bluuebunny/crossref_metadata_2025_split huggingface dataset:
Aromatase expression in human peripheral blood leucocytes (PBLs) and in various tissues in primates: studies in elderly humans and cynomolgus monkeys
Authors: Pignatti Elisa , Casarini Livio , Scaltriti Sara , Wistuba Joachim , Schlatt Stefan , Rossi Alessandra , Lachhab Asmaa , Taliani Erica , Carani Cesare , Simoni Manuela 
Published: September 2012

AbstractBackgroundPrevious analysis of aromatase gene and protein expression in peripheral blood leucocytes (PBLs), studied in children and adults, was extended to elderly subjects. In addition, we assessed whether aromatase expression in PBLs could be used as a parameter of aromatase expression in other tissues, using the cynomolgus monkey as model.MethodsReal‐time PCR analysis of aromatase gene expression and protein evaluation by Western blot was performed in PBLs of human elderly subjects and in various tissues from cynomolgus monkeys.ResultsNo gender‐related difference in CYP19A1 mRNA and protein expression in PBLs from human elderly women and men was found. In elderly male cynomolgus monkeys, CYP19A1 mRNA and protein were expressed in all cells and tissues analysed, with the lowest levels in PBLs but no clear‐cut correlation with other tissues.ConclusionsAromatase expression in PBLs in elderly human subjects is not gender‐related and cannot be a surrogate of aromatase expression for other tissues.
EVALUATING MACROECONOMIC FORECASTS: A CONCISE REVIEW OF SOME RECENT DEVELOPMENTS
Authors: Franses Philip Hans , McAleer Michael , Legerstee Rianne 
Published: September 2012

AbstractMacroeconomic forecasts are frequently produced, widely published, intensively discussed, and comprehensively used. The formal evaluation of such forecasts has a long research history. Recently, a new angle to the evaluation of forecasts has been addressed, and in this review we analyze some recent developments from that perspective. The literature on forecast evaluation predominantly assumes that macroeconomic forecasts are generated from econometric models. In practice, however, most macroeconomic forecasts, such as those from the IMF, World Bank, OECD, Federal Reserve Board, Federal Open Market Committee (FOMC), and the ECB, are typically based on econometric model forecasts jointly with human intuition. This seemingly inevitable combination renders most of these forecasts biased and, as such, their evaluation becomes nonstandard. In this review, we consider the evaluation of two forecasts in which: (i) the two forecasts are generated from two distinct econometric models; (ii) one forecast is generated from an econometric model and the other is obtained as a combination of a model and intuition; and (iii) the two forecasts are generated from two distinct (but unknown) combinations of different models and intuition. It is shown that alternative tools are needed to compare and evaluate the forecasts in each of these three situations. These alternative techniques are illustrated by comparing the forecasts from the (econometric) Staff of the Federal Reserve Board and the FOMC on inflation, unemployment, and real GDP growth. It is shown that the FOMC does not forecast significantly better than the Staff, and that the intuition of the FOMC does not add significantly in forecasting the actual values of the economic fundamentals. This would seem to belie the purported expertise of the FOMC.
Tooth eruption: altered gene expression in the dental follicle of patients with cleidocranial dysplasia
Authors: Dorotheou D. , Gkantidis N. , Karamolegkou M. , Kalyvas D. , Kiliaridis S. , Kitraki E. 
Published: September 2012

Dorotheou D., Gkantidis N., Karamolegkou M., Kalyvas D., Kiliaridis S., Kitraki E.  Tooth eruption: altered gene expression in the dental follicle of patients with cleidocranial dysplasia  Orthod Craniofac Res 2013; 16:20–27. © 2012 John Wiley & Sons A/SStructured AbstractObjectives –  The dental follicle plays an important role in tooth eruption by providing key regulators of osteogenesis and bone resorption. Patients with cleidocranial dysplasia (CCD) exhibit delayed tooth eruption in combination with increased bone density in the maxilla and mandible, suggesting disturbances in bone remodeling. The aim of this study was to determine the expression of genes relevant for tooth eruption and bone remodeling in the dental follicles of patients with CCD and normal subjects.Material and Methods –  Thirteen dental follicles were isolated from five unrelated patients with CCD, and fourteen dental follicles were obtained from 10 healthy individuals. All teeth were in the intraosseous phase of eruption. The expression of RANK, RANKL, OPG, and CSF‐1 was determined by quantitative RT‐PCR.Results –  In patients with CCD, the mRNA levels of RANK, OPG, and CSF‐1 were significantly elevated compared with the control group. Accordingly, the ratios of RANKL/OPG and RANKL/RANK mRNAs were significantly decreased in patients with CCD.Conclusion –  The observed alterations in the expression and ratios of the aforementioned factors in the dental follicle of CCD individuals suggest a disturbed paracrine signaling for bone remodeling that could be responsible for the impaired tooth eruption seen in these patients.
Projecting “Normals” in a Nonstationary Climate
Authors: Wilks D. S. 
Published: September 2012

