bluuebunny/crossref_metadata_2025_split huggingface dataset:
Adjustment of the Southern Ocean to Wind Forcing on Synoptic Time Scales
Authors: Weijer Wilbert , Gille Sarah T. 
Published: December 2005

Abstract
This study addresses the response of the Southern Ocean to high-frequency wind forcing, focusing on the impact of several barotropic modes on the circumpolar transport. A suite of experiments is performed with an unstratified model of the Southern Ocean, forced with a stochastic wind stress that contains a large range of frequencies with synoptic time scales. The Southern Ocean adjustment displays a different character for frequencies below and above 0.2 cpd. The low-frequency range is dominated by an “almost-free-mode” response in the region where contours of f /H are obstructed by only a few bathymetric features; the truly free mode only plays a minor role. Topographic form stress, rather than friction, is the dominant decay mechanism of the Southern Mode. It leads to a spindown time scale on the order of 3 days. For the high-frequency range, the circumpolar transport is dominated by the resonant excitation of oscillatory modes. The “active” response of the ocean leads to strong changes and even discontinuities in the phase relation between transport and wind stress.
Quantization of the Low-Frequency Variability of the Double-Gyre Circulation
Authors: Simonnet Eric 
Published: December 2005

AbstractThe low-frequency dynamics of the double-gyre wind-driven circulation in large midlatitude oceanic basins is investigated. It is shown that for quasigeostrophic models linear (Rayleigh) friction is necessary to obtain realistic recirculation gyres and elongated jet streams with small meridional-to-zonal aspect ratio. It is also found that the use of either no-slip or free-slip boundary conditions does not change the drastic effects of bottom drag on the large scales. These long oceanic jets are alternatively destabilized and restabilized through successive (subcritical) supercritical symmetry-breaking bifurcations that are linked to the (non) existence of stationary Rossby waves. These waves are strongly localized along the oceanic front and are thus hardly affected by the basin geometry. Numerical and analytical results show that these waves are “quantized” with respect to the length of the jet, and an explicit dispersion relation is given. Numerical computations of branches of steady states, together with linear and nonlinear analysis, indicate that two classes of regimes characterize the low-frequency dynamics of the flow. The first class corresponds to supercritical regimes, which are associated with oceanic jets that have been destabilized by undamped stationary Rossby waves. In particular, these regimes allow the formation of gyre modes responsible for low-frequency relaxation oscillations of the jet. The second class corresponds to subcritical regimes, which are either quiescent or dominated by high-frequency instabilities and are characterized by jets that do not allow the formation of both stationary Rossby waves and gyre modes. Each of these regimes is characterized by typical spatial and time scales that are both quantized. The number n of “bumps” of the jet, which is related to the zonal wavenumber of the stationary Rossby waves, is used to distinguish between these regimes either in their supercritical or subcritical phase. For instance, the supercritical n = 2 regime is associated with a class of interdecadal gyre modes that extend up to 3000 km in the zonal direction. The quantization of the low-frequency dynamics and the existence of these regimes are also found to survive severe modifications of the basin geometry. These quantized regimes suggest that the low-frequency dynamics in turbulent regimes is likely to be autosimilar to the low-frequency dynamics found in a weakly nonlinear “ground” regime corresponding to n = 0.
Spatial and Temporal Variability of Internal Wave Forcing on a Coral Reef
Authors: Leichter J. J. , Deane G. B. , Stokes M. D. 
Published: December 2005

Abstract
The deployment of a dense spatial array of temperature sensors on a coral reef in the Florida Keys provided a unique view of the interaction of cool water incursions generated by internal waves with the three-dimensional reef bathymetry. Water temperature on the reef surface was sampled every 5 s at 100 points on a 100 m by 150 m grid with concomitant measurements of water column velocity and temperature from mid-May through mid-August 2003. Episodic incursions of cool, subsurface water were driven by periods of strong semidiurnal internal tide and higher-frequency internal wave activity. For every time step in the data record the mean profile of temperature as a function of depth is calculated with a 3-m vertical averaging length scale. Subtracting this mean profile from the raw record yields a within depth, horizontal temperature anomaly. Visualization through time of the anomaly mapped onto the measured reef bathymetry reveals episodic variability of thermal patchiness across the reef as well as persistent features associated with reef bathymetry. Variation in the nature of the cooling and resulting thermal heterogeneity among events and seasons suggests multiple modes of cool water incursion ranging from unbroken, tidal period internal waves to packets of higher-frequency, energetic, broken internal bores.
Oligomeric protein structure networks: insights into protein-protein interactions
Authors: Brinda KV , Vishveshwara Saraswathi 
Published: December 2005

Abstract
Background
Protein-protein association is essential for a variety of cellular processes and hence a large number of investigations are being carried out to understand the principles of protein-protein interactions. In this study, oligomeric protein structures are viewed from a network perspective to obtain new insights into protein association. Structure graphs of proteins have been constructed from a non-redundant set of protein oligomer crystal structures by considering amino acid residues as nodes and the edges are based on the strength of the non-covalent interactions between the residues. The analysis of such networks has been carried out in terms of amino acid clusters and hubs (highly connected residues) with special emphasis to protein interfaces.

