gebhart/patrepeval huggingface dataset:
Priority-driven Ray Tracing (1997)

A typical ray tracing algorithm traces a ray through each screen-pixel and spawns secondary rays at ray–object intersection points. Unlike traditional ray tracers which follow these rays recursively, we assign a priority value to each newly spawned ray and insert it into a priority queue. The priority assigned to each ray can be based on a variety of criteria, some of which we explore here. The next ray we trace is always the one with the highest priority in the queue. Occasionally, we trigger display updates when a checkpoint or predefined threshold is reached, providing intermediate images for review and evaluation. Classical ray tracers, once given the rendering specifications, are not controllable by the user. The priority-driven ray tracing, on the other hand, provides the user with a mechanism to steer the rendering and deliver intermediate images amid processing. This paper describes the illumination model of the non-recursive priority-driven ray tracer and evaluates its memory and time requirements. We show that although worst-case memory requirements can be overwhelming, in practice, our method is both useful and feasible. © 1997 by John Wiley & Sons, Ltd.
Teratocarcinomas and Embryonic Stem Cells: A Practical Approach (1988)

ABSTRACT Thirty years ago teratocarcinomas were little more than pathological oddities, of passing interest to some oncologists but quite unknown to most biologists. Their emergence from obscurity was largely due to the work of Roy Stevens and Barry Pierce who, between them, gradually impressed on their audiences the special features of these obscure tumours. At a gross level, there was something immediately fascinating in the monstrous form of some teratocarcinomas, the jumble of hair and teeth, skin and brain tissue, intestine and skeletal elements all chaotically cohabiting in a single tumour. But it was the ‘life cycle’ of teratocarcinomas that was especially intriguing, particularly in the context of the major advances in manipulating early mammalian embryos which occurred in the 1960s.
CD40 cross-linking inhibits specific antibody production by human B cells (1995)

Ligation of CD40 on B cells is a co-stimulatory signal for proliferation, antibody secretion, heavy chain switching and rescue from apoptosis after somatic mutation in the germinal centre. The importance of these manifold responses to CD40 activation for humoral immunity is exemplified by the inability of boys with X-linked hyper IgM syndrome to make IgG, IgE or IgA due to a mutation in in the gene coding for CD40 ligand (CD40L). In the present study, we have investigated the effect of CD40 ligation on specific antibody production by human B cells to influenza virus. The antibody response was T cell dependent and specific for the strain of influenza virus used as antigen. Addition of either CD40 mAb or recombinant trimeric CD40L profoundly inhibited specific antibody production. Antibody production by unseparated tonsillar mononuclear cells and by T-depleted B cells stimulated with antigen in the presence of T cell replacing factor were equally inhibited with CD40 antibody showing that the effect was due to ligation of CD40 on B cells rather than blocking of T cell help. The specific antibody detected in these experiments was mostly IgG with little or no IgM and was obtained from surface IgM B cells consistent with activation of a secondary (memory) response. Co-stimulation of tonsillar B cells with CD40 antibody and anti-IgG induced proliferation of IgG+ B cells. These results suggest that CD40 ligation can inhibit specific antibody responses and stimulate proliferation in the same IgG+ (memory) B cell subpopulation. Addition of CD40 antibody during the first 24-48 h of the response was required for inhibition, suggesting that the effect was on early B cell activation and/or proliferation required for antibody production. There was no correlation, however, between the ability of CD40 mAb to stimulate proliferation and inhibit antibody production. We suggest that early activation of CD40 in the specific antibody response inhibits the formation of plasma cells and promotes instead the generation of memory cells.
CTLA4 blockade with ipilimumab to treat relapse of malignancy after allogeneic hematopoietic cell transplantation (2008)