AbstractClimate “normals” are statistical estimates of present and/or near-future climate means for such quantities as seasonal temperature or precipitation. In a changing climate, simply averaging a large number of previous years of data may not be the best method for estimating normals. Here eight formulations for climate normals, including the recently proposed “hinge” function, are compared in artificial- and real-data settings. Although the hinge function is attractive conceptually for representing accelerating climate changes simply, its use is in general not yet justified for divisional U.S. seasonal temperature or precipitation. Averages of the most recent 15 and 30 yr have performed better during the recent past for U.S. divisional seasonal temperature and precipitation, respectively; these averaging windows are longer than those currently employed for this purpose at the U.S. Climate Prediction Center.
Retrieval of Ice Cloud Properties from AIRS and MODIS Observations Based on a Fast High-Spectral-Resolution Radiative Transfer Model
Authors: Wang Chenxi , Yang Ping , Platnick Steven , Heidinger Andrew K. , Baum Bryan A. , Greenwald Thomas , Zhang Zhibo , Holz Robert E. 
Published: September 2012

AbstractA computationally efficient high-spectral-resolution cloudy-sky radiative transfer model (HRTM) in the thermal infrared region (700–1300 cm−1, 0.1 cm−1 spectral resolution) is advanced for simulating the upwelling radiance at the top of atmosphere and for retrieving cloud properties. A precomputed transmittance database is generated for simulating the absorption contributed by up to seven major atmospheric absorptive gases (H2O, CO2, O3, O2, CH4, CO, and N2O) by using a rigorous line-by-line radiative transfer model (LBLRTM). Both the line absorption of individual gases and continuum absorption are included in the database. A high-spectral-resolution ice particle bulk scattering properties database is employed to simulate the radiation transfer within a vertically nonisothermal ice cloud layer. Inherent to HRTM are sensor spectral response functions that couple with high-spectral-resolution measurements in the thermal infrared regions from instruments such as the Atmospheric Infrared Sounder (AIRS) and Infrared Atmospheric Sounding Interferometer. When compared with the LBLRTM and the discrete ordinates radiative transfer model (DISORT), the root-mean-square error of HRTM-simulated single-layer cloud brightness temperatures in the thermal infrared window region is generally smaller than 0.2 K. An ice cloud optical property retrieval scheme is developed using collocated AIRS and Moderate Resolution Imaging Spectroradiometer (MODIS) data. A retrieval method is proposed to take advantage of the high-spectral-resolution instrument. On the basis of the forward model and retrieval method, a case study is presented for the simultaneous retrieval of ice cloud optical thickness τ and effective particle size Deff that includes a cloud-top-altitude self-adjustment approach to improve consistency with simulations.
The Freshwater System West of the Antarctic Peninsula: Spatial and Temporal Changes
Authors: Meredith Michael P. , Venables Hugh J. , Clarke Andrew , Ducklow Hugh W. , Erickson Matthew , Leng Melanie J. , Lenaerts Jan T. M. , van den Broeke Michiel R. 
Published: September 2012

Abstract
Climate change west of the Antarctic Peninsula is the most rapid of anywhere in the Southern Hemisphere, with associated changes in the rates and distributions of freshwater inputs to the ocean. Here, results from the first comprehensive survey of oxygen isotopes in seawater in this region are used to quantify spatial patterns of meteoric water (glacial discharge and precipitation) separately from sea ice melt. High levels of meteoric water are found close to the coast, due to orographic effects on precipitation and strong glacial discharge. Concentrations decrease offshore, driving significant southward geostrophic flows (up to ~30 cm s−1). These produce high meteoric water concentrations at the southern end of the sampling grid, where collapse of the Wilkins Ice Shelf may also have contributed. Sea ice melt concentrations are lower than meteoric water and patchier because of the mobile nature of the sea ice itself. Nonetheless, net sea ice production in the northern part of the sampling grid is inferred; combined with net sea ice melt in the south, this indicates an overall southward ice motion. The survey is contextualized temporally using a decade-long series of isotope data from a coastal Antarctic Peninsula site. This shows a temporal decline in meteoric water in the upper ocean, contrary to expectations based on increasing precipitation and accelerating deglaciation. This is driven by the increasing occurrence of deeper winter mixed layers and has potential implications for concentrations of trace metals supplied to the euphotic zone by glacial discharge. As the regional freshwater system evolves, the continuing isotope monitoring described here will elucidate the ongoing impacts on climate and the ecosystem.
On the Bias in Simulated ENSO SSTA Meridional Widths of CMIP3 Models
Authors: Zhang Wenjun , Jin Fei-Fei , Zhao Jing-Xia , Li Jianping 
Published: September 2012

Abstract
The fidelity of coupled climate models simulating El Niño–Southern Oscillation (ENSO) patterns has been widely examined. Nevertheless, a systematical narrow bias in the simulated meridional width of the sea surface temperature anomaly (SSTA) of ENSO has been largely overlooked. Utilizing the preindustrial control simulations of 11 coupled climate models from phase 3 of the Coupled Model Intercomparison Project (CMIP3), it was shown that the simulated width of the ENSO SSTA is only about two-thirds of what is observed. Through a heat budget analysis based on simulations and ocean reanalysis datasets, it is demonstrated that the SSTA outside of the equatorial strip is predominantly controlled by the anomalous meridional advection by climatological currents and heat-flux damping. The authors thus propose a simple damped-advective conceptual model to describe ENSO width. The simple model indicates that this width is primarily determined by three factors: meridional current, ENSO period, and thermal damping rate. When the meridional current is weak, it spreads the equatorial SSTA away from the equator less effectively and the ENSO width thus tends to be narrow. A short ENSO period allows less time to transport the equatorial SSTA toward the off-equatorial region, and strong damping prevents expansion of the SSTA away from the equator, both of which lead to the meridional width becoming narrow. The narrow bias of the simulated ENSO width is mainly due to a systematical bias in weak trade winds that lead to weak ocean meridional currents, and partly due to a bias toward short ENSO periods.
A Simulated Climatology of Spectrally Decomposed Atmospheric Infrared Radiation
Authors: Huang Yi 
Published: September 2012

Abstract
A simulation experiment is conducted to inquire into the mean climate state and likely trends in atmospheric infrared radiation spectra. Upwelling and downwelling spectra at five vertical levels from the surface to the top of the atmosphere (TOA) are rigorously calculated from a climate-model-simulated atmosphere for a 25-yr period. Tracing the longwave radiation flux vertically and spectrally renders a dissection of the greenhouse effect of the earth atmosphere and its change due to climate forcings and feedbacks. The results show that the total outgoing longwave radiation (OLR) at the TOA may be conserved due to 1) compensating temperature and opacity effects and 2) contrasting temperature changes in troposphere and stratosphere. The tightly coupled tropospheric temperature and opacity effects reduce the overall tropospheric contribution to OLR change to be comparable to the overall stratospheric contribution, which suggests that transient OLR change is constrained by the relative strengths of stratospheric and tropospheric temperature changes.
The total OLR energy, however, is redistributed across its spectrum. The earliest detectable global climate change signal lies in the CO2 absorption bands, which results from stratospheric cooling and the CO2 opacity effect. This signal can be detected much sooner than surface temperature change and is little affected by achievable instrument accuracy.
In contrast, both tropospheric temperature and opacity effects increase downwelling longwave radiation (DLR), which makes DLR a verifiable aspect of global warming. The time it takes to detect surface DLR change roughly equals that of surface temperature change. Measuring downwelling radiances at strong water vapor lines at the tropopause can particularly help monitor stratospheric water vapor.
Correlation analysis of the side-chains conformational distribution in bound and unbound proteins
Authors: Kirys Tatsiana , Ruvinsky Anatoly M , Tuzikov Alexander V , Vakser Ilya A 
Published: September 2012

Abstract

Background
Protein interactions play a key role in life processes. Characterization of conformational properties of protein-protein interactions is important for understanding the mechanisms of protein association. The rapidly increasing amount of experimentally determined structures of proteins and protein-protein complexes provides foundation for research on protein interactions and complex formation. The knowledge of the conformations of the surface side chains is essential for modeling of protein complexes. The purpose of this study was to analyze and compare dihedral angle distribution functions of the side chains at the interface and non-interface areas in bound and unbound proteins.

Results
To calculate the dihedral angle distribution functions, the configuration space was divided into grid cells. Statistical analysis showed that the similarity between bound and unbound interface and non-interface surface depends on the amino acid type and the grid resolution. The correlation coefficients between the distribution functions increased with the grid spacing increase for all amino acid types. The Manhattan distance showing the degree of dissimilarity between the distribution functions decreased accordingly. Short residues with one or two dihedral angles had higher correlations and smaller Manhattan distances than the longer residues. Met and Arg had the slowest growth of the correlation coefficient with the grid spacing increase. The correlations between the interface and non-interface distribution functions had a similar dependence on the grid resolution in both bound and unbound states. The interface and non-interface differences between bound and unbound distribution functions, caused by biological protein-protein interactions or crystal contacts, disappeared at the 70° grid spacing for interfaces and 30° for non-interface surface, which agrees with an average span of the side-chain rotamers.

Conclusions
The two-fold difference in the critical grid spacing indicates larger conformational changes upon binding at the interface than at the rest of the surface. At the same time, transitions between rotamers induced by interactions across the interface or the crystal packing are rare, with most side chains having local readjustments that do not change the rotameric state. The analysis is important for better understanding of protein interactions and development of flexible docking approaches.
A dictionary based informational genome analysis
Authors: Castellini Alberto , Franco Giuditta , Manca Vincenzo 
Published: September 2012

Abstract

Background
In the post-genomic era several methods of computational genomics are emerging to understand how the whole information is structured within genomes. Literature of last five years accounts for several alignment-free methods, arisen as alternative metrics for dissimilarity of biological sequences. Among the others, recent approaches are based on empirical frequencies of DNA k-mers in whole genomes.

Results
Any set of words (factors) occurring in a genome provides a genomic dictionary. About sixty genomes were analyzed by means of informational indexes based on genomic dictionaries, where a systemic view replaces a local sequence analysis. A software prototype applying a methodology here outlined carried out some computations on genomic data. We computed informational indexes, built the genomic dictionaries with different sizes, along with frequency distributions. The software performed three main tasks: computation of informational indexes, storage of these in a database, index analysis and visualization. The validation was done by investigating genomes of various organisms. A systematic analysis of genomic repeats of several lengths, which is of vivid interest in biology (for example to compute excessively represented functional sequences, such as promoters), was discussed, and suggested a method to define synthetic genetic networks.

Conclusions
We introduced a methodology based on dictionaries, and an efficient motif-finding software application for comparative genomics. This approach could be extended along many investigation lines, namely exported in other contexts of computational genomics, as a basis for discrimination of genomic pathologies.
Has increased clinical experience with methotrexate reduced the direct costs of medical management of ectopic pregnancy compared to surgery?
Authors: Westaby Daniel T , Wu Olivia , Duncan W Colin , Critchley Hilary OD , Tong Stephen , Horne Andrew W 
Published: September 2012

Abstract

Background
There is a debate about the cost-efficiency of methotrexate for the management of ectopic pregnancy (EP), especially for patients presenting with serum human chorionic gonadotrophin levels of >1500 IU/L. We hypothesised that further experience with methotrexate, and increased use of guideline-based protocols, has reduced the direct costs of management with methotrexate.

Methods
We conducted a retrospective cost analysis on women treated for EP in a large UK teaching hospital to (1) investigate whether the cost of medical management is less expensive than surgical management for those patients eligible for both treatments and (2) to compare the cost of medical management for women with hCG concentrations 1500–3000 IU/L against those with similar hCG concentrations that elected for surgery. Three distinct treatment groups were identified: (1) those who had initial medical management with methotrexate, (2) those who were eligible for initial medical management but chose surgery (‘elected’ surgery) and (3) those who initially ‘required’ surgery and did not meet the eligibility criteria for methotrexate. We calculated the costs from the point of view of the National Health Service (NHS) in the UK. We summarised the cost per study group using the mean, standard deviation, median and range and, to account for the skewed nature of the data, we calculated 95% confidence intervals for differential costs using the nonparametric bootstrap method.

Results
Methotrexate was £1179 (CI 819–1550) per patient cheaper than surgery but there were no significant savings with methotrexate in women with hCG >1500 IU/L due to treatment failures.

Conclusions
Our data support an ongoing unmet economic need for better medical treatments for EP with hCG >1500 IU/L.
A cross-sectional analysis of how young adults perceive tobacco brands: implications for FCTC signatories
Authors: Gendall Philip , Hoek Janet , Edwards Richard , McCool Judith 
Published: September 2012

Abstract

Background
The Framework Convention on Tobacco Control calls for the elimination of tobacco advertising, promotion and sponsorship. To test whether tobacco packaging functions as advertising by communicating attractive and distinctive brand attributes, we explored how young adult smokers and non-smokers interpreted familiar and unfamiliar tobacco brands.

Methods
We conducted an on-line survey of 1035 young adult smokers and non-smokers aged 18–30. Participants evaluated eight tobacco brands using ten attributes based on brand personality scales. We used factor analysis and ANOVA to examine patterns in brand-attribute associations.

Results
Young adults distinguished between brands on the basis of their packaging alone, associated each brand with specific attributes, and were equally able to interpret familiar and unfamiliar brands. Contrary to our expectations, non-smokers made more favourable brand-attribute associations than smokers, but both groups described Basic, a near generic brand, as ‘plain’ or ‘budget’. There were no significant gender or ethnicity differences.

Conclusions
Tobacco packaging uses logos, colours and imagery to create desirable connotations that promote and reinforce smoking. By functioning in the same way as advertising, on-pack branding breaches Article 13 of the FCTC and refutes tobacco companies’ claims that pack livery serves only as an indentifying device that simplifies smokers’ decision-making. Given this evidence, signatories should see plain packaging policies as a priority consistent with their FCTC obligations to eliminate all tobacco advertising and promotion.