bluuebunny/crossref_metadata_2025_split huggingface dataset:
APC resistance during the normal menstrual cycle
Authors: Silveira Angela , Thomassen Stella , Odeberg Jacob , Hamsten Anders , Rosing Jan , Bremme Katarina , Rooijen Marianne van 
Published: November 2007

SummaryIncreased serum levels of endogenous as well as exogenous estrogen are regarded to be responsible for acquired activated protein C (APC) resistance. It was the objective of this study to evaluate whether the physiological increase in serum estradiol concentration during the normal menstrual cycle affects the individual’s sensitivity to APC. Seventy-two women with normal menstrual cycles were included in the study. Blood samples for analysis of estradiol (E2), progesterone (P4) and APC resistance were drawn at two time points of the menstrual cycle (day 3–5 and day 22–25). Two methods of measuring APC resistance were used: the activated partial thromboplastin time (aPTT)-based assay and the endogenous thrombin potential (ETP)-based APC resistance test. Independent of the method used, no changes in APC resistance were found, even though the E2 concentration increased significantly between the two menstrual phases. No correlations between E2 levels and APC resistance, P4 levels and APC resistance or changes in E2 concentrations and changes in APC resistance were detected. Ten women were carriers of the factor VLeiden mutation. Their baseline APC resistance was increased, but their response to elevated E2 during the menstrual cycle did not differ from that of non-carriers. In conclusion, our observations suggest that physiological differences in serum levels of estradiol and progesterone between the early follicular and the luteal phase in a normal menstrual cycle do not have any significant impact on the individual’s sensitivity to APC.
Profibrinolytic activity of the direct thrombin inhibitor melagatran and unfractionated heparin in platelet-poor and platelet-rich clots
Authors: Rossiello Maria , Ammollo Tiziana , Semeraro Fabrizio , Piro Donatella , Colucci Mario 
Published: November 2007

SummaryAnticoagulants have been shown to stimulate fibrinolysis principally via inhibition of thrombin-mediated activation of TAFI (thrombin activatable fibrinolysis inhibitor). Their profibrinolytic effect,however,may vary according to their mechanism of action and to the clot composition. We compared the fibrinolytic activity of the direct thrombin inhibitor melagatran with that of unfractionated heparin in platelet-poor (PPP) and platelet-rich (PRP) models consisting of tissue-factor-induced clots exposed to exogenous t-PA (25 ng/ml). In the PPP clot model, both heparin (0.1–0.6 U/ml) and melagatran (20–320 ng/ml) caused a concentration- dependent shortening of lysis time. However, when drug profibrinolytic activity (lysis ratio) was expressed in function of the aPTT prolongation (aPTT ratio), melagatran was more efficient than heparin. In the PRP clot model, melagatran displayed a fibrinolytic activity fairly comparable to that observed in PPP whilst heparin caused a modest reduction of lysis time only at the highest concentrations. Assay of thrombin and TAFIa generation in defibrinated plasma showed that the presence of platelets markedly reduced the ability of heparin,but not that of melagatran, to inhibit the formation of these enzymes. Altogether these data indicate that melagatran is more efficient than heparin in promoting fibrinolysis, particularly in plateletrich clots, and may thus grant a greater antithrombotic activity by enhancing thrombus dissolution.
Low risk of inhibitor formation in haemophilia patients after a change in treatment from Chinese hamster ovary cell-produced to baby hamster kidney cell-produced recombinant factor VIII
Authors: Smith Jude , Kavanagh Mary , Nolan Beatrice , White Barry , Singleton Evelyn 
Published: November 2007

SummaryThis retrospective survey of haemophilia A patients from multiple treatment centres in Ireland assessed the development of inhibitors following a switch in the prescribed treatment from recombinant factor VIII (rFVIII) produced by Chinese hamster ovary (CHO) cells (rFVIII-CHO) to rFVIII produced by baby hamster kidney (BHK) cells (rFVIII-BHK). Ninety-four patients participated in the survey. Most patients (89.4%) had severe haemophilia. One of 77 (1.3%) patients with no inhibitor history developed an inhibitor. This was a patient with moderate haemophilia A who developed a transient, low-titre (1 BU) de novo inhibitor following surgery. Recurrent inhibitors were detected in three of 17 patients with an inhibitor history during the 20-month post-switch study period. All patients continued on rFVIII-BHK therapy, and all tested negative for inhibitors at the time of their last inhibitor assay during the observation period. These results are consistent with the low levels of inhibitor formation demonstrated in phase III studies of previously treated patients receiving BHK-produced rFVIII and support the low risk of inhibitor formation following a change from rFVIIICHO to rFVIII-BHK.
Use of the pentasaccharide fondaparinux as an anticoagulant during haemodialysis
Authors: Kalicki Robert , Aregger Fabienne , Alberio Lorenzo , Lämmle Bernhard , Frey Felix , Uehlinger Dominik 
Published: November 2007