Relapse of malignancy after allogeneic hematopoietic cell transplantation (allo-HCT) remains a therapeutic challenge. Blockade of the CTLA4 molecule can effectively augment antitumor immunity mediated by autologous effector T cells. We have assessed the safety and preliminary efficacy of a neutralizing, human anti-CTLA4 monoclonal antibody, ipilimumab, in stimulating the graft-versus-malignancy (GVM) effect after allo-HCT. Twenty-nine patients with malignancies that were recurrent or progressive after allo-HCT, received ipilimumab as a single infusion at dose cohorts between 0.1 and 3.0 mg/kg. Dose-limiting toxicity was not encountered, and ipilimumab did not induce graft-versus-host disease (GVHD) or graft rejection. Organ-specific immune adverse events (IAE) were seen in 4 patients (grade 3 arthritis, grade 2 hyperthyroidism, recurrent grade 4 pneumonitis). Three patients with lymphoid malignancy developed objective disease responses following ipilimumab: complete remission (CR) in 2 patients with Hodgkin disease and partial remission (PR) in a patient with refractory mantle cell lymphoma. At the 3.0 mg/kg dose, active serum concentrations of ipilimumab were maintained for more than 30 days after a single infusion. Ipilimumab, as administered in this clinical trial, does not induce or exacerbate clinical GVHD, but may cause organ-specific IAE and regression of malignancy. This study is registered at (http://clinicaltrials.gov) under NCI protocol ID P6082.
Predominance of Serotype-Specific Mucosal Antibody Response in Shigella flexneri -Infected Humans Living in an Area of Endemicity (2001)

The mucosal humoral immune response elicited following Shigella flexneri infection in patients living in Antananarivo districts (Madagascar Island) was evaluated by measuring the gut-derived, circulating immunoglobulin A (IgA) antibody-secreting cells (ASC) specific for the major bacterial antigen lipopolysaccharide (LPS). Fifty, 34, 11, and 5% of the S. flexneri-positive patients were infected with serotypes 2a, 1a, 4a, and 3a, respectively. The total number of IgA ASC in infected patients increased significantly, compared to the number in healthy controls, early after the onset of disease. The number of anti-homologous LPS IgA ASC varied among individuals and peaked between days 5 and 10 after the onset of the disease. In the S. flexneri 1a- and 2a-infected patients, the level of IgA ASC cross-reactivity to heterologous S. flexneri serotypes was weak. These data indicate that S. flexneri 2a and 1a are the predominant strains responsible for shigellosis in this area of endemicity and that the anti-LPS antibody response following natural infection is mainly directed against serotype-specific determinants.
Mastoparan-Stimulated Prolactin Secretion in Rat Pituitary GH3 Cells Involves Activation of Gq/11 Proteins (1997)

Mastoparan has been reported to induce a wide variety of cellular actions by activating GTP-binding proteins (G proteins) in various cells. Here, we demonstrate that mastoparan is able to stimulate the secretion of PRL from rat anterior pituitary tumor GH3 cells in dose- and time-dependent manners. Mastoparan had no effect on the accumulation of intracellular cAMP; however, it induced a rapid increase in the intracellular Ca2+ concentration in GH3 cells. Extracellular Ca2+ was required for mastoparan-induced PRL secretion, which was inhibited by nifedipine, an l-type Ca2+ channel blocker. Incubation of mastoparan with myo-[3H]inositol-labeled GH3 cells also resulted in the increased formation of inositol phosphates (InsPs) compared with control cells. Neomycin sulfate and U73122, both phospholipase C inhibitors, suppressed mastoparan-induced PRL secretion. Guanosine 5′-[β-thio]diphosphate (GDPβS) encapsulated in GH3 cells by reversible electropermeabilization suppressed the response to mastoparan. However, pretreatment with pertussis toxin had no effect on the stimulation of PRL secretion by mastoparan, and both Mas7 (a highly active analogue of mastoparan) and Mas17 (an inactive analogue) enhanced the secretion of PRL to a similar level to that of mastoparan-induced GH3 cells. In contrast, the substance P-related peptide GPant-2A, a Gq antagonist, inhibited mastoparan-induced PRL release, whereas GPant-2, a Gi/o antagonist, did not in electropermeabilized GH3 cells. Moreover, a specific Gq/11 antibody against the carboxyl terminus of the Gq/11 α-subunit blocked the stimulatory effect of mastoparan on secretion and mastoparan-stimulated InsPs production in digitonin-permeabilized GH3 cells. These results indicate that mastoparan induces the Ca2+-regulated secretion of PRL from GH3 cells by activating Gq/11 and the phospholipase C pathway.
Electron-beam-induced current study of grain boundaries in multicrystalline silicon (2004)

