bluuebunny/crossref_metadata_2025_split huggingface dataset:
A Robust Dual-Frequency Radar Profiling Algorithm
Authors: Grecu Mircea , Tian Lin , Olson William S. , Tanelli Simone 
Published: March 2011

AbstractIn this study, an algorithm to retrieve precipitation from spaceborne dual-frequency (13.8 and 35.6 GHz, or Ku/Ka band) radar observations is formulated and investigated. Such algorithms will be of paramount importance in deriving radar-based and combined radar–radiometer precipitation estimates from observations provided by the forthcoming NASA Global Precipitation Measurement (GPM) mission. In GPM, dual-frequency Ku-/Ka-band radar observations will be available only within a narrow swath (approximately one-half of the width of the Ku-band radar swath) over the earth’s surface. Therefore, a particular challenge is to develop a flexible radar retrieval algorithm that can be used to derive physically consistent precipitation profile estimates across the radar swath irrespective of the availability of Ka-band radar observations at any specific location inside that swath, in other words, an algorithm capable of exploiting the information provided by dual-frequency measurements but robust in the absence of Ka-band channel. In the present study, a unified, robust precipitation retrieval algorithm able to interpret either Ku-only or dual-frequency Ku-/Ka-band radar observations in a manner consistent with the information content of the observations is formulated. The formulation is based on 1) a generalized Hitschfeld–Bordan attenuation correction method that yields generic Ku-only precipitation profile estimates and 2) an optimization procedure that adjusts the Ku-band estimates to be physically consistent with coincident Ka-band reflectivity observations and surface reference technique–based path-integrated attenuation estimates at both Ku and Ka bands. The algorithm is investigated using synthetic and actual airborne radar observations collected in the NASA Tropical Composition, Cloud, and Climate Coupling (TC4) campaign. In the synthetic data investigation, the dual-frequency algorithm performed significantly better than a single-frequency algorithm; dual-frequency estimates, however, are still sensitive to various assumptions such as the particle size distribution shape, vertical and cloud water distributions, and scattering properties of the ice-phase precipitation.
An Integrated TKE-Based Eddy Diffusivity/Mass Flux Boundary Layer Closure for the Dry Convective Boundary Layer
Authors: Witek Marcin L. , Teixeira Joao , Matheou Georgios 
Published: March 2011

Abstract
This study presents a new approach to the eddy diffusivity/mass flux (EDMF) framework for the modeling of convective boundary layers. At the root of EDMF lies a decomposition of turbulent transport mechanisms into strong ascending updrafts and smaller-scale turbulent motions. The turbulent fluxes can be therefore described using two conventional approaches: mass flux (MF) for the organized thermals and eddy diffusivity (ED) for the remaining turbulent field. Since the intensities of both MF and ED transports depend on the kinetic energy of the turbulent motions, it seems reasonable to formulate an EDMF framework based on turbulent kinetic energy (TKE). Such an approach allows for more physical and less arbitrary formulations of parameters in the model. In this study the EDMF–TKE coupling is achieved through the use of (i) a new parameterization for the lateral entrainment coefficient ɛ and (ii) the MF contribution to the buoyancy source of TKE. Some other important features of the EDMF parameterization presented here include a revised mixing length formulation and Monin–Obukhov stability scaling for the surface layer. The scheme is implemented in a one-dimensional (1D) model. Several cases of dry convective boundary layers (CBL) with different surface sensible heat fluxes in the free-convection limit are investigated. Results are compared to large-eddy simulation (LES). Good agreement between LES and the 1D model is achieved with respect to mean profiles, boundary layer evolution, and updraft characteristics. Some disagreements between the models are found to most likely relate to deficiencies in the TKE simulation in the 1D model. Comparison with other previously established ɛ parameterizations shows that the new TKE-based formulation leads to equally accurate, and in many respects better, simulation of the CBL. The encouraging results obtained with the proposed EDMF framework indicate that full integration of EDMF with higher-order closures is possible and can further improve boundary layer simulations.
A Simplified Model for Intermittent Turbulence in the Nocturnal Boundary Layer
Authors: Costa Felipe D. , Acevedo Otávio C. , Mombach José C. M. , Degrazia Gervásio A. 
Published: March 2011