SummaryNo data about the use of the pentasaccharide fondaparinux, a highly selective indirect inhibitor of factor Xa,in patients treated with haemodialysis are available. Therefore, we investigated the pharmacokinetics and -dynamics of fondaparinux in 12 patients during haemodialysis. The anti-Xa activity (expressed as fondaparinux equivalent) was monitored, a semiquantitative clotting scale (SQCS) ranging from 0 (no visible traces of coagula) to 3 (complete clotting of the dialysis circuit) was applied, and the digital compression time necessary to achieve haemostasis at the puncture site was determined. After an initial period, when the regular heparin dose was replaced once weekly by fondaparinux, 0.05 mg/kg, the pentasaccharide was administered for nine consecutive haemodialysis sessions. Peak anti-Xa activity increased from 0.61 ± 0.14 μg/l after the first dose to 0.89 ± 0.24 μg/l after dose 9 (P<0.001), whereas predialysis anti-Xa activity steadily rose to 0.32 ± 0.09 μg/l (P<0.001). A sufficient but slightly less effective anticoagulation with a mean SQCS of 1.19 ± 0.71 (n=121) was obtained by fondaparinux as compared with 0.65 ± 0.58 (n=60, P<0.005) by 4,825 ± 1,703 U of unfractionated heparin. Mean digital compression time rose slightly during fondaparinux from 23.7 ± 7.4 minutes to 24.8 ± 7.5 minutes (P<0.05) and, more important, six of the 12 patients reported minor bleeding problems during the interdialytic interval. Thus, fondaparinux can be used to prevent circuit clotting during haemodialysis; however, accumulation results in an interdialytic increase of anti-Xa activity. Therefore, fondaparinux should be reserved for patients requiring systemic anticoagulation on the days off dialysis.
A Neural Basis for Percept Stabilization in Binocular Rivalry
Authors: Sterzer Philipp , Rees Geraint 
Published: November 2007

Abstract
When the same visual input has conflicting interpretations, conscious perception can alternate spontaneously between each competing percept. Surprisingly, such bistable perception can be stabilized by intermittent stimulus removal, suggesting the existence of perceptual “memory” across interruptions in stimulation. The neural basis of such a process remains unknown. Here, we studied binocular rivalry, one type of bistable perception, in two linked experiments in human participants. First, we showed, in a behavioral experiment using binocular rivalry between face and grating stimuli, that the stabilizing effect of stimulus removal was specific to perceptual alternations evoked by rivalry, and did not occur following physical alternations in the absence of rivalry. We then used functional magnetic resonance imaging to measure brain activity in a variable delay period of stimulus removal. Activity in the fusiform face area during the delay period following removal of rivalrous stimuli was greater following face than grating perception, whereas such a difference was absent during removal of non-rivalrous stimuli. Moreover, activity in areas of fronto-parietal regions during the delay period correlated with the degree to which individual participants tended to experience percept stabilization. Our findings suggest that percept-related activity in specialized extrastriate visual areas help to stabilize perception during perceptual conflict, and that high-level mechanisms may determine the influence of such signals on conscious perception.
The Seductive Allure of Neuroscience Explanations
Authors: Weisberg Deena Skolnick , Keil Frank C. , Goodstein Joshua , Rawson Elizabeth , Gray Jeremy R. 
Published: November 2007