The effects of grain boundary (GB) character and impurity contamination on the recombination activity of grain boundaries (GBs) in multicrystalline silicon (mc-Si) were systematically studied through an electron-beam-induced current (EBIC) technique. First, clean GBs of various characters were checked at 300 and 100K. The EBIC contrasts of these GBs were in the same range of 0%–2% at 300K and 2%–4% at 100K, suggesting that the recombination activity of clean GBs is weak and the GB character has no significant effect on it. Second, the effect of impurities was studied by comparing the EBIC contrasts of the same type of the GBs in mc-Si with different Fe contamination levels. The recombination activity of GBs became stronger as the contamination level rose. The variation in the recombination activity related to the GB character was also observed in these specimens. The random or high-Σ GBs showed a stronger EBIC contrast than the low-Σ GBs. Moreover, we found that the EBIC contrast was not uniform along one Σ3 GB. In a clean mc-Si, the variation in the EBIC contrast of different parts of the Σ3 GB was 1% at 300K, whereas it was more than 10% in the contaminated mc-Si. This indicates that not only the GB character but also the GB plane would affect the recombination activity of GBs. These results suggest that the recombination activity of GBs is principally determined by the gettering ability of GBs. Specifically, that random GBs may have the strongest gettering ability, whereas Σ3 {111} has the weakest.
Labelled compounds of interest as antitumour agents. Part III (1). Synthesis of 2H and 3H isotopomers of etanidazole (SR 2508) (1990)

Abstract Chemically and radiochemically efficient syntheses of N‐(2‐hydroxy‐2‐[ 2 H]ethyl)‐2‐(2‐nitroimidazol‐l‐yl)acetamide and N‐(2‐hydroxy‐2‐[ 3 H]ethyl)‐2‐(2‐nitroimidazol‐1‐yl)acetamide, isotopomers of the hypoxic cell radiosensitiser etanidazole (SR 2508), have been achieved by reduction of the corresponding aldehyde with isotopically labelled sodium borohydride. The primary kinetic deuterium isotope effect for the process is 1.5.
Portable absolute orientation estimation device with wireless network under accelerated situation (2004)

In this paper, we develop an absolute orientation estimation device equipped with a wireless network. Accelerometers and magnetometers are used to measure the gravity and the geomagnetic field respectively. Gyroscope sensors are used to measure the local angular velocity. The geomagnetic field varies according to the environment. Therefore the device can obtain the information about the magnetic field through the wireless network. The orientation estimation task can be also requested to the other computers with the wireless network. By integrating the measured gravity and geomagnetic field with the local angular velocity using Sigma-Points Kalman Filters (SPKFs), the stability and the robustness of estimating the absolute orientation are improved over either sensor alone. We also propose an estimation method which excludes the effect of motion and magnetic disturbances for the accurate estimation.
Identification of Phosphopeptide Ligands for the Src‐Homology 2 (SH2) Domain of Grb2 by Phage Display (1997)

We report here on the identification of phosphopetide ligands which interact with the Src-homology 2 (SH2) domain of the adapter protein Grb2 by screening a random peptide library established on phage. Phage were phosphorylated in vitro at an invariant tyrosine residue by a mixture of phosphotyrosine kinases c-Src, Blk and Syk. Selection of binding motifs was carried out by interaction of the library with the recombinant SH2 domain of Grb2 expressed as a glutathione S-transferase (GST) fusion protein. Several subsequent cycles of selection led to the enrichment of phage which bound to the GST-Grb2 SH2 domain only when previously phosphorylated. Sequence analysis revealed that all of the selected phage displayed peptides with the consensus motif Y*M/ENW (Y* denotes phosphotyrosine). One of these peptides, bearing the Y*ENW motif, bound the Grb2 SH2 domain with a threefold higher affinity than the peptide motif Y*VNV derived from the natural ligand Shc. Thus, phage display can be employed to rapidly identify high affinity ligands to SH2 domains.
Partitioning of Fish and Insect Antifreeze Proteins into Ice Suggests They Bind with Comparable Affinity (2003)