Results
A variety of interactions such as hydrogen bond, salt bridges, aromatic and hydrophobic interactions, which occur at the interfaces are identified in a consolidated manner as amino acid clusters at the interface, from this study. Moreover, the characterization of the highly connected hub-forming residues at the interfaces and their comparison with the hubs from the non-interface regions and the non-hubs in the interface regions show that there is a predominance of charged interactions at the interfaces. Further, strong and weak interfaces are identified on the basis of the interaction strength between amino acid residues and the sizes of the interface clusters, which also show that many protein interfaces are stronger than their monomeric protein cores. The interface strengths evaluated based on the interface clusters and hubs also correlate well with experimentally determined dissociation constants for known complexes. Finally, the interface hubs identified using the present method correlate very well with experimentally determined hotspots in the interfaces of protein complexes obtained from the Alanine Scanning Energetics database (ASEdb). A few predictions of interface hot spots have also been made based on the results obtained from this analysis, which await experimental verification.

Conclusion
The construction and analysis of oligomeric protein structure networks and their comparison with monomeric protein structure networks provide insights into protein association. Further, the interface hubs identified using the present method can be effective targets for interface de-stabilizing mutations. We believe this analysis will significantly enhance our knowledge of the principles behind protein association and also aid in protein design.
TRIPS, the Doha Declaration and increasing access to medicines: policy options for Ghana
Authors: Cohen JC , Gyansa-Lutterodt M , Torpey K , Esmail LC , Kurokawa G 
Published: December 2005

Abstract
There are acute disparities in pharmaceutical access between developing and industrialized countries. Developing countries make up approximately 80% of the world's population but only represent approximately 20% of global pharmaceutical consumption. Among the many barriers to drug access are the potential consequences of the Trade Related Aspects of Intellectual Property Rights (TRIPS) Agreement. Many developing countries have recently modified their patent laws to conform to the TRIPS standards, given the 2005 deadline for developing countries. Safeguards to protect public health have been incorporated into the TRIPS Agreement; however, in practice governments may be reluctant to exercise such rights given concern about the international trade and political ramifications. The Doha Declaration and the recent Decision on the Implementation of Paragraph 6 of the Doha Declaration on the TRIPS Agreement and Public Health may provide more freedom for developing countries in using these safeguards. This paper focuses on Ghana, a developing country that recently changed its patent laws to conform to TRIPS standards. We examine Ghana's patent law changes in the context of the Doha Declaration and assess their meaning for access to drugs of its population. We discuss new and existing barriers, as well as possible solutions, to provide policy-makers with lessons learned from the Ghanaian experience.
Receiving bad news: patients with haematological cancer reflect upon their experience
Authors: Randall Tina C , Wearn Andy M 
Published: December 2005

The literature on breaking bad news (BBN) tends to focus on professional consensus rather than empirical patient evidence -the ‘giver’ rather than the ‘receiver’. Using semi-structured interviews, this study explores the experiences of patients with haematological cancer as they reflect on the process and content of receiving bad news. Fifteen patients with a diagnosis of leukaemia or lymphoma were recruited through a haematology service during a routine clinical visit, with the decision to participate being made later. Interviews were audiotaped, transcribed and analysed using thematic content analysis. Patients place importance on not being rushed during the bad news consultation and the doctor’s manner. Receiving bad news was the first step on a journey, not an isolated incident. Doctors were regarded as the best judge of their information needs, with leaflets and written summaries as supplements. Patients had strong preferences about continuity and language use. Displays of empathy were important, but must be genuine. Patients wanted to know about likely emotional reactions and future support. Where patients brought a companion, they found this valuable. Patients concur with much of the content of the guidelines, but place more emphasis on their illness journey, the doctor’s ability to adapt to their emotional needs, language used, information leaflets, having a companion and genuinely personalizing the approach. Reflection on these patient-derived factors may help health professionals better serve patients with serious illness.
Being a hospice volunteer
Authors: Andersson Birgit , Öhlén Joakim 
Published: December 2005

