nils-herrmann/clean_scirepeval huggingface dataset:
The Eocene Big Timber stock, south-central Montana: Development of extensive compositional variation in an arc-related intrusion by side-wall crystallization and cumulate glomerocryst remixing

The Eocene Big Timber stock in the Crazy Mountains of south-central Montana is an elliptical, 8 by 13 km, compositionally and texturally diverse composite intrusion with a well-developed radial dike swarm. A sharp intrusive contact separates its two phases: the core of the intrusion is fine-grained quartz monzodiorite, and the volumetrically dominant remainder is composed of medium-grained diorite and gabbro. Differentiation-related major oxide variation within the stock is extensive and spatially nonsystematic. However, abundances of most trace elements were not strongly influenced by differentiation; late zircon and apatite fractionation caused moderate heavy and slight light rare earth element abundance depletions, respectively. Mineral compositions and assemblages indicate crystallization between ≈950 and 700 °C at a pressure of ≈0.8 kbar (3 km). Mixing models indicate that fractionation of varying amounts of plagioclase, orthopyroxene, clinopyroxene, magnesio-hastingsite, hornblende, biotite, titanite, apatite, and magnetite (the stock9s principal constituents, with quartz and potassium feldspar) and remixing of these minerals and residual liquids controlled compositional evolution in the reservoir. Crystals apparently nucleated at the reservoir wall while residual silicate liquid was displaced inward and remixed. Some crystals were plucked from the solidification front, as indicated by glomerocrysts present throughout the stock, and also remixed with residual liquid. Solidification of the reservoir represented by the stock involved heat loss to enclosing wall rock, side-wall crystallization, and subsequent, variably effective, crystal-liquid remixing. This process is an important variant of conventionally invoked models pertaining to solidification of intrusions and explains extensive, relatively nonsystematic compositional variation. The genesis of compositional evolution in other intrusions characterized by extensive, spatially nonsystematic variation may result from the important process documented herein. Compositional and geologic relationships are consistent with magma genesis related to subduction and magmatic-arc processes inboard from the western edge of the early Cenozoic North American plate. Arc magmatism in south-central Montana during Eocene time is consistent with models pertaining to early Cenozoic southward sweep and westward retreat of magmatism. Magmatism represented by the Big Timber stock provides significant new support for steepening subduction, westward retreat of the subduction hinge line, and development of an asthenospheric mantle wedge that fueled renewed magmatism beneath the western edge of the North American continent following early Cenozoic shallow subduction.

Field of study: Geology
Quadratic transformations of Macdonald and Koornwinder polynomials

When one expands a Schur function in terms of the irreducible characters of the
 symplectic (or orthogonal) group, the coefficient of the trivial character is 0 unless the
 indexing partition has an appropriate form. A number of q-analogues of this fact were
 conjectured in math.; the present paper proves most of those conjectures, as well
 as some new identities suggested by the proof technique. The proof involves showing that a
 nonsymmetric version of the relevant integral is annihilated by a suitable ideal of the
 affine Hecke algebra, and that any such annihilated functional satisfies the desired
 vanishing property. This does not, however, give rise to vanishing identities for the
 standard nonsymmetric Macdonald and Koornwinder polynomials; we discuss the required
 modification to these polynomials to support such results.

Field of study: Mathematics
The apgar in perspective.

The Apgar score is assigned to virtually every child born in a North American hospital. While it was originally proposed as a grading system for comparing the results of perinatal events, it has been used as a guide to resuscitation of the newborn, as well as an index of the infant's longer term morbidity. The Apgar score has undoubtedly focused attention on the neonate, but it is often improperly used as a statistical method and is not useful as a resuscitation guide or prognosticator. It should be viewed as a biostatistical tool, and used as such.

