for Theileria sergenti. (1995)

To elucidate whether or not gangliosides on the bovine erythrocytes serve as a receptor for Theileria sergenti merozoites, the reactivities of the T. sergenti piroplasms with gangliosides were studied by the liposome agglutination test. The parasites reacted weakly with I-active ganglioside containing N-acetylneuraminic acid (NeuAc) and strongly with I-active ganglioside containing N-glycolylneuraminic acid (NeuGc). However, none of the other gangliosides expressed on the bovine erythrocytes, such as GM3 (NeuAc), GM3 (NeuGc), sialosylparagloboside (SPG) (NeuAc), SPG (NeuGc), i-active ganglioside (NeuAc), and i-active ganglioside (NeuGc), were recognized. After infection with T. sergenti, furthermore, the content of I-active ganglioside (NeuAc) was less (p < 0.05), and I-active ganglioside (NeuGc) content was much less in the erythrocytes (p < 0.01), though the contents of other NeuAc- and NeuGc-containing gangliosides did not so vary with T. sergenti infection. These results suggest that the parasites recognize the I-active ganglioside as their receptor and bind preferentially to NeuGc-carrying I-active ganglioside rather than to NeuAc-type in the target cell membranes, and that the reduction of the contents of I-active gangliosides (NeuAc and NeuGc) on the erythrocytes was related to T. sergenti infection.
Trinal-wavelength-band WDM transmission over dispersion-shiftedfibre (1999)

Ultra-wideband wavelength division multiplexed transmission over a dispersion-shifted fibre utilising the S+-band (1470 nm band), M-band (1550 nm band), and L-band (1590 nm band) is demonstrated for the first time.
X-ray Structure of the FimC-FimH Chaperone-Adhesin Complex from Uropathogenic Escherichia coli (1999)

Type 1 pili—adhesive fibers expressed in most members of the Enterobacteriaceae family—mediate binding to mannose receptors on host cells through the FimH adhesin. Pilus biogenesis proceeds by way of the chaperone/usher pathway. The x-ray structure of the FimC-FimH chaperone-adhesin complex from uropathogenic Escherichia coli at 2.5 angstrom resolution reveals the basis for carbohydrate recognition and for pilus assembly. The carboxyl-terminal pilin domain of FimH has an immunoglobulin-like fold, except that the seventh strand is missing, leaving part of the hydrophobic core exposed. A donor strand complementation mechanism in which the chaperone donates a strand to complete the pilin domain explains the basis for both chaperone function and pilus biogenesis.
FOXP3+regulatory T cells as biomarkers in human malignancies (2008)

FOXP3 is a useful marker that can be used in routine clinical practise to provide both diagnostic and prognostic information in human malignancies. However, the methods and reagents used to detect FOXP3 can have a significant effect on the robustness of experimental findings and conclusions.