bluuebunny/crossref_metadata_2025_split huggingface dataset:
Radiative Constraints on the Hydrological Cycle in an Idealized Radiative–Convective Equilibrium Model
Authors: Takahashi Ken 
Published: July 2008

AbstractThe radiative constraints on the partitioning of the surface energy budget and, hence, on the strength of the hydrological cycle are analyzed in an idealized one-dimensional radiative–convective equilibrium model formulated in terms of the energy budgets at the top of the atmosphere, the subcloud layer, and the free atmosphere, which enables it to predict both surface relative humidity and the air–sea temperature difference. Using semigray radiative transfer, a semianalytical solution was obtained that explicitly shows how the surface latent heat flux (LHF) is related to the radiative properties of the atmosphere. This solution was also used in conjunction with a full radiative transfer code and was found to provide reasonably realistic quantitative estimates.In the model the LHF is fundamentally constrained by the net longwave flux divergence above the level of condensation by lifting (LCL) and by the atmospheric absorption of shortwave radiation, with only a weak indirect control by near-surface moisture. The latter implies that the Clausius–Clapeyron relation does not directly constrain the strength of the hydrological cycle. Under radiative perturbations, the changes in LHF are determined by the changes in the net longwave fluxes at the LCL, associated mainly with the changes in the longwave transmissivity, and by the changes in shortwave absorption by the atmosphere (e.g., by increased water vapor).Using a full radiative transfer model with interactive water vapor feedback with the semianalytical solution indicates a rate of change in LHF with greenhouse forcing of around 2 W m−2 K−1 of surface warming, which corresponds to the Planck feedback (∼3.2 W m−2 K−1) multiplied by a coefficient of order one that, to first approximation, depends only on the relative magnitudes of the net longwave radiation fluxes at the LCL and the top of the atmosphere (i.e., on the shape of the vertical profile of the net longwave flux).
Arctic Sea Ice Retreat in 2007 Follows Thinning Trend
Authors: Lindsay R. W. , Zhang J. , Schweiger A. , Steele M. , Stern H. 
Published: July 2008

Abstract
The minimum of Arctic sea ice extent in the summer of 2007 was unprecedented in the historical record. A coupled ice–ocean model is used to determine the state of the ice and ocean over the past 29 yr to investigate the causes of this ice extent minimum within a historical perspective. It is found that even though the 2007 ice extent was strongly anomalous, the loss in total ice mass was not. Rather, the 2007 ice mass loss is largely consistent with a steady decrease in ice thickness that began in 1987. Since then, the simulated mean September ice thickness within the Arctic Ocean has declined from 3.7 to 2.6 m at a rate of −0.57 m decade−1. Both the area coverage of thin ice at the beginning of the melt season and the total volume of ice lost in the summer have been steadily increasing. The combined impact of these two trends caused a large reduction in the September mean ice concentration in the Arctic Ocean. This created conditions during the summer of 2007 that allowed persistent winds to push the remaining ice from the Pacific side to the Atlantic side of the basin and more than usual into the Greenland Sea. This exposed large areas of open water, resulting in the record ice extent anomaly.
Improving Satellite-Based Rainfall Accumulation Estimates Using Spaceborne Surface Soil Moisture Retrievals
Authors: Crow Wade T. , Huffman George J. , Bindlish Rajat , Jackson Thomas J. 
Published: July 2008

Abstract
Over land, remotely sensed surface soil moisture and rainfall accumulation retrievals contain complementary information that can be exploited for the mutual benefit of both product types. Here, a Kalman filtering–based tool is developed that utilizes a time series of spaceborne surface soil moisture retrievals to enhance short-term (2- to 10-day) satellite-based rainfall accumulation products. Using ground rain gauge data as a validation source, and a soil moisture product derived from the Advanced Microwave Scanning Radiometer aboard the NASA Aqua satellite, the approach is evaluated over the contiguous United States. Results demonstrate that, for areas of low to moderate vegetation cover density, the procedure is capable of improving short-term rainfall accumulation estimates extracted from a variety of satellite-based rainfall products. The approach is especially effective for correcting rainfall accumulation estimates derived without the aid of ground-based rain gauge observations. Special emphasis is placed on demonstrating that the approach can be applied in continental areas lacking ground-based observations and/or long-term satellite data records.
An Evaluation of Radiometric Products from Fixed-Depth and Continuous In-Water Profile Data from Moderately Complex Waters
Authors: Zibordi Giuseppe , Berthon Jean-François , D’Alimonte Davide 
Published: July 2008

Abstract
Radiometric products determined from fixed-depth and continuous in-water profile data collected at a coastal site characterized by moderately complex waters were compared to investigate differences and limitations between the two measurement methods. The analysis focused on measurements performed with the same radiometer system sequentially deployed at discrete depths (i.e., 1 and 3 m) and successively used to profile the water column. Within the 412–683-nm spectral interval, comparisons show uncertainties of 2%–4%, 3%–5%, and 2% for the subsurface values of upwelling radiance, Lun, upward irradiance, Eun, and downward irradiance, Edn, all normalized with respect to the above-water downward irradiance. The related spectral biases vary from −2% to 1% for Lun, are in the range of 2%–3% for Eun, and are lower than 0.5% for Edn. Derived products like the irradiance reflectance, R, Q factor at nadir, Q, and normalized water leaving radiance, LWN, exhibit spectral uncertainties of 4%–6%, 2%–3%, and 2%–4%. The related spectral biases vary from 1% to 3%, 2% to 3%, and −2% to 1%, respectively. An analysis of these results indicates a general diminishing of uncertainties and biases with a decrease of the diffuse attenuation coefficient, Kd, determined at 490 nm, for most of the quantities investigated. Exceptions are Edn and Kd because an increase of Kd reduces the perturbations due to wave effects on downward irradiance measurements. An evaluation of the perturbing effects due to the presence of optical stratifications, which lead to a nonlinear decrease with depth of log-transformed radiometric measurements, shows an expected increase in uncertainty and bias specifically evident for Ku, Eun, Kl, and Lun, and derived quantities like R, Q, and LWN. Overall results, supported by a t-test analysis, indicate the possibility of using moorings in moderately complex coastal waters to determine LWN with a slightly higher uncertainty with respect to that achievable with continuous profiling systems.
Epidemiology and Risk Factors of Humerus Fractures among Skiers and Snowboarders
Authors: Bissell Benjamin T. , Johnson Robert J. , Shafritz Adam B. , Chase Derek C. , Ettlinger Carl F. 
Published: July 2008

Background The incidence of humerus fractures while participating in snowboarding and skiing is undefined. Very little is known about the risk factors associated with these fractures. Hypothesis Snowboarders are at increased risk for sustaining humerus fractures when compared with skiers. In addition, the types of fractures, laterality, and risk factors differ between the 2 groups. Study Design Case-control study; Level of evidence, 3. Methods At a major ski area clinic, 318 humerus fractures were evaluated over 34 seasons. Radiographs were classified according to the AO and Neer systems. Patient data were analyzed and compared with that of a control population of uninjured skiers and snowboarders to determine incidence and risk factors. Results The incidence of humerus fractures among snowboarders (0.062 per 1000 snowboarder days) was significantly higher than that of skiers (0.041 per 1000, P < .05). Skiers were more likely to sustain proximal fractures, and snowboarders were relatively more likely to sustain diaphyseal and distal fractures ( P < .05). Of glenohumeral dislocations, 6.56% were associated with proximal humerus fractures among skiers (1.7% among snowboarders). Snowboarders who lead with their left foot were more likely to fracture their left humerus ( P = .023). Helmet use and gender were not risk factors for humerus fractures among either skiers or snowboarders. Jumping was involved in 28.3% of humerus fractures among snowboarders and in 5.4% among skiers. Skiers with humerus fractures were more skilled, older, and fell less frequently than controls. Snowboarders were less skilled, younger, and fell at a similar rate compared with controls. Conclusion Snowboarders are at significantly higher risk of sustaining humerus fractures than skiers. In skiers, humerus fractures show no laterality and most often involve the proximal humerus. In contrast, snowboarders more often fracture the left humerus at the diaphysis.
Achilles Tendon Doppler Flow May be Associated with Mechanical Loading among Active Athletes
Authors: Malliaras Peter , Richards Paula J. , Garau Giorgio , Maffulli Nicola 
Published: July 2008

BackgroundTendon Doppler flow may be associated with tendon pain in symptomatic patients, but the relationship between Doppler flow and pain among athletes who are still competing is unclear.HypothesisAmong active athletes, Doppler flow may partly reflect tendon adaptation to increased mechanical load and/or asymptomatic tendinopathy.Study DesignCross-sectional study; Level of evidence, 3.MethodsThe Achilles tendons of 61 badminton players (24 elite, 37 recreational) were examined with gray-scale and color Doppler ultrasound. Achilles tendon pain and activity level (badminton training, badminton playing, badminton years) were measured.ResultsDoppler flow was not associated with current Achilles tendon pain but was associated with an increased anteroposterior tendon diameter (an indicator of tendinopathy) ( P = .02). Athletes who had been playing badminton for longer were more likely to have Doppler flow ( P< .01), and there was a trend toward an association between a greater number of badminton playing hours per week and Doppler flow ( P = .07).ConclusionAchilles tendon Doppler flow appears to be a sign of asymptomatic tendinopathy rather than pain among active athletes. The association between weekly badminton hours and badminton years and Doppler flow suggests that Doppler flow may be a response to mechanical load in this cohort.
Understanding neonatal jaundice: UK practice and international profile
Authors: Shortland David B , Hussey Martin , Dey Chowdhury Ashoka 
Published: July 2008

Over the last 25 years there have been considerable advances in the treatment and technologies used in the care of newborn infants. Most of these advances are related to the care of the premature infants and there have been few changes in the management of conditions commonly seen in term infants. Neonatal jaundice is one of the commonest neonatal disorders and has been recognized since early history. Early neonatal jaundice is usually caused by the physiological destruction of red blood cells in the infant and its importance lies in the ability of the bilirubin pigment so produced to cross the blood brain barrier resulting in neurotoxicity. Prolonged neonatal jaundice (after 14 days of age) may be an indication of an underlying liver disorder. The approach to neonatal jaundice has remained largely unchanged over the last two to three decades. We continue to rely on visual inspection to assess the severity of early neonatal jaundice. We have technology that is effective in reducing the level of bilirubinaemia but in the UK there is no clear consensus as to the level at which jaundice should be treated. We do not have a standardized approach to the management of prolonged jaundice and there is potential for infants with significant liver problems to be diagnosed at a relatively late stage. Some countries (for example the US) have professional bodies who have introduced guidelines to ensure a standardized approach to the jaundice infant. We have little information about neonatal jaundice treatment in other parts of the developing world.
A novel polymorphism of the human CD40 receptor with enhanced function
Authors: Peters Anna L. , Plenge Robert M. , Graham Robert R. , Altshuler David M. , Moser Kathy L. , Gaffney Patrick M. , Bishop Gail A. 
Published: July 2008

AbstractCD40 signaling is critical for innate and adaptive immunity against pathogens, and the cytoplasmic domain of CD40 is highly conserved both within and between species. A novel missense single nucleotide polymorphism (SNP) in the cytoplasmic domain of CD40 at position 227 (P227A) was identified, which resides on a conserved ancestral haplotype highly enriched in persons of Mexican and South American descent. Functional studies indicated that signaling via human (h) CD40-P227A stably expressed in several B-cell lines led to increased phosphorylation of c-Jun, increased secretion of the pro-inflammatory cytokines interleukin (IL)–6 and TNF-α, and increased Ig production, compared with wild-type hCD40. Cooperation between hCD40-P227A signaling and B-cell receptor (BCR)– or Toll-like receptor 9 (TLR9)–mediated signaling was also enhanced, resulting in elevated and synergistic production of IL-6 and Ig. We have thus identified a novel genetic variant of hCD40 with a gain-of-function immune phenotype.
Annexin 1 mediates the rapid anti-inflammatory effects of neutrophil-derived microparticles
Authors: Dalli Jesmond , Norling Lucy V. , Renshaw Derek , Cooper Dianne , Leung Kit-Yi , Perretti Mauro 
Published: July 2008

AbstractPolymorphonuclear leukocyte (PMN)–derived microparticles display inhibitory properties on target cells as assessed in vitro; since PMNs contain abundant amounts of the endogenous anti-inflammatory protein annexin 1 (AnxA1), we tested here whether biologically active AnxA1 could be present in PMN-derived microparticles. PMN adhesion to human umbilical vein endothelial cell (HUVEC) monolayers led to the generation of microparticles that contained AnxA1, as detected by Western blotting, flow cytometry, and mass spectrometry analyses. Addition of these microparticles to recipient PMNs prior to flow over HUVEC monolayers significantly inhibited cell adhesion, an effect abrogated by a neutralizing anti-AnxA1 antibody, or an antibody raised against the AnxA1 receptor, that is termed lipoxin A4 receptor or ALX. Intravenous delivery of human PMN–derived microparticles markedly inhibited PMN recruitment to an air pouch inflamed with IL-1β. This anti-inflammatory effect was also dependent on endogenous AnxA1, since injection of microparticles produced from wild-type PMNs (bone marrow derived), but not from AnxA1-null PMNs, inhibited IL-1β–induced leukocyte trafficking. In conclusion, PMN-derived microparticles contain functionally active AnxA1 that confers them anti-inflammatory properties; generation of these microparticles in the microcirculation could promote inflammatory resolution by time-dependent dampening of cell recruitment.
Evolution of SET-domain protein families in the unicellular and multicellular Ascomycota fungi
Authors: Veerappan Chendhore S , Avramova Zoya , Moriyama Etsuko N 
Published: July 2008

Abstract

Background
The evolution of multicellularity is accompanied by the occurrence of differentiated tissues, of organismal developmental programs, and of mechanisms keeping the balance between proliferation and differentiation. Initially, the SET-domain proteins were associated exclusively with regulation of developmental genes in metazoa. However, finding of SET-domain genes in the unicellular yeasts Saccharomyces cerevisiae and Schizosaccharomyces pombe suggested that SET-domain proteins regulate a much broader variety of biological programs. Intuitively, it is expected that the numbers, types, and biochemical specificity of SET-domain proteins of multicellular versus unicellular forms would reflect the differences in their biology. However, comparisons across the unicellular and multicellular domains of life are complicated by the lack of knowledge of the ancestral SET-domain genes. Even within the crown group, different biological systems might use the epigenetic 'code' differently, adapting it to organism-specific needs. Simplifying the model, we undertook a systematic phylogenetic analysis of one monophyletic fungal group (Ascomycetes) containing unicellular yeasts, Saccharomycotina (hemiascomycetes), and a filamentous fungal group, Pezizomycotina (euascomycetes).

Results
Systematic analysis of the SET-domain genes across an entire eukaryotic phylum has outlined clear distinctions in the SET-domain gene collections in the unicellular and in the multicellular (filamentous) relatives; diversification of SET-domain gene families has increased further with the expansion and elaboration of multicellularity in animal and plant systems. We found several ascomycota-specific SET-domain gene groups; each was unique to either Saccharomycotina or Pezizomycotina fungi. Our analysis revealed that the numbers and types of SET-domain genes in the Saccharomycotina did not reflect the habitats, pathogenicity, mechanisms of sexuality, or the ability to undergo morphogenic transformations. However, novel genes have appeared for functions associated with the transition to multicellularity. Descendents of most of the SET-domain gene families found in the filamentous fungi could be traced in the genomes of extant animals and plants, albeit as more complex structural forms.

Conclusion

SET-domain genes found in the filamentous species but absent from the unicellular sister group reflect two alternative evolutionary events: deletion from the yeast genomes or appearance of novel structures in filamentous fungal groups. There were no Ascomycota-specific SET-domain gene families (i.e., absent from animal and plant genomes); however, plants and animals share SET-domain gene subfamilies that do not exist in the fungi. Phylogenetic and gene-structure analyses defined several animal and plant SET-domain genes as sister groups while those of fungal origin were basal to them. Plants and animals also share SET-domain subfamilies that do not exist in fungi.
Cross-diagnostic validity of the Nottingham health profile index of distress (NHPD)
Authors: Wann-Hansson Christine , Klevsgård Rosemarie , Hagell Peter 
Published: July 2008

Abstract

Background
The Nottingham Health Profile index of Distress (NHPD) has been proposed as a generic undimensional 24-item measure of illness-related distress that is embedded in the Nottingham Health Profile (NHP). Data indicate that the NHPD may have psychometric advantages to the 6-dimensional NHP profile scores. Detailed psychometric evaluations are, however, lacking. Furthermore, to support the validity of the generic property of outcome measures evidence that scores can be interpreted in the same manner in different diagnostic groups are needed. It is currently unknown if NHPD scores have the same meaning across patient populations. This study evaluated the measurement properties and cross-diagnostic validity of the NHPD as a survey instrument among people with Parkinson's disease (PD) and peripheral arterial disease (PAD).

Methods
Data from 215 (PD) and 258 (PAD) people were Rasch analyzed regarding model fit, reliability, differential item functioning (DIF), unidimensionality and targeting. In cases of cross-diagnostic DIF this was adjusted for and the impact of DIF on the total score and person measures was assessed.

Results
The NHPD was found to have good overall and individual item fit in both disorders as well as in the pooled sample, but seven items displayed signs of cross-diagnostic DIF. Following adjustment for DIF some aspects of model fit were slightly compromised, whereas others improved somewhat. DIF did not impact total NHPD scores or resulting person measures, but the unadjusted scale displayed minor signs of multidimensionality. Reliability was > 0.8 in all within- and cross-diagnostic analyses. Items tended to represent more distress (mean, 0 logits) than that experienced by the sample (mean, -1.6 logits).

Conclusion
This study supports the within- and cross-diagnostic validity of the NHPD as a survey tool among people with PD and PAD. We encourage others to reassess available NHP data within the NHPD framework to further evaluate the strengths and weaknesses of this simple patient-reported index of illness-related distress.
Characterization of APOBEC3G binding to 7SL RNA
Authors: Bach Daniel , Peddi Shyam , Mangeat Bastien , Lakkaraju Asvin , Strub Katharina , Trono Didier 
Published: July 2008

Abstract
Human APOBEC3 proteins are editing enzymes that can interfere with the replication of exogenous retroviruses such as human immunodeficiency virus (HIV), hepadnaviruses such as hepatitis B virus (HBV), and with the retrotransposition of endogenous retroelements such as long-interspersed nuclear elements (LINE) and Alu. Here, we show that APOBEC3G, but not other APOBEC3 family members, binds 7SL RNA, the common ancestor of Alu RNAs that is specifically recruited into HIV virions. Our data further indicate that APOBEC3G recognizes 7SL RNA and Alu RNA by its common structure, the Alu domain, suggesting a mechanism for APOBEC3G- mediated inhibition of Alu retrotransposition. However, we also demonstrate that APOBEC3F and APOBEC3G are normally recruited into and inhibit the infectivity of ΔVif HIV1 virions when 7SLRNA is prevented from accessing particles by RNA interference against SRP14 or by over expression of SRP19, both components of the signal recognition particle. We thus conclude that 7SL RNA is not an essential mediator of the virion packaging of these antiviral cytidine deaminases.
Detection of co-eluted peptides using database search methods
Authors: Alves Gelio , Ogurtsov Aleksey Y , Kwok Siwei , Wu Wells W , Wang Guanghui , Shen Rong-Fong , Yu Yi-Kuo 
Published: July 2008

Abstract

Background
Current experimental techniques, especially those applying liquid chromatography mass spectrometry, have made high-throughput proteomic studies possible. The increase in throughput however also raises concerns on the accuracy of identification or quantification. Most experimental procedures select in a given MS scan only a few relatively most intense parent ions, each to be fragmented (MS2) separately, and most other minor co-eluted peptides that have similar chromatographic retention times are ignored and their information lost.

Results
We have computationally investigated the possibility of enhancing the information retrieval during a given LC/MS experiment by selecting the two or three most intense parent ions for simultaneous fragmentation. A set of spectra is created via superimposing a number of MS2 spectra, each can be identified by all search methods tested with high confidence, to mimick the spectra of co-eluted peptides. The generated convoluted spectra were used to evaluate the capability of several database search methods – SEQUEST, Mascot, X!Tandem, OMSSA, and RAId_DbS – in identifying true peptides from superimposed spectra of co-eluted peptides. We show that using these simulated spectra, all the database search methods will gain eventually in the number of true peptides identified by using the compound spectra of co-eluted peptides.

Open peer review
Reviewed by Vlad Petyuk (nominated by Arcady Mushegian), King Jordan and Shamil Sunyaev. For the full reviews, please go to the Reviewers' comments section.