Field of study: Medicine
Volume Averaged Pressure Interactions for Dispersed Droplet Phase Modeling of Multiphase Flow

This study addresses cross-phase interactions and momentum exchange between dispersed (droplet) and carrier (air) phases of multiphase flow. Alternative formulations are developed for the volume averaged interfacial pressure and apparent mass forces. Algebraic source terms in the momentum equation can accommodate the interfacial shear stresses. Multiphase turbulent stresses in the carrier phase are modeled with a Boussinesq assumption. New interfacial pressure modeling in an Eulerian formulation with volume averaging is developed. Nomenclature ai = surface of the phase interface akw = surface of phase k in contact with the wall surface C D = drag coefficient Dd = droplet diameter g = gravity I = identity tensor jk = flux of the general scalar quantity ˙ mk = mass flux for the particular phase nk, n1, n2 = normal vector for the particular phase nkw = normal vector for the particular phase at the wall surface p = pressure pk = local pressure of phase k � pk� =v olume-averaged pressure of phase k � pki� =v olume-averaged interfacial pressure of phase k Rer = relative (droplet-air) Reynolds number S = surface ˆ S = source term V =v olume v = phase velocity [v, dispersed phase; va,

Field of study: Physics
Inhibition of fusicoccin‐stimulated K+/H+ transport in root tips from maize seedlings pretreated with Chlorsulfuron

Fusicoccin (FC)-stimulated K+ (86Rb) uptake and proton extrusion of maize (Zea mays) root apical segments were inhibited by pretreatment of 4-day-old seedlings with the herbicide Chlorsulfuron. In the range of Chlorsulfuron concentrations 0.01-10 mmol m−3, the percentage of inhibition was 15% at 0.01 mmol m−3 and progressively increased with Chlorsulfuron concentration up to 60% at 10 mmol m−3. At the maximum concentration tested (10 mmol m−3), the inhibition was evident after 1.5 h of pre-treatment. The binding of FC to microsomal fractions of root segments from Chlorsulfuron-pretreated seedlings was inhibited by 30%. It is suggested that Chlorsulfuron causes an alteration at the plasmalemma level involving the FC binding sites. The ineffectiveness of Chlorsulfuron in inhibiting FC-stimulaled K+ uptake when administered to excised segments, while inhibiting the enzyme acetolactate synthase, pointed out by Ray (1984) as the site of action of Chlorsulfuron in pea plants, suggests that the observed inhibition of K+ uptake and H+ extrusion is not induced by Chlorsulfuron inhibition of this enzyme. An alternative site of action of Chlorsulfuron is hypothesized in maize plants.

Field of study: Environmental science
Herbal prescription Chang'an II repairs intestinal mucosal barrier in rats with post-inflammation irritable bowel syndrome

The herbal prescription Chang'an II is derived from a classical TCM formula Tong-Xie-Yao-Fang for the treatment of liver-qi stagnation and spleen deficiency syndrome of irritable bowel syndrome (IBS). In this study we investigated the effects of Chang'an II on the intestinal mucosal immune barrier in a rat post-inflammation IBS (PI-IBS) model.A rat model of PI-IBS was established using a multi-stimulation paradigm including early postnatal sibling deprivation, bondage and intrarectal administration of TNBS. Four weeks after TNBS administration, the rats were treated with Chang'an II (2.85, 5.71 and 11.42 g·kg−1·d−1, ig) for 14 d. Intestinal sensitivity was assessed based on the abdominal withdrawal reflex (AWR) scores and fecal water content. Open field test and two-bottle sucrose intake test were used to evaluate the behavioral changes. CD4+ and CD8+ cells were counted and IL-1β and IL-4 levels were measured in intestinal mucosa. Transmission electron microscopy was used to evaluate ultrastructural changes of the intestinal mucosal barrier.PI-IBS model rats showed significantly increased AWR reactivity and fecal water content, and decreased locomotor activity and sucrose intake. Chang'an II treatment not only reduced AWR reactivity and fecal water content, but also suppressed the anxiety and depressive behaviors. Ultrastructural study revealed that the gut mucosal barrier function was severely damaged in PI-IBS model rats, whereas Chang'an II treatment relieved intestinal mucosal inflammation and repaired the gut mucosal barrier. Furthermore, PI-IBS model rats showed a significantly reduced CD4+/CD8+ cell ratio in lamina propria and submucosa, and increased IL-1β and reduced IL-4 expression in intestinal mucosa, whereas Chang'an II treatment reversed PI-IBS-induced changes in CD4+/CD8+ cell ratio and expression of IL-1β and IL-4.Conclusion:Chang'an II treatment protects the intestinal mucosa against PI-IBS through anti-inflammatory, immunomodulatory and anti-anxiety effects.