The aim of this study was to obtain an understanding of what it means to be a hospice volunteer in a country without a tradition of hospice or palliative volunteer care services. Ten volunteers from three different hospices in Sweden were interviewed. Their narratives were interpreted with a phenomenological hermeneutic method. Three themes were disclosed: motives for becoming involved in hospices, encountering the hospice and encountering the patient. The interpretations disclose a need for the volunteer to be affirmed as a caring person and received in fellowship at the hospice. Positive encounters with a hospice are closely related to personal growth. Volunteers feel rejected if their need for meaning and for belonging to the hospice is not satisfied. This shows that hospices need to set goals in terms of volunteer support, particularly regarding existential issues following the encounter with the hospice and the patient.
Measurement of adverse events using 'incidence flagged' diagnosis codes
Authors: Jackson Terri , Duckett Stephen , Shepheard Jennie , Baxter Kathryn 
Published: December 2005

Objective: To compare two methods for identifying adverse events using routinely recorded hospital abstract data in all public and private hospitals in Victoria, Australia. Methods: Secondary analysis of data on all admissions in the period 1 July 2000–30 June 2001 ( n = 1,645,992) to estimate the rates of adverse events using International Classification of Diseases 10th Revision Australian Modification codes alone and in combination with an 'incidence' data flag indicating complicating diagnoses which arise after hospitalization; rates of incidence and pre-existing adverse events, and rates for same-day and multi-day admissions. Results: In total, 8% of all admissions were recorded with an adverse event. Use of ICD codes alone identified only 59% of the events identified using the combined method, giving a prevalence rate of only 5%. Incident cases, that is, those occurring in the index admission, represented 68% of identified adverse events. The adverse events incidence rate for multi-day admissions was significantly higher at 12%, compared with the same day rate of 0.4%. Conclusion: An 'incidence flag' is essential to identify those adverse events for which a hospital has unambiguous responsibility. Using such a flag, secondary analysis of administrative data can provide hospital quality assurance programmes with a comprehensive view of all adverse events (not just 'sentinel' events) at a reasonable cost and with more timely results than more intensive methods can achieve. Although the method is likely to underestimate the true rate of adverse events (in particular, by not capturing adverse events which only manifest after discharge), in this study of Australian hospitals, rates of adverse events were found to be similar to those derived from studies using manual review of patient records.
Ethics and economics: does programme budgeting and marginal analysis contribute to fair priority setting?
Authors: Gibson Jennifer , Mitton Craig , Martin Douglas , Donaldson Cam , Singer Peter 
Published: December 2005

Objective: Limited resources mean that decision-makers must set priorities among competing opportunities. Programme budgeting and marginal analysis (PBMA) is an economic approach that focuses on optimizing benefits with available resources. Accountability for reasonableness (A4R) is an ethics approach that focuses on ensuring fair priority-setting processes. PBMA and A4R have been used separately to provide decision-makers with advice about how to set priorities within limited resources. The goals of this research were to use the A4R framework to evaluate the fairness of using PBMA for priority setting and to assess how A4R might make PBMA fairer. Methods: Qualitative case studies to describe priority setting using PBMA in the Calgary Health Region (Alberta, Canada) evaluated using A4R as a conceptual framework. Results: The use of PBMA for priority setting was fairer than previous priority setting because of its emphasis on explicit rational decision-making. However, there were opportunities to improve the process, particularly by collecting data related to the decision criteria, by developing a communication plan to engage internal and external stakeholders about priority-setting, and by providing a formal mechanism to review priority-setting decisions and resolve disputes. Conclusions: There is potential for combining A4R and PBMA in a more comprehensive approach to priority setting, which uses a fair priority-setting process to reach decisions aimed at achieving optimal benefits with available resources.
Efficient Lentiviral Transduction and Improved Engraftment of Human Bone Marrow Mesenchymal Cells
Authors: Van Damme An , Thorrez Lieven , Ma Ling , Vandenburgh Herman , Eyckmans Jeroen , Dell'Accio Francesco , De Bari Cosimo , Luyten Frank , Lillicrap David , Collen Désiré , VandenDriessche Thierry , Chuah Marinee K.L. 
Published: December 2005