Antifreeze proteins (AFPs) inhibit the growth of ice by binding to the surface of ice crystals, preventing the addition of water molecules to cause a local depression of the freezing point. AFPs from insects are much more effective at depressing the freezing point than fish AFPs. Here, we have investigated the possibility that insect AFPs bind more avidly to ice than fish AFPs. Because it is not possible to directly measure the affinity of an AFP for ice, we have assessed binding indirectly by examining the partitioning of proteins into a slowly growing ice hemisphere. AFP molecules adsorbed to the surface and became incorporated into the ice as they were overgrown. Solutes, including non-AFPs, were very efficiently excluded from ice, whereas AFPs became incorporated into ice at a concentration roughly equal to that of the original solution, and this was independent of the AFP concentration in the range (submillimolar) tested. Despite their >10-fold difference in antifreeze activity, fish and insect AFPs partitioned into ice to a similar degree, suggesting that insect AFPs do not bind to ice with appreciably higher affinity. Additionally, we have demonstrated that steric mutations on the ice binding surface that decrease the antifreeze activity of an AFP also reduce its inclusion into ice, supporting the validity of using partitioning measurements to assess a protein's affinity for ice.
Prevention of cachexia-like syndrome development and reduction of tumor progression in inhibin-deficient mice following administration of a chimeric activin receptor type II-murine Fc protein (2007)

Inhibin is a secreted tumor suppressor, and inhibin alpha null mice develop gonadal sex cord-stromal tumors with 100% penetrance at an early age. Inhibin-deficient mice die of a severe wasting syndrome due to increased activin signaling through activin receptor type II. The current study was designed to assess the in vivo effects of an activin antagonist, a chimeric activin receptor type II fused to the Fc region of a murine IgG2a (ActRII-mFc), administered transiently to the inhibin-deficient mice. Results showed that the severe weight loss was prevented in the ActRII-mFc-treated mice, FSH levels were reduced, and an extended life span was observed for these mice compared with phosphate-buffered saline-treated controls. Although ActRII-mFc treatment did not seem to prevent the formation of gonadal tumors, tumors were smaller in the majority of experimentally treated mice and were characterized by the presence of variable numbers and sizes of cysts in contrast to the solid hemorrhagic tumors that typically developed in the controls. Moreover, the ActRII-mFc-treated mice were less anemic, and their livers and stomachs were histologically normal. In summary, this study demonstrated that in vivo administration of the activin antagonist, ActRII-mFc, not only prevents the cachexia-like symptoms in the inhibin-deficient mouse model, but also reduces tumor progression. These results support an essential role of activins in the cachexia-like syndrome development and implicate activins as growth-promoting factors in gonadal tumor progression. The current findings have potential implications in the design of new drugs or strategies for the treatment of ovarian and testicular tumors and other conditions where ligands signal through ActRII.
Heat Shock Protein 90 Is a Rational Molecular Target in Breast Cancer (2002)

Heat shock protein 90 is a molecular chaperone whose association is required for stability and function of multiple mutated, chimeric, and over-expressed signaling proteins that promote cancer cell growth and/or survival. Hsp90 client proteins important in breast cancer include the estrogen receptor, the serine-threonine kinases Raf-1 and Akt, the receptor tyrosine kinase ErbB2/Neu, and the hypoxia inducible transcription factor HIF-1alpha. Hsp90 small molecule inhibitors, by interacting specifically with a single molecular target, thus promote the destabilization and eventual degradation of multiple cancer cell survival and growth promoting proteins, and these inhibitors have shown promising anti-tumor activity in preclinical breast cancer model systems. One Hsp90 inhibitor, 17-AAG, is currently in Phase I clinical trial. Because of their unique ability to inhibit multiple survival pathways utilized by cancer cells, combination of Hsp90 inhibitors with standard chemotherapeutic agents may dramatically increase in vivo efficacy.
Conquering the Meningococcus (2007)

Since the first outbreaks of meningococcal meningitis were first described in Geneva in 1804 and in New England in 1806, and since the discovery of the causative agent by Weichselbaum in 1887 and the beginning of epidemics of meningococcal meningitis in the sub-Saharan Africa approximately 100 years ago, Neisseria meningitidis has been recognized as the cause worldwide of epidemic meningitis and meningococcemia. The massive epidemic outbreaks in sub-Saharan Africa in the 1990's, the emergence since 1995 of serogroups Y, W-135 and X and the prolonged outbreak of serogroup B meningococcal disease in New Zealand over the last decade serve to remind us of the continued potential of the meningococcus to cause global morbidity and mortality. This report reviews new discoveries impacting prevention and future prospects for conquering the meningococcus as a human pathogen.
Corrolazines: New Frontiers in High-Valent Metalloporphyrinoid Stability and Reactivity (2007)

