bluuebunny/crossref_metadata_2025_split huggingface dataset:
Seasonal Predictability and Spatial Coherence of Rainfall Characteristics in the Tropical Setting of Senegal
Authors: Moron Vincent , Robertson Andrew W. , Ward M. Neil 
Published: November 2006

AbstractThis study examines space–time characteristics of seasonal rainfall predictability in a tropical region by analyzing observed data and model simulations over Senegal. Predictability is analyzed in terms of the spatial coherence of observed interannual variability at the station scale, and within-ensemble coherence of general circulation model (GCM) simulations with observed sea surface temperatures (SSTs) prescribed. Seasonal mean rainfall anomalies are decomposed in terms of daily rainfall frequency and daily mean intensity. The observed spatial coherence is computed from a 13-station network of daily rainfall during the July–September season 1961–98 in terms of (i) interannual variability of a standardized anomaly index (i.e., the average of the normalized anomalies of each station), (ii) the external variance (i.e., the fraction of common variance among stations), and (iii) the number of spatiotemporal degrees of freedom. Spatial coherence of interannual anomalies across stations is found to be much stronger for seasonal rainfall amount and daily occurrence frequency, compared with daily mean intensity of rainfall. Combinatorial analysis of the station observations suggests that, for occurrence and seasonal amount, the empirical number of spatial degrees of freedom is largely insensitive to the number of stations considered, and is between 3 and 4 for Senegal. For daily mean intensity, by contrast, each station is found to convey almost independent information, and the number of degrees of freedom would be expected to increase for a denser network of stations. The GCM estimates of potential predictability and skill associated with the SST forcing are found to be remarkably consistent with those inferred from the observed spatial coherence: there is a moderate-to-strong skill at reproducing the interannual variations of seasonal amounts and rainfall occurrence, whereas the skill is weak for the mean intensity of rainfall. Over Senegal during July–September, it is concluded that (i) regional-scale seasonal amount and rainfall occurrence frequency are predictable from SSTs, (ii) daily mean intensity of rainfall is spatially incoherent and largely unpredictable at the regional scale, and (iii) point-score estimates of seasonal rainfall predictability and skill are subject to large sampling variability.
Principal Component Analysis of the Summertime Winds over the Gulf of California: A Gulf Surge Index
Authors: Bordoni Simona , Stevens Bjorn 
Published: November 2006

Abstract
A principal component analysis of the summertime near-surface Quick Scatterometer (QuikSCAT) winds is used to identify the leading mode of synoptic-scale variability of the low-level flow along the Gulf of California during the North American monsoon season. A gulf surge mode emerges from this analysis as the leading EOF, with the corresponding principal component time series interpretable as an objective index for gulf surge occurrence. This index is used as a reference time series for regression analysis and compositing meteorological fields of interest, to explore the relationship between gulf surges and precipitation over the core and marginal regions of the monsoon, as well as the manifestation of these transient events in the large-scale circulation. It is found that, although seemingly mesoscale features confined over the Gulf of California, gulf surges are intimately linked to patterns of large-scale variability of the eastern Pacific ITCZ and greatly contribute to the definition of the northward extent of the monsoonal rains.
Topographic Effects on a Wintertime Cold Front in Taiwan
Authors: Chien Fang-Ching , Kuo Ying-Hwa 
Published: November 2006

Abstract
This paper describes an observational and numerical study of an intense wintertime cold front that occurred in Taiwan on 8 January 1996. The front was associated with rope clouds at the leading edge, and a broad area of stratiform clouds behind. The front was blocked by the Central Mountain Range of Taiwan and divided into two sections on each side of the mountain range. As the cold air moved southward along the east coast, the increasing westward Coriolis force induced a landward acceleration. After the cold air piled up against the mountains, a coastal pressure ridge developed. The cold air damming yielded a geostrophic balance between the westward Coriolis force and the eastward component of the pressure gradient force in the x direction, and a southward acceleration in the y direction mainly caused by the southward pressure gradient force component. Over the Taiwan Strait, southward pressure gradient forces increased when the low-level stable cold air was confined over the Taiwan Strait, leading to a southward acceleration of the cold air. The formation of a windward ridge off the northwest coast of Taiwan contributed to a large southward acceleration, resulting in the development of a coastal jet. Over the Taiwan Strait, the cold air moved southward the fastest due to the channeling effect. The air parcels along the east coast of Taiwan experienced a downgradient acceleration from the cold air damming and advanced at a slower speed. Those traveling over the western plains and the nearshore coast advanced at the slowest speed. Two sensitivity runs, one without Taiwan’s topography (flat land only) and the other without Taiwan’s landmass, demonstrated the influences of Taiwan’s terrain and water–land contrast on the airflow. The run with no surface fluxes showed that the ocean modified the low-level cold air by supplying surface heat and moisture fluxes. This weakened the front, reduced low-level stability, and increased forced shallow convection (formation of rope clouds) at the leading edge.
An Assessment of ECMWF and NCEP–NCAR Reanalyses in the Southern Hemisphere at the End of the Presatellite Era: Results from the EOLE Experiment (1971–72)
Authors: Hertzog Albert , Basdevant Claude , Vial François 
Published: November 2006