Abstract
A model for the exchange between the surface and the atmosphere under stable conditions is proposed. It is based on the classical scheme first suggested by Blackadar and comprises prognostic equations for the wind components and air and ground temperature. The main difference from previous works consists in the fact that the turbulent intensity is determined by a prognostic equation for turbulent kinetic energy (TKE), rather than by using stability functions that arbitrarily relate it to atmospheric stability. Results show that the model reproduces the condition of connection and disconnection between the surface and upper levels. Furthermore, it leads to periodic turbulence bursts when one level within the stable boundary layer (SBL) is considered and the use of additional levels increasingly leads to more complex solutions, characterizing the occurrence of global intermittency. Such turbulence bursts occur in the disconnected state and cause large fluctuations of the variables near the surface. The boundary layer height plays a role in the sense that for the same geostrophic winds, connection is favored for shallower layers. Although playing a role in the intermittency characteristics, soil type is not determinant to their existence, as the bursts occur even for very high values of heat capacity. Vertical profiles for both the intermittent and connected state are analyzed and in general agree with observations. It is shown that, near the surface, weak turbulence bursts favor the exchange between the air and the cooler ground, leading to a local temperature decrease, while stronger events that mix the air deeper in the SBL cause an average warming tendency. An opposite pattern occurs at the upper SBL. Intermittency is favored over a range of low geostrophic winds and clear skies, in agreement with previous suggestions. The vertical structure of the intermittent events is analyzed, and it shown that they are generated at the surface by a local shear increase above a threshold, propagating upward through the turbulence transfer term in the TKE equation. It is proposed that such events constitute a natural characteristic of the disconnected SBL, which occurs along with low large-scale winds and clear skies.
Mapping the Relationship between Northern Hemisphere Winter Surface Air Temperature and the Madden–Julian Oscillation
Authors: Zhou Yang , Thompson Keith R. , Lu Youyu 
Published: March 2011

AbstractA regression-based modeling approach is described for mapping the dependence of atmospheric state variables such as surface air temperature (SAT) on the Madden–Julian oscillation (MJO). For the special case of a linear model the dependence can be described by two maps corresponding to the amplitude and lag of the mean atmospheric response with respect to the MJO. In this sense the method leads to a more parsimonious description than traditional compositing, which usually results in eight maps, one for each MJO phase. Another advantage of the amplitude and phase maps is that they clearly identify propagating signals, and also regions where the response is strongly amplified or attenuated. A straightforward extension of the linear model is proposed to allow the amplitude and phase of the response to vary with the amplitude of the MJO or indices that define the background state of the atmosphere–ocean system. Application of the approach to global SAT for boreal winter clearly shows the propagation of MJO-related signals in both the tropics and extratropics and an enhanced response over eastern North America and Alaska (further enhanced during La Niña years). The SAT response over Alaska and eastern North America is caused mainly by horizontal advection related to variations in shore-normal surface winds that, in turn, can be traced (via signals in the 500-hPa geopotential height) back to MJO-related disturbances in the tropics.
The Norm-Activating Power of Celebrity
Authors: Lindenberg Siegwart , Joly Janneke F. , Stapel Diederik A. 
Published: March 2011