The activation of dioxygen and its analogues, such as hydrogen peroxide, by metalloporphyrins leads to the generation of high-valent metal-oxo species. This process is critically important to heme-catalyzed reactions, such as for cytochrome P450, and synthetic porphyrin-catalyzed oxidations. We have synthesized a new ring-contracted porphyrinoid system called a corrolazine that is designed to stabilize high oxidation states, including high-valent metal-oxo species. The corrolazine ligand stabilizes manganese(V) terminal oxo and terminal imido complexes for isolation, both of which are only transiently observed with normal porphyrin macrocycles. Examination of both oxygen atom transfer and hydrogen atom abstraction reactions for the Mn(V)-oxo complex has led to a number of mechanistic insights regarding these transformations. The activation of H 2O 2 to give the Mn(V)-oxo complex exhibits some dramatic and unexpected axial ligand effects that call into question the normal role of axial ligands in O-O bond cleavage pathways.
Lineage tracing in a data warehousing system (2002)

Some commercial data warehousing systems support schema-level lineage tracing, or provide specialized drill-down and/or drill-through facilities for multi-dimensional warehouse views. Our lineage tracing system supports more fine-grained instance-level lineage tracing for arbitrarily complex relational views, including aggregation. At view definition time, our system automatically generates lineage tracing procedures and supporting auxiliary views. At lineage tracing time, the system applies the tracing procedures to the source tables and/or auxiliary views to obtain the lineage results and to illustrate the specific view data derivation process.
Hypocrisy: What counts? (2012)

Hypocrisy is a multi-faceted concept that has been studied empirically by psychologists and discussed logically by philosophers. In this study, we pose various behavioral scenarios to research participants and ask them to indicate whether the actor in the scenario behaved hypocritically. We assess many of the components that have been considered to be necessary for hypocrisy (e.g., the intent to deceive, self-deception), factors that may or may not be distinguished from hypocrisy (e.g., weakness of will), and factors that may moderate hypocrisy (e.g., the degree of discrepancy between the attitude and behavior, whether the attitude is stated publicly, and the nature and severity of the behavioral consequences). Our findings indicate that lay conceptions of hypocrisy are often at odds with philosophical speculation. We argue that a complete understanding of the criteria for hypocrisy requires consideration of how ordinary people construe the concept. In contrast to some concepts (e.g., physical causation), for which lay conceptions, while interesting, are largely irrelevant, hypocrisy is an essential component of social judgment. One could argue, therefore, that folk wisdom is the ultimate arbiter of what hypocrisy entails. We note limitations of our methodology and suggest avenues for future research.
Longitudinal Prevalence of Major Eye Diseases (2003)

The clinical diagnosis of major chronic eye diseases associated with aging increased dramatically in a longitudinal sample. At the end of 9 years, nearly half of the surviving Medicare beneficiaries had at least 1 of these diseases.
Managing health information in New Zealand: An analysis of the health information privacy principles (1999)

The New Zealand Health Information Service has recently established a national health register. At the heart of this development are three national databases. These applications and their functions are presented. Other initiatives currently being explored are also discussed. The paper contends that these initiatives under the guise of advancing the nation's health may instead be infringing the privacy of the nation's citizens. An analysis of New Zealand's privacy legislation to the development of such a centralized health system is detailed. The paper concludes by considering the possibility of hidden agendas despite the provisions of the nation's privacy rules.
Using Elastomeric Membranes as Dry Resists and for Dry Lift-Off (1999)

Elastomeric membranes that contained regular arrays of well-defined holes were formed by spin-coating a prepolymer onto a photolithographically defined master. These membranes were used as dry resists or as masks in dry lift-off to produce simple features as small as 5 μm on both planar and nonplanar surfaces. These procedures were “dry” because the membranes conformed and sealed reversibly to surfaces: no solvent was required either to deposit the membrane or to remove it from the substrate. A variety of materials, some of which would be difficult to pattern using conventional methods, were patterned using this technique. These materials included metals, sol−gels, hydrogels, biological macromolecules, and organometallic molecules. The membranes were used in sequential, dry-lift off steps to produce structures with greater complexity than those generated with a single membrane.