Abstract
Explanations of psychological phenomena seem to generate more public interest when they contain neuroscientific information. Even irrelevant neuroscience information in an explanation of a psychological phenomenon may interfere with people's abilities to critically consider the underlying logic of this explanation. We tested this hypothesis by giving naïve adults, students in a neuroscience course, and neuroscience experts brief descriptions of psychological phenomena followed by one of four types of explanation, according to a 2 (good explanation vs. bad explanation) × 2 (without neuroscience vs. with neuroscience) design. Crucially, the neuroscience information was irrelevant to the logic of the explanation, as confirmed by the expert subjects. Subjects in all three groups judged good explanations as more satisfying than bad ones. But subjects in the two nonexpert groups additionally judged that explanations with logically irrelevant neuroscience information were more satisfying than explanations without. The neuroscience information had a particularly striking effect on nonexperts' judgments of bad explanations, masking otherwise salient problems in these explanations.
Using Temperature–Salinity Relations in a Global Ocean Implementation of a Multivariate Data Assimilation Scheme
Authors: Bellucci A. , Masina S. , DiPietro P. , Navarra A. 
Published: November 2007

Abstract
In this paper results from the application of an ocean data assimilation (ODA) system, combining a multivariate reduced-order optimal interpolator (OI) scheme with a global ocean general circulation model (OGCM), are described. The present ODA system, designed to assimilate in situ temperature and salinity observations, has been used to produce ocean reanalyses for the 1962–2001 period. The impact of assimilating observed hydrographic data on the ocean mean state and temporal variability is evaluated. A special focus of this work is on the ODA system skill in reproducing a realistic ocean salinity state. Results from a hierarchy of different salinity reanalyses, using varying combinations of assimilated data and background error covariance structures, are described. The impact of the space and time resolution of the background error covariance parameterization on salinity is addressed.
Assessing the Numerical Accuracy of Complex Spherical Shallow-Water Flows
Authors: Mohebalhojeh Ali R. , Dritschel David G. 
Published: November 2007

Abstract
The representation of nonlinear shallow-water flows poses severe challenges for numerical modeling. The use of contour advection with contour surgery for potential vorticity (PV) within the contour-advective semi-Lagrangian (CASL) algorithm makes it possible to handle near-discontinuous distributions of PV with an accuracy beyond what is accessible to conventional algorithms used in numerical weather and climate prediction. The emergence of complex distributions of the materially conserved quantity PV, in the absence of forcing and dissipation, results from large-scale shearing and deformation and is a common feature of high Reynolds number flows in the atmosphere and oceans away from boundary layers. The near-discontinuous PV in CASL sets a limit on the actual numerical accuracy of the Eulerian, grid-based part of CASL. For the spherical shallow-water equations, the limit is studied by comparing the accuracy of CASL algorithms with second-order-centered, fourth-order-compact, and sixth-order-supercompact finite differencing in latitude in conjunction with a spectral treatment in longitude. The comparison is carried out on an unstable midlatitude jet at order one Rossby number and low Froude number that evolves into complex vortical structures with sharp gradients of PV. Quantitative measures of global conservation of energy and angular momentum, and of imbalance as diagnosed using PV inversion by means of Bolin–Charney balance, indicate that fourth-order differencing attains the highest numerical accuracy achievable for such nonlinear, advectively dominated flows.
Convective Episodes in the East-Central United States
Authors: Parker Matthew D. , Ahijevych David A. 
Published: November 2007

Abstract
Nine years of composited radar data are investigated to assess the presence of organized convective episodes in the east-central United States. In the eastern United States, the afternoon maximum in thunderstorms is ubiquitous over land. However, after removing this principal diurnal peak from the radar data, the presence and motion of organized convective systems becomes apparent in both temporally averaged fields and in the statistics of convective episodes identified by an objective algorithm. Convective echoes are diurnally maximized over the Appalachian chain, and are repeatedly observed to move toward the east. Partly as a result of this, the daily maximum in storms is delayed over the Piedmont and coastal plain relative to the Appalachian Mountains and the Atlantic coast. During the 9 yr studied, the objective algorithm identified 2128 total convective episodes (236 yr−1), with several recurring behaviors. Many systems developed over the elevated terrain during the afternoon and moved eastward, often to the coastline and even offshore. In addition, numerous systems formed to the west of the Appalachian Mountains and moved into and across the eastern U.S. study domain. In particular, many nocturnal convective systems from the central United States entered the western side of the study domain, frequently arriving at the eastern mountains around the next day’s afternoon maximum in storm frequency. A fraction of such well-timed systems succeeded in crossing the Appalachians and continuing across the Piedmont and coastal plain. Convective episodes were most frequent during the high-instability, low-shear months of summer, which dominate the year-round statistics. Even so, an important result is that the episodes still occurred almost exclusively in above-average vertical wind shear. Despite the overall dominance of the diurnal cycle, the data show that adequate shear in the region frequently leads to long-lived convective episodes with mesoscale organization.
Educational Administration Quarterly, 1979-2003: An Analysis of Types of Work, Methods of Investigation, and Influences
Authors: Murphy Joseph , Vriesenga Michael , Storey Valerie 
Published: November 2007

Purpose: The objective of this article is to provide an analysis of articles in Education Administration Quarterly (EAQ) over the 25-year period 1979-2003. Approach: The approach is document analysis. Findings: Information is presented on four key themes: (a) types of articles published; (b) methodologies employed; (c) topic areas emphasized; and (d) books and articles exerting considerable influence. Implications: Based on publication patterns, questions are framed that could help shape editorial policy in EAQ . In addition, areas of work that merit greater attention are noted.
Evaluation of the information needs of patients with chronic obstructive pulmonary disease following pulmonary rehabilitation: a focus group study
Authors: Rodgers S. , Dyas J. , Molyneux A.W.P. , Ward M.J. , Revill S.M. 
Published: November 2007

Aims: This study aimed to understand patient information needs and how best to meet them in order to improve rehabilitation provision and aid disease self-management by exploring experiences of people who had recently completed a pulmonary rehabilitation programme in a community hospital setting. Methods: Qualitative research using focus groups was undertaken with 23 patients who had completed pulmonary rehabilitation within the previous four months. The focus groups were tape-recorded and contemporaneous notes made. The tapes were transcribed verbatim and template analysis was used to develop themes. Findings: The key information needs were for a full understanding of the disease to be generated for patients, their families and the wider public much earlier in the disease process and preferably at the point of diagnosis. Patients perceived that they needed to come to terms with the condition. In order to improve disease self-management feelings of anxiety and frustration should to be addressed with the suggestion that individual counselling might be made available through the rehabilitation programme. The need for continued support was highlighted with an emphasis on peer group support activities. Conclusions: The findings have implications for primary care in terms of unmet needs in the early stages of the condition and pulmonary rehabilitation programmes in terms of providing individual counselling and ongoing peer group support to aid disease self-management. Chronic Respiratory Disease 2007; 4: 195—203
Characterization of in vitro antimurine thymocyte globulin–induced regulatory T cells that inhibit graft-versus-host disease in vivo
Authors: Ruzek Melanie C. , Waire James S. , Hopkins Deborah , LaCorcia Gina , Sullivan Jennifer , Roberts Bruce L. , Richards Susan M. , Nahill Sharon R. , Williams John M. , Scaria Abraham , Dzuris John , Shankara Srinivas , Garman Richard D. 
Published: November 2007

AbstractAntithymocyte/antilymphocyte globulins are polyclonal antihuman T-cell antibodies used clinically to treat acute transplant rejection. These reagents deplete T cells, but a rabbit antihuman thymocyte globulin has also been shown to induce regulatory T cells in vitro. To examine whether antithymocyte globulin–induced regulatory cells might be functional in vivo, we generated a corresponding rabbit antimurine thymocyte globulin (mATG) and tested its ability to induce regulatory cells in vitro and whether those cells can inhibit acute graft-versus-host disease (GVHD) in vivo upon adoptive transfer. In vitro, mATG induces a population of CD4+CD25+ T cells that express several cell surface molecules representative of regulatory T cells. These cells do not express Foxp3 at either the protein or mRNA level, but do show suppressive function both in vitro and in vivo when adoptively transferred into a model of GVHD. These results demonstrate that in a murine system, antithymocyte globulin induces cells with suppressive activity that also function in vivo to protect against acute GVHD. Thus, in both murine and human systems, antithymocyte globulins not only deplete T cells, but also appear to generate regulatory cells. The in vitro generation of regulatory cells by anti-thymocyte globulins could provide ad-ditional therapeutic modalities for immune-mediated disease.
Highlights from the Third International Society for Computational Biology Student Council Symposium at the Fifteenth Annual International Conference on Intelligent Systems for Molecular Biology
Authors: Gehlenborg Nils , Corpas Manuel , Janga Sarath Chandra 
Published: November 2007

Abstract
In this meeting report we give an overview of the 3rd International Society for Computational Biology Student Council Symposium. Furthermore, we explain the role of the Student Council and the symposium series in the context of large, international conferences.
Codon usage in twelve species of Drosophila
Authors: Vicario Saverio , Moriyama Etsuko N , Powell Jeffrey R 
Published: November 2007

AbstractBackgroundCodon usage bias (CUB), the uneven use of synonymous codons, is a ubiquitous observation in virtually all organisms examined. The pattern of codon usage is generally similar among closely related species, but differs significantly among distantly related organisms, e.g., bacteria, yeast, andDrosophila. Several explanations for CUB have been offered and some have been supported by observations and experiments, although a thorough understanding of the evolutionary forces (random drift, mutation bias, and selection) and their relative importance remains to be determined. The recently available complete genome DNA sequences of twelve phylogenetically defined species ofDrosophilaoffer a hitherto unprecedented opportunity to examine these problems. We report here the patterns of codon usage in the twelve species and offer insights on possible evolutionary forces involved.Results(1) Codon usage is quite stable across 11/12 of the species: G- and especially C-ending codons are used most frequently, thus defining the preferred codons. (2) The only amino acid that changes in preferred codon is Serine with six species of themelanogastergroup favoring TCC while the other species, particularly subgenusDrosophilaspecies, favor AGC. (3)D. willistoniis an exception to these generalizations in having a shifted codon usage for seven amino acids toward A/T in the wobble position. (4) Amino acids differ in their contribution to overall CUB, Leu having the greatest and Asp the least. (5) Among two-fold degenerate amino acids, A/G ending amino acids have more selection on codon usage than T/C ending amino acids. (6) Among the different chromosome arms or elements, genes on the non-recombining element F (dot chromosome) have the least CUB, while genes on the element A (X chromosome) have the most. (7) Introns indicate that mutation bias in all species is approximately 2:1, AT:GC, the opposite of codon usage bias. (8) There is also evidence for some overall regional bias in base composition that may influence codon usage.ConclusionOverall, these results suggest that natural selection has acted on codon usage in the genusDrosophila, at least often enough to leave a footprint of selection in modern genomes. However, there is evidence in the data that random forces (drift and mutation) have also left patterns in the data, especially in genes under weak selection for codon usage for example genes in regions of low recombination. The documentation of codon usage patterns in each of these twelve genomes also aids in ongoing annotation efforts.
An ant colony optimization algorithm for phylogenetic estimation under the minimum evolution principle
Authors: Catanzaro Daniele , Pesenti Rafflaele , Milinkovitch Michel C 
Published: November 2007

AbstractBackgroundDistance matrix methods constitute a major family of phylogenetic estimation methods, and the minimum evolution (ME) principle (aiming at recovering the phylogeny with shortest length) is one of the most commonly used optimality criteria for estimating phylogenetic trees. The major difficulty for its application is that the number of possible phylogenies grows exponentially with the number of taxa analyzed and the minimum evolution principle is known to belong to theNPMathType@MTEF@5@5@+=feaafiart1ev1aaatCvAUfKttLearuWrP9MDH5MBPbIqV92AaeXatLxBI9gBaebbnrfifHhDYfgasaacPC6xNi=xH8viVGI8Gi=hEeeu0xXdbba9frFj0xb9qqpG0dXdb9aspeI8k8fiI+fsY=rqGqVepae9pg0db9vqaiVgFr0xfr=xfr=xc9adbaqaaeGacaGaaiaabeqaaeqabiWaaaGcbaWenfgDOvwBHrxAJfwnHbqeg0uy0HwzTfgDPnwy1aaceaGae8xdX7Kaeeiuaafaaa@3888@-hard class of problems.ResultsIn this paper, we introduce an Ant Colony Optimization (ACO) algorithm to estimate phylogenies under the minimum evolution principle. ACO is an optimization technique inspired from the foraging behavior of real ant colonies. This behavior is exploited in artificial ant colonies for the search of approximate solutions to discrete optimization problems.ConclusionWe show that the ACO algorithm is potentially competitive in comparison with state-of-the-art algorithms for the minimum evolution principle. This is the first application of an ACO algorithm to the phylogenetic estimation problem.