Social Psychology Quarterly retracts the article “The Norm-activating Power of Celebrity: The Dynamics of Success and Influence,” by Siegwart Lindenberg, Janneke F. Joly, and Diederik A. Stapel, which appeared in the March 2011 issue (74(1):98–120; DOI: 10.1177/0190272511398208). This retraction stems from the results of an investigation into the work of Diederik A. Stapel ( https://www.commissielevelt.nl/noort-committee/publications-examined/ ), which finds strong evidence of fraud in the dataset supplied by Stapel. His coauthors had no knowledge of his actions and were not involved in the production of the fraudulent data. On the basis of previous evidence, we reasoned that even if people do not identify with celebrities, these celebrities can influence their behavior by activating bundles of social norms. Activating a norm means making both content and “oughtness” of the norm more directly relevant for behavior. We further reasoned that in order to have this norm-activating effect, celebrities have to have prestige. The question is whether they need to be seen as successful in order to have this effect. In four experimental studies, we examined the effects of a normative message presented by a celebrity on the activation of a target norm and of related and unrelated norms. As predicted, the normative message activated both target and related norms and did not activate unrelated norms. Also as expected, this ability to activate norms vanished entirely when the celebrities were tarnished by waning success. This result also shows that “success” and “lack of success” of a celebrity can be the result of relatively minor differences in media reporting. As expected, the norm-activating effect of celebrities was not mediated by self-reported measures of seeing celebrities as role models or of identifying with them. Implications for the impact of someone’s environment on norm conformity beyond positive and negative sanctions are discussed.
Uncharacterized conserved motifs outside the HD-Zip domain in HD-Zip subfamily I transcription factors; a potential source of functional diversity
Authors: Arce Agustín L , Raineri Jesica , Capella Matías , Cabello Julieta V , Chan Raquel L 
Published: March 2011

Abstract

Background
Plant HD-Zip transcription factors are modular proteins in which a homeodomain is associated to a leucine zipper. Of the four subfamilies in which they are divided, the tested members from subfamily I bind in vitro the same pseudopalindromic sequence CAAT(A/T)ATTG and among them, several exhibit similar expression patterns. However, most experiments in which HD-Zip I proteins were over or ectopically expressed under the control of the constitutive promoter 35S CaMV resulted in transgenic plants with clearly different phenotypes. Aiming to elucidate the structural mechanisms underlying such observation and taking advantage of the increasing information in databases of sequences from diverse plant species, an in silico analysis was performed. In addition, some of the results were also experimentally supported.

Results
A phylogenetic tree of 178 HD-Zip I proteins together with the sequence conservation presented outside the HD-Zip domains allowed the distinction of six groups of proteins. A motif-discovery approach enabled the recognition of an activation domain in the carboxy-terminal regions (CTRs) and some putative regulatory mechanisms acting in the amino-terminal regions (NTRs) and CTRs involving sumoylation and phosphorylation. A yeast one-hybrid experiment demonstrated that the activation activity of ATHB1, a member of one of the groups, is located in its CTR. Chimerical constructs were performed combining the HD-Zip domain of one member with the CTR of another and transgenic plants were obtained with these constructs. The phenotype of the chimerical transgenic plants was similar to the observed in transgenic plants bearing the CTR of the donor protein, revealing the importance of this module inside the whole protein.

Conclusions
The bioinformatical results and the experiments conducted in yeast and transgenic plants strongly suggest that the previously poorly analyzed NTRs and CTRs of HD-Zip I proteins play an important role in their function, hence potentially constituting a major source of functional diversity among members of this subfamily.
Psychosocial impact of the summer 2007 floods in England
Authors: Paranjothy Shantini , Gallacher John , Amlôt Richard , Rubin G James , Page Lisa , Baxter Tony , Wight Jeremy , Kirrage David , McNaught Rosemary , SR Palmer 
Published: March 2011

Abstract

Background
The summer of 2007 was the wettest in the UK since records began in 1914 and resulted in severe flooding in several regions. We carried out a health impact assessment using population-based surveys to assess the prevalence of and risk factors for the psychosocial consequences of this flooding in the United Kingdom.

Methods
Surveys were conducted in two regions using postal, online, telephone questionnaires and face-to-face interviews. Exposure variables included the presence of flood water in the home, evacuation and disruption to essential services (incident management variables), perceived impact of the floods on finances, house values and perceived health concerns. Validated tools were used to assess psychosocial outcome (mental health symptoms): psychological distress (GHQ-12), anxiety (GAD-7), depression (PHQ-9) and probable post-traumatic stress disorder (PTSD checklist-shortform). Multivariable logistic regression was used to describe the association between water level in the home, psychological exposure variables and incident management variables, and each mental health symptom, adjusted for age, sex, presence of an existing medical condition, employment status, area and data collection method.