Abstract
This article estimates the biases and standard deviations of the 40-yr European Centre for Medium-Range Weather Forecasts (ECMWF) Re-Analysis (ERA-40) and the 50-yr National Centers for Environmental Prediction–National Center for Atmospheric Research (NCEP–NCAR) Reanalysis (NN50) in the upper troposphere and lower stratosphere in 1971–72. These estimates are obtained by comparing the reanalyzed temperatures and winds with EOLE observations, a dataset collected during 480 superpressure-ballon flights in the Southern Hemisphere (SH). Dedicated algorithms have been developped to control the quality of this dataset and a stringent selection has been performed on the observations. None of the atmospheric centers has assimilated the EOLE dataset, which is therefore fully independent from the reanalyses. It is furthermore argued that the statistics obtained in this study at the end of the presatellite era may be representative of the reanalysis accuracy since 1957. The results of these comparisons indicate that NN50 tends to be a few degrees colder than the observations in the SH subpolar latitudes, while ERA-40 is less hit by this cold-pole issue. Both reanalyses, on the other hand, are found to be warmer than the observations by about 1 K in the subtropics. In contrast, the wind comparisons only exhibit nonsignificant or small reanalysis biases, even though the reanalyzed subtropical jet is slightly displaced equatorward with respect to the observations. The ability of reanalyses to capture the atmospheric synoptic-scale variability in the upper troposphere is assessed by computing the standard deviations of the reanalysis minus observation differences. The ERA-40 and NN50 standard deviations show a maximum (i.e., a poorer reanalysis accuracy) in the SH storm track. However, ERA-40 standard deviations are found to be much larger than NN50 standard deviations. The standard deviations also exhibit a marked decrease above the continents, stressing the heterogeneity of the atmospheric observation network during the presatellite era. Finally, in contrast with previous studies, the reanalysis accuracy does not appear to be better during summer than during winter.
Prediction of Near-Surface Variables at Independent Locations from a Bias-Corrected Ensemble Forecasting System
Authors: Yussouf Nusrat , Stensrud David J. 
Published: November 2006

Abstract
The ability of a multimodel short-range bias-corrected ensemble (BCE) forecasting system, created as part of NOAA’s New England High Resolution Temperature Program during the summer of 2004, to obtain accurate predictions of near-surface variables at independent locations within the model domain is explored. The original BCE approach produces bias-corrected forecasts only at National Weather Service (NWS) observing surface station locations. To extend this approach to obtain bias-corrected forecasts at any given location, an extended BCE technique is developed and applied to the independent observations provided by the Oklahoma Mesonet. First, a Cressman weighting scheme is used to interpolate the bias values of 2-m temperature, 2-m dewpoint temperature, and 10-m wind speeds calculated from the original BCE approach at the NWS observation station locations to the Oklahoma Mesonet locations. These bias values are then added to the raw numerical model forecasts bilinearly interpolated to this same specified location. This process is done for each forecast member within the ensemble and at each forecast time. It is found that the performance of the extended BCE is very competitive with the original BCE approach across the state of Oklahoma. Therefore, a simple postprocessing scheme like the extended BCE system can be used as part of an operational forecasting system to provide reasonably accurate predictions of near-surface variables at any location within the model domain.
Defective apoptosis of peripheral-blood lymphocytes in hyper-IgD and periodic fever syndrome
Authors: Bodar Evelien J. , van der Hilst Jeroen C.H. , van Heerde Waander , van der Meer Jos W. M. , Drenth Joost P. H. , Simon Anna 
Published: November 2006