Field of study: Biology, Chemistry, Medicine
Magnetic fields and radiative feedback in the star formation process

Star formation is a complex process involving the interplay of many physical effects, including gravity, turbulent gas dynamics, magnetic fields and radiation. Our understanding of the process has improved substantially in recent years, primarily as a result of our increased ability to incorporate the relevant physics in numerical calculations of the star formation process. In this contribution we present an overview of our recent studies of star cluster formation in turbulent, magnetised clouds using self‐gravitating radiation‐magnetohydrodynamicscalculations[1, 2]. Our incorporation of magnetic fields and radiative transfer into the Smoothed Particle Hydrodynamics method are discussed. We highlight how magnetic fields and radiative heating of the gas around newborn stars can solve several of the key puzzles in star formation, including an explanation for why star formation is such a slow and inefficient process. However, the presence of magnetic fields at observed strengths in collapsing protostellar co...

Field of study: Physics
Progress and design challenges for high-spin molecules

In this short critical review, selected examples of current (within the past two years) synthetic efforts toward the construction of high-spin molecules are explored, including the use of metal complexes containing stable free radical ligands, lanthanide or actinide complexes, and other coordination clusters, or a completely different approach, taking advantage of non-Heisenberg exchange in fully delocalized mixed-valence complexes (spin-dependent delocalization, SDD, or double exchange). A description of reported work in this regard is followed by a brief general discussion that highlights what the future may hold for high-spin molecule design.

Field of study: Chemistry
Fire history and human activities during the last 3300 cal yr BP in Spain's Central Pyrenees: The case of the Estany de Burg

The study of macroscopic charcoal particles from peat bogs has led to a better understanding of climate, vegetation and fire history, and human impacts. To determine the relationship between human activities and the role of fire events in vegetation change during the last 3300 cal yr BP, we present the results of a multi-proxy approach based on the analysis of sediment characteristics, sedimentary charcoal, organic matter and pollen, as well as historical sources. This multi-proxy research permits high resolution palaeoenvironmental and fire history reconstruction of a mountain area located in the southern central Pyrenees (Spain). In the Pyrenees, fire is typically attributed to human activities since the beginning of the Bronze Age and may be correlated with slash-and-burn cultivation, metallurgy and pasturing activities. The data indicate a good linkage between high fire signals and Poaceae and Cerealia pollen, which reveals the impact of agro-pastoral practices. This study also shows two periods, 2900–2650 cal yr BP and 1850–1550 cal yr BP, for which higher frequencies of fire occurred, suggested by high arboreal pollen (AP) concentrations, and confirming the need for arboreal biomass to sustain fires. From the beginning of the Middle Ages, it seems that a change occurred in the anthropogenic use of fire, from a tool for agro-pastoral forest clearance to a means of maintaining open spaces.

Field of study: Environmental science, Geography
Creating Clinical Cohorts: Challenges Encountered in Two Canadian Provinces

In 2013, the Living with HIV (LHIV) Innovation team established clinical cohorts of people living with HIV in Manitoba and Newfoundland and Labrador, and they linked the data to provincial health administrative databases. Access to these data enabled researchers to conduct studies across provincial borders; contribute to a national dialogue on HIV health system performance; and give recommendations for evidence-based healthcare, health policy and public health. However, research funding is episodic; maintaining cohorts requires stable funding. We support the establishment of a cross-jurisdictional approach to facilitate streamlined data collection and linkage without interruption and to allow for meaningful analysis in order to inform national policies.

Field of study: Medicine, Political science
Strain dependence of photoluminescence and circular dichroism in transition metal dichalcogenides: a k · p analysis.

Within a two-band k · p method we analyze different types of strain for the K valley optical characteristics of a freestanding monolayer MoS2, MoSe2, WS2 and WSe2. We predict that circular polarization selectivity for energies above the direct transition onset deteriorates/improves by tensile/compressive strain. Wide range of available strained-sample photoluminescence data can be reasonably reproduced by this simple bandstructure combined with accounting for excitons at a variational level. According to this model strain impacts optoelectronic properties through its hydrostatic component, whereas the shear strain only causes a rigid wavevector shift of the valley. Furthermore, under the stress loading of flexible substrates the presence of Poisson's effect or the lack of it are examined individually for the reported measurements.