Results
The prevalence of all mental health symptoms was two to five-fold higher among individuals affected by flood water in the home. People who perceived negative impact on finances were more likely to report psychological distress (OR 2.5, 1.8-3.4), probable anxiety (OR 1.8, 1.3-2.7) probable depression (OR 2.0, 1.3-2.9) and probable PTSD (OR 3.2, 2.0-5.2). Disruption to essential services increased adverse psychological outcomes by two to three-fold. Evacuation was associated with some increase in psychological distress but not significantly for the other three measures.

Conclusion
The psychosocial and mental health impact of flooding is a growing public health concern and improved strategies for minimising disruption to essential services and financial worries need to be built in to emergency preparedness and response systems. Public Health Agencies should address the underlying predictors of adverse psychosocial and mental health when providing information and advice to people who are or are likely to be affected by flooding.
A dynamic method based on the specific substrate uptake rate to set up a feeding strategy for Pichia pastoris
Authors: Dietzsch Christian , Spadiut Oliver , Herwig Christoph 
Published: March 2011

Abstract

Background

Pichia pastoris is one of the most important host organisms for the recombinant production of proteins in industrial biotechnology. To date, strain specific parameters, which are needed to set up feeding profiles for fed batch cultivations, are determined by time-consuming continuous cultures or consecutive fed batch cultivations, operated at different parameter sets.

Results
Here, we developed a novel approach based on fast and easy to do batch cultivations with methanol pulses enabling a more rapid determination of the strain specific parameters specific substrate uptake rate qs, specific productivity qp and the adaption time (Δtimeadapt) of the culture to methanol. Based on qs, an innovative feeding strategy to increase the productivity of a recombinant Pichia pastoris strain was developed. Higher specific substrate uptake rates resulted in increased specific productivity, which also showed a time dependent trajectory. A dynamic feeding strategy, where the setpoints for qs were increased stepwise until a qs
max of 2.0 mmol·g-1·h-1 resulted in the highest specific productivity of 11 U·g-1·h-1.

Conclusions
Our strategy describes a novel and fast approach to determine strain specific parameters of a recombinant Pichia pastoris strain to set up feeding profiles solely based on the specific substrate uptake rate. This approach is generic and will allow application to other products and other hosts.
Sensitivity of temporal heart rate variability in Poincaré plot to changes in parasympathetic nervous system activity
Authors: Karmakar Chandan K , Khandoker Ahsan H , Voss Andreas , Palaniswami Marimuthu 
Published: March 2011

Abstract

Background
A novel descriptor (Complex Correlation Measure (CCM)) for measuring the variability in the temporal structure of Poincaré plot has been developed to characterize or distinguish between Poincaré plots with similar shapes.

Methods
This study was designed to assess the changes in temporal structure of the Poincaré plot using CCM during atropine infusion, 70° head-up tilt and scopolamine administration in healthy human subjects. CCM quantifies the point-to-point variation of the signal rather than gross description of the Poincaré plot. The physiological relevance of CCM was demonstrated by comparing the changes in CCM values with autonomic perturbation during all phases of the experiment. The sensitivities of short term variability (SD 1), long term variability (SD 2) and variability in temporal structure (CCM) were analyzed by changing the temporal structure by shuffling the sequences of points of the Poincaré plot. Surrogate analysis was used to show CCM as a measure of changes in temporal structure rather than random noise and sensitivity of CCM with changes in parasympathetic activity.

Results

CCM was found to be most sensitive to changes in temporal structure of the Poincaré plot as compared to SD 1 and SD 2. The values of all descriptors decreased with decrease in parasympathetic activity during atropine infusion and 70° head-up tilt phase. In contrast, values of all descriptors increased with increase in parasympathetic activity during scopolamine administration.