Abstract
Hereditary periodic fever syndromes are characterized by incapacitating attacks of fever and generalized inflammation. While the mutated genes for the major syndromes in this group are known, the pathogenesis remains unclear. The aim of this study was to investigate apoptosis in patients with periodic fever as a possible pathogenic factor. We measured anisomycin-induced apoptosis with annexin-V flow cytometry and caspase-3/7 activity in peripheral-blood lymphocytes from symptom-free patients with hyper-IgD and periodic fever syndrome (HIDS; n = 10), TNF-receptor–associated periodic syndrome (TRAPS; n = 7), and familial Mediterranean fever (FMF; n = 2). HIDS lymphocytes showed a decreased percentage of apoptosis during remission by both methods compared with controls (17.8% vs 55.4%), whereas no difference was observed in TRAPS or FMF lymphocytes. This defective apoptosis of lymphocytes may be a central pathogenic mechanism in HIDS, since dysfunction of one of the inhibitory mechanisms to curtail the immunologic response could cause an unbridled generalized inflammation after a trivial stimulus.
Spi-1/PU.1 participates in erythroleukemogenesis by inhibiting apoptosis in cooperation with Epo signaling and by blocking erythroid differentiation
Authors: Rimmelé Pauline , Kosmider Olivier , Mayeux Patrick , Moreau-Gachelin Françoise , Guillouf Christel 
Published: November 2006

AbstractOverexpression of the transcription factor Spi-1/PU.1 in mice leads to acute erythroleukemia characterized by a differentiation block at the proerythroblastic stage. In this study, we made use of a new cellular system allowing us to reach graded expression of Spi-1 in preleukemic cells to dissect mechanisms of Spi-1/PU-1 in erythroleukemogenesis. This system is based on conditional production of 1 or 2 spi-1–interfering RNAs stably inserted into spi-1 transgenic proerythroblasts. We show that Spi-1 knock-down was sufficient to reinstate the erythroid differentiation program. This differentiation process was associated with an exit from the cell cycle. Evidence is provided that in the presence of erythropoietin (Epo), Spi-1 displays an antiapoptotic role that is independent of its function in blocking erythroid differentiation. Apoptosis inhibited by Spi-1 did not involve activation of the Fas/FasL signaling pathway nor a failure to activate Epo receptor (EpoR). Furthermore, we found that reducing the Spi-1 level yields to ERK dephosphorylation and increased phosphorylation of AKT and STAT5, suggesting that Spi-1 may affect major signaling pathways downstream of the EpoR in erythroid cells. These findings reveal 2 distinct roles for Spi-1 during erythroleukemogenesis: Spi-1 blocks the erythroid differentiation program and acts to impair apoptotic death in cooperation with an Epo signaling.
HIV-1 infection and pathogenesis in a novel humanized mouse model
Authors: Zhang Liguo , Kovalev Grigoriy I. , Su Lishan 
Published: November 2006

AbstractThe Rag2-γC double-knockout (DKO) mouse lacks T, B, and natural killer (NK) cells, and allows development of a functional human immune system with human CD34+ hematopoietic stem/progenitor cells (DKO-hu HSCs). Normal human T, B, and dendritic cells are present in peripheral blood, thymus, spleen, and lymph nodes. We report that both CCR5 and CXCR4 are expressed on human immature and mature T cells. DKO-hu HSC mice allow efficient HIV-1 infection with plasma high viremia. High levels of productive infection occur in the thymus, spleen, and lymph nodes. Human CD4+ T cells are gradually depleted by HIV-1 in a dose-dependent manner. In addition, HIV-1 infection persists in infected DKO-hu HSC mice for at least 19 weeks, with infectious HIV-1 in lymphoid tissues. Thus, the DKO-hu HSC mouse can serve as a relevant in vivo model to investigate mechanisms of HIV-1 infection and immunopathogenesis as well as to develop anti–HIV-1 therapeutics.
Changes in HRCT findings in patients with respiratory bronchiolitis-associated interstitial lung disease after smoking cessation
Authors: Nakanishi M. , Demura Y. , Mizuno S. , Ameshima S. , Chiba Y. , Miyamori I. , Itoh H. , Kitaichi M. , Ishizaki T. 
Published: November 2006

High-resolution computed tomography (HRCT) findings in patients with respiratory bronchiolitis-associated interstitial lung disease (RB-ILD) are varied and nonspecific. There is no known report of changes in HRCT findings and respiratory function test results for RB-ILD patients following the cessation of smoking.Five patients with RB-ILD, confirmed by surgical lung biopsy, were retrospectively studied. Each stopped cigarette smoking and did not receive corticosteroid therapy after diagnosis. The clinical symptoms, respiratory function test results and HRCT findings obtained at the final observation were compared with those from the time of diagnosis.Ground-glass opacity and centrilobular nodules corresponding to pathological respiratory bronchiolitis, as well as intralobular fine linear-reticular opacity corresponding to fibrosis involving the subpleural alveolar septa, showed computed tomography–pathological correlations. Both clinical symptoms and the diffusing capacity of the lungs for carbon monoxide improved significantly following smoking cessation, as did ground-glass opacity and centrilobular nodules seen during the initial HRCT examination.Centrilobular nodules and ground-glass opacity, which are the main features of high-resolution computed tomography of respiratory bronchiolitis-associated interstitial lung disease patients and represent pathological respiratory bronchiolitis, can be improved by smoking cessation. The diffusing capacity of the lung for carbon monoxide in respiratory function tests can be also improved.
Pulmonary artery distensibility in pulmonary arterial hypertension: an MRI pilot study
Authors: Jardim C. , Rochitte C. E. , Humbert M. , Rubenfeld G. , Jasinowodolinski D. , Carvalho C. R. R. , Souza R. 
Published: November 2006