Field of study: Physics
Investigating the impact of early alliance on predicting subjective change at posttreatment: An evidence-based souvenir of overlooked clinical perspectives.

Despite meta-analytic evidence showing that alliance is associated with posttreatment outcomes, several open questions still remain regarding this relation. First, we investigate whether (or not) the progressive aggregation of early alliance assessments increases the alliance-outcome relation across 2 distress and 4 subjective change measures. Second, we investigate whether the alliance-outcome relations using subjective change measures are independent from intake distress and early response. Third, we explore whether the progressive aggregation of the alliance on outcomes becomes particularly apparent between or within therapists again investigating these six outcome measures. Data were drawn from N = 430 patients treated by N = 151 therapists. Patient ratings of early alliance were assessed after Session 1 to 6. For outcome, 2 commonly used distress measures at intake and at posttreatment and 4 measures of retrospectively evaluated subjective change at posttreatment are integrated into a series of multilevel models. The proportion of variance in outcome predicted by alliance scores varied considerably depending on the number of alliance assessments which were aggregated, as well as on the type of outcome assessment (distress vs. subjective change measures) explaining up to 15% of outcome variance. Improvements in the strength of prediction with aggregated alliance assessments were most pronounced for subjective change measures for between-therapist components of the alliance. Examining associations with subjective change measures provides an additional, patient-centered perspective of the relation between early alliance and treatment outcomes.

Field of study: Psychology
SU-E-T-255: Development of a Michigan Quality Assurance (MQA) Database for Clinical Machine Operations

A unified database system was developed to allow accumulation, review and analysis of quality assurance (QA) data for measurement, treatment, imaging and simulation equipment in our department. Recording these data in a database allows a unified and structured approach to review and analysis of data gathered using commercial database tools.  A clinical database was developed to track records of quality assurance operations on linear accelerators, a computed tomography (CT) scanner, high dose rate (HDR) afterloader and imaging systems such as on-board imaging (OBI) and Calypso in our department. The database was developed using Microsoft Access database and visual basic for applications (VBA) programming interface. Separate modules were written for accumulation, review and analysis of daily, monthly and annual QA data. All modules were designed to use structured query language (SQL) as the basis of data accumulation and review. The SQL strings are dynamically re-written at run time. The database also features embedded documentation, storage of documents produced during QA activities and the ability to annotate all data within the database. Tests are defined in a set of tables that define test type, specific value, and schedule.  Daily, Monthly and Annual QA data has been taken in parallel with established procedures to test MQA. The database has been used to aggregate data across machines to examine the consistency of machine parameters and operations within the clinic for several months.  The MQA application has been developed as an interface to a commercially available SQL engine (JET 5.0) and a standard database back-end. The MQA system has been used for several months for routine data collection.. The system is robust, relatively simple to extend and can be migrated to a commercial SQL server.

Field of study: Medicine, Physics
Up-regulation of c-jun mRNA in cardiac myocytes requires the extracellular signal-regulated kinase cascade, but c-Jun N-terminal kinases are required for efficient up-regulation of c-Jun protein.

Cardiac hypertrophy, an important adaptational response, is associated with up-regulation of the immediate early gene, c- jun, which encodes the c-Jun transcription factor. c-Jun may feed back to up-regulate its own transcription and, since the c-Jun N-terminal kinase (JNK) family of mitogen-activated protein kinases (MAPKs) phosphorylate c-Jun(Ser-63/73) to increase its transactivating activity, JNKs are thought to be the principal factors involved in c- jun up-regulation. Hypertrophy in primary cultures of cardiac myocytes is induced by endothelin-1, phenylephrine or PMA, probably through activation of one or more of the MAPK family. These three agonists increased c- jun mRNA with the rank order of potency of PMA approximately endothelin-1>phenylephrine. Up-regulation of c- jun mRNA by endothelin-1 was attenuated by inhibitors of protein kinase C (GF109203X) and the extracellular signal-regulated kinase (ERK) cascade (PD98059 or U0126), but not by inhibitors of the JNK (SP600125) or p38-MAPK (SB203580) cascades. Hyperosmotic shock (0.5 M sorbitol) powerfully activates JNKs, but did not increase c- jun mRNA. These data suggest that ERKs, rather than JNKs, are required for c- jun up-regulation. However, endothelin-1 and phenylephrine induced greater up-regulation of c-Jun protein than PMA and phosphorylation of c-Jun(Ser-63/73) correlated with the level of c-Jun protein. Up-regulation of c-Jun protein by endothelin-1 was attenuated by inhibitors of protein kinase C and the ERK cascade, probably correlating with a primary input of ERKs into transcription. In addition, SP600125 inhibited the phosphorylation of c-Jun(Ser-63/73), attenuated the increase in c-Jun protein induced by endothelin-1 and increased the rate of c-Jun degradation. Thus whereas ERKs are the principal MAPKs required for c- jun transcription, JNKs are necessary to stabilize c-Jun for efficient up-regulation of the protein.

Field of study: Biology, Computer science
Absence of genomes of DNA tumor viruses and expression of oncogenes and growth factors in two esophageal carcinoma cell lines of Chinese origin.

: To study the oncogenesis of human esophageal carcinoma, the presence of DNA sequences homologous to several DNA tumor viruses and the expression of oncogenes and growth factor genes were examined in two esophageal carcinoma cell lines of Chinese origin, CE48T/VGH and CE81T/VGH. Southern blot analyses failed to detect sequences homologous to hepatitis B virus (HBV), Epstein-Barr virus (EBV), herpes simplex virus type 2 (HSV-2), cytomegalovirus (CMV) or human papilloma virus (HPV) genomes. Northern blot analyses revealed that c-myc, c-src, c-H-ras, c-abl, c-sis, and p53 genes were expressed. In addition, transcripts of transforming growth factor alpha (TGF alpha), TGF beta, and platelet derived growth factor A (PDGF A) genes were detected. These studies suggest that DNA tumor viruses may not be involved in the carcinogenesis of esophageal carcinoma. However, cooperation among different oncogenes and the production of growth factors may play an important role in that carcinogenesis.

Field of study: Biology
Presynaptic N-methyl-D-aspartate receptor activation inhibits neurotransmitter release through nitric oxide formation in rat hippocampal nerve terminals.

In brain synapses, nitric oxide synthase activation is coupled to N-methyl-D-aspartate-mediated calcium entry at postsynaptic densities through regulatory protein complexes, however a presynaptic equivalent to this signaling mechanism has not yet been identified. Novel evidence indicates that N-methyl-D-aspartate glutamate receptors may play a presynaptic role in synaptic plasticity. Thus, we investigated whether ionotropic glutamate receptor activation in isolated nerve terminals regulates neurotransmitter release, through nitric oxide formation. N-Methyl-D-aspartate dose-dependently inhibited the release of glutamate evoked by 4-aminopyridine (IC(50)=155 microM), and this effect was reversed by the N-methyl-D-aspartate receptor antagonist D-(-)-2-amino-5-phosphopentanoic acid and by the nitric oxide synthase inhibitor, L-nitroarginine, in synaptosomes isolated from whole hippocampus, CA3 and CA1 areas, but not from the dentate gyrus. In contrast, the 4-aminopyridine-evoked release of glutamate was reduced by alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid or kainate by a nitric oxide-independent mechanism, since it was not blocked by L-nitroarginine, and N-methyl-D-aspartate, but not alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid or kainate, significantly increased cGMP formation. Presynaptic N-methyl-D-aspartate receptors are probably involved since removing extracellular nitric oxide with the scavenger 2-(4-carboxyphenyl)-4,4,5,5-tetramethylimidazoline-1-oxyl 3-oxide did not block the depression of glutamate release by N-methyl-D-aspartate. The mechanism underlying this depression involves the inhibition of synaptic vesicle exocytosis since N-methyl-D-aspartate/nitric oxide inhibited the release of [3H]glutamate and [14C]GABA evoked by hypertonic sucrose. The results also suggest that presynaptic N-methyl-D-aspartate receptors may function as auto- and heteroreceptors.

Field of study: Biology