Conclusions
The concordant reduction and enhancement in CCM values with parasympathetic activity indicates that the temporal variability of Poincaré plot is modulated by the parasympathetic activity which correlates with changes in CCM values. CCM is more sensitive than SD 1 and SD 2 to changes of parasympathetic activity.
Characterization of a non-pathogenic H5N1 influenza virus isolated from a migratory duck flying from Siberia in Hokkaido, Japan, in October 2009
Authors: Yamamoto Naoki , Sakoda Yoshihiro , Motoshima Masayuki , Yoshino Fumi , Soda Kosuke , Okamatsu Masatoshi , Kida Hiroshi 
Published: March 2011

Abstract

Background
Infection with H5N1 highly pathogenic avian influenza viruses (HPAIVs) of domestic poultry and wild birds has spread to more than 60 countries in Eurasia and Africa. It is concerned that HPAIVs may be perpetuated in the lakes in Siberia where migratory water birds nest in summer. To monitor whether HPAIVs circulate in migratory water birds, intensive surveillance of avian influenza has been performed in Mongolia and Japan in autumn each year. Until 2008, there had not been any H5N1 viruses isolated from migratory water birds that flew from their nesting lakes in Siberia. In autumn 2009, A/mallard/Hokkaido/24/09 (H5N1) (Mal/Hok/24/09) was isolated from a fecal sample of a mallard (Anas platyrhynchos) that flew from Siberia to Hokkaido, Japan. The isolate was assessed for pathogenicity in chickens, domestic ducks, and quails and analyzed antigenically and phylogenetically.

Results
No clinical signs were observed in chickens inoculated intravenously with Mal/Hok/24/09 (H5N1). There was no viral replication in chickens inoculated intranasally with the isolate. None of the domestic ducks and quails inoculated intranasally with the isolate showed any clinical signs. There were no multiple basic amino acid residues at the cleavage site of the hemagglutinin (HA) of the isolate. Each gene of Mal/Hok/24/09 (H5N1) is phylogenetically closely related to that of influenza viruses isolated from migratory water birds that flew from their nesting lakes in autumn. Additionally, the antigenicity of the HA of the isolate was similar to that of the viruses isolated from migratory water birds in Hokkaido that flew from their northern territory in autumn and different from those of HPAIVs isolated from birds found dead in China, Mongolia, and Japan on the way back to their northern territory in spring.

Conclusion
Mal/Hok/24/09 (H5N1) is a non-pathogenic avian influenza virus for chickens, domestic ducks, and quails, and is antigenically and genetically distinct from the H5N1 HPAIVs prevailing in birds in Eurasia and Africa. H5 viruses with the HA gene of HPAIV had not been isolated from migratory water birds in the surveillance until 2009, indicating that H5N1 HPAIVs had not become dominant in their nesting lakes in Siberia until 2009.
The biology of lysine acetylation integrates transcriptional programming and metabolism
Authors: Patel Jigneshkumar , Pathak Ravi R , Mujtaba Shiraz 
Published: March 2011

Abstract
The biochemical landscape of lysine acetylation has expanded from a small number of proteins in the nucleus to a multitude of proteins in the cytoplasm. Since the first report confirming acetylation of the tumor suppressor protein p53 by a lysine acetyltransferase (KAT), there has been a surge in the identification of new, non-histone targets of KATs. Added to the known substrates of KATs are metabolic enzymes, cytoskeletal proteins, molecular chaperones, ribosomal proteins and nuclear import factors. Emerging studies demonstrate that no fewer than 2000 proteins in any particular cell type may undergo lysine acetylation. As described in this review, our analyses of cellular acetylated proteins using DAVID 6.7 bioinformatics resources have facilitated organization of acetylated proteins into functional clusters integral to cell signaling, the stress response, proteolysis, apoptosis, metabolism, and neuronal development. In addition, these clusters also depict association of acetylated proteins with human diseases. These findings not only support lysine acetylation as a widespread cellular phenomenon, but also impel questions to clarify the underlying molecular and cellular mechanisms governing target selectivity by KATs. Present challenges are to understand the molecular basis for the overlapping roles of KAT-containing co-activators, to differentiate between global versus dynamic acetylation marks, and to elucidate the physiological roles of acetylated proteins in biochemical pathways. In addition to discussing the cellular 'acetylome', a focus of this work is to present the widespread and dynamic nature of lysine acetylation and highlight the nexus that exists between epigenetic-directed transcriptional regulation and metabolism.