Abstract
Human bone marrow (BM) mesenchymal stem/progenitor cells are potentially attractive targets for ex vivo gene therapy. The potential of lentiviral vectors for transducing BM mesenchymal cells was examined using a self-inactivating vector that expressed the green fluorescent protein (GFP) from an internal cytomegalovirus (CMV) promoter. This vector was compared with oncoretroviral vectors expressing GFP from the CMV promoter or a modified long-terminal repeat that had been optimized for long-term expression in stem cells. The percentage of GFP-positive cells was consistently higher following lentiviral versus oncoretroviral transduction, consistent with increased GFP mRNA levels and increased gene transfer efficiency measured by polymerase chain reaction and Southern blot analysis. In vitro GFP and FVIII expression lasted for several months post-transduction, although expression slowly declined. The transduced cells retained their stem/progenitor cell properties since they were still capable of differentiating along adipogenic and osteogenic lineages in vitro while maintaining high GFP and FVIII expression levels. Implantation of lentivirally transduced human BM mesenchymal cells using collagen scaffolds into immunodeficient mice resulted in efficient engraftment of gene-engineered cells and long-term transgene expression in vivo. These biocompatible BM mesenchymal implants represent a reversible, safe, and versatile protein delivery approach because they can be retrieved in the event of an unexpected adverse reaction or when expression of the protein of interest is no longer required. In conclusion, efficient gene delivery with lentiviral vectors in conjunction with the use of bioengineered reversible scaffolds improves the therapeutic prospects of this novel approach for gene therapy, protein delivery, or tissue engineering.
ABA-Hypersensitive Germination3Encodes a Protein Phosphatase 2C (AtPP2CA) That Strongly Regulates Abscisic Acid Signaling during Germination among Arabidopsis Protein Phosphatase 2Cs
Authors: Yoshida Tomo , Nishimura Noriyuki , Kitahata Nobutaka , Kuromori Takashi , Ito Takuya , Asami Tadao , Shinozaki Kazuo , Hirayama Takashi 
Published: December 2005

AbstractThe phytohormone abscisic acid (ABA) regulates physiologically important developmental processes and stress responses. Previously, we reported on Arabidopsis (Arabidopsis thaliana) L. Heynh. ahg mutants, which are hypersensitive to ABA during germination and early growth. Among them, ABA-hypersensitive germination3 (ahg3) showed the strongest ABA hypersensitivity. In this study, we found that the AHG3 gene is identical to AtPP2CA, which encodes a protein phosphatase 2C (PP2C). Although AtPP2CA has been reported to be involved in the ABA response on the basis of results obtained by reverse-genetics approaches, its physiological relevance in the ABA response has not been clarified yet. We demonstrate in vitro and in vivo that the ahg3-1 missense mutation causes the loss of PP2C activity, providing concrete confirmation that this PP2C functions as a negative regulator in ABA signaling. Furthermore, we compared the effects of disruption mutations of eight structurally related PP2C genes of Arabidopsis, including ABI1, ABI2, HAB1, and HAB2, and found that the disruptant mutant of AHG3/AtPP2CA had the strongest ABA hypersensitivity during germination, but it did not display any significant phenotypes in adult plants. Northern-blot analysis clearly showed that AHG3/AtPP2CA is the most active among those PP2C genes in seeds. These results suggest that AHG3/AtPP2CA plays a major role among PP2Cs in the ABA response in seeds and that the functions of those PP2Cs overlap, but their unique tissue- or development-specific expression confers distinct and indispensable physiological functions in the ABA response.
Regionalism and Globalization: The Case of the European Union
Authors: Molchanov Mikhail 
Published: December 2005

AbstractRegional groupings of states are often regarded as the appropriate response to economic and cultural strains generated by the globalization of market forces. The European Union, the most successful regional grouping in the world today, illustrates both the potential and the limitations of such organizations. In one sense, Europe has been in the vanguard of globalization, eliminating traditional barriers to the movement of labor, goods, and capital; but in another sense, the EU can be seen as a protective response to global exigencies and an attempt to safeguard Europe's cultural identity. This chapter assesses the EU in terms of these dynamic contradictions.
Differential Formation and Circulation of North Pacific Central Mode Water
Authors: Oka Eitarou , Suga Toshio 
Published: December 2005

Abstract
A repeat hydrographic section along 165°E was analyzed to verify a westward extension of the formation region of the North Pacific Ocean Central Mode Water (CMW) suggested by previous synoptic observations, and to investigate the relation between the formation region and thermohaline fronts. The CMW formation region extends at least as far west as 155°E, much farther than recognized in a previous study based on climatology. It is located in two interfrontal regions between the Kuroshio Extension front and the Kuroshio Bifurcation front (KBF), and between the KBF and the subarctic front, where two types of CMW—namely, the lighter variety with potential density of 25.8–26.2 kg m−3 and the denser one of 26.3–26.4 kg m−3—are formed. How this differential formation of CMW is reflected in its gyrewide distribution was examined using one-time sections of the World Ocean Circulation Experiment (WOCE) Hydrographic Program in the North Pacific. The main circulation paths of the two types of CMW diverge east of the date line; the lighter variety is located in the inner part of the eastern subtropical gyre, and the denser variety is located in the outer part. These results demonstrate that the frontal structure around the northern boundary of the subtropical gyre, particularly the existence of KBF, is essential in determining the properties and the gyrewide distribution of CMW.