Pulmonary arterial hypertension (PAH) is a disease of the small vessels in which there is a substantial increase in pulmonary vascular resistance leading to right ventricle failure and death. Invasive haemodynamic evaluation is mandatory not only for diagnosis confirmation but also to address prognosis and eligibility for the use of calcium-channel blockers through an acute vasodilator challenge. Noninvasive surrogate response markers to the acute vasodilator test have been sought.In the present study, the relationship between pulmonary artery distensibility, assessed using magnetic resonance imaging (MRI), and response to acute vasodilator tests was investigated. In total, 19 patients diagnosed with idiopathic PAH without any specific treatment were evaluated. Within a 48-h window after pulmonary artery catheterisation, patients underwent cardiac MRI.Cardiac index, calculated after the determination (invasively and noninvasively) of cardiac output, showed excellent correlation, as did right atrial pressure and right ventricle ejection fraction. Pulmonary artery distensibility was significantly higher in responders. A receiver operating characteristic curve analysis has shown that 10% distensibility was able to differentiate responders from nonresponders with 100% sensitivity and 56% specificity.The present findings suggest that magnetic resonance imaging and pulmonary artery distensibility may be useful noninvasive tools for the evaluation of patients with pulmonary hypertension.
Effect of indacaterol, a novel long-acting β2-agonist, on isolated human bronchi
Authors: Naline E. , Trifilieff A. , Fairhurst R. A. , Advenier C. , Molimard M. 
Published: November 2006

Indacaterol is a novel β2-adrenoceptor agonist in development for the once-daily treatment of asthma and chronic obstructive pulmonary disease. The present study evaluated the relaxant effect of indacaterol on isolated human bronchi obtained from lungs of patients undergoing surgery for lung carcinoma.Potency (-logEC50), maximal relaxant effect (Emax) and onset of action were determined at resting tone. Duration of action was determined against cholinergic neural contraction induced by electrical field stimulation (EFS).At resting tone, -logEC50and Emaxvalues were 8.82±0.41 and 77±5% for indacaterol, 9.84±0.22 and 94±1% for formoterol, 8.36±0.16 and 74±4% for salmeterol, and 8.43±0.22 and 84±4% for salbutamol, respectively.In contrast to salmeterol, indacaterol did not antagonise the isoprenaline response. Indacaterol's onset of action (7.8±0.7 min) was not significantly different from that of formoterol (5.8±0.7 min) or salbutamol (11.0±4.0 min), but it was significantly faster than that of salmeterol (19.4±4.3 min). EFS-induced contractions were inhibited with -logIC50values of 6.96±0.13 (indacaterol), 8.96±0.18 (formoterol), 7.18±0.34 (salmeterol) and 6.39±0.26 (salbutamol). Duration of action was >12 h for indacaterol and salmeterol, and 35.3±8.8 and 14.6±3.7 min for formoterol and salbutamol, respectively.In isolated human bronchi, indacaterol behaved as a long-acting β2-adrenoceptor agonist with high intrinsic efficacy and fast onset of action.
Respiratory infections associated with nontuberculous mycobacteria in non-HIV patients
Authors: Dailloux M. , Abalain M. L. , Laurain C. , Lebrun L. , Loos-Ayav C. , Lozniewski A. , Maugein J. ,   the French Mycobacteria Study Group
Published: November 2006

The incidence of nontuberculous mycobacteria (NTM) pulmonary diseases in HIV-negative patients was studied prospectively from January 1, 2001 to December 31, 2003 by 32 sentinel sites distributed throughout France.In total, 262 patients who yielded NTM isolates from respiratory clinical specimens, met the bacteriological, radiological and clinical criteria established by the American Thoracic Society for NTM respiratory disease. Among the 262 NTM isolates, 234 were slow-growing mycobacteria (125Mycobacterium avium-intracellularecomplex (MAC), 66M. xenopi, 34M. kansasii) and 28 were rapidly growing mycobacteria (25M. abscessuscomplex). In the Paris area,M. xenopiwas the most frequently isolated species, followed by MAC.Most patients (>50%), except those withM. kansasii, had underlying predisposing factors such as pre-existing pulmonary disease or immune deficiency. Asthenia, weight loss, chronic cough and dyspnoea were the most common clinical symptoms. The classical radiological appearance of NTM infections was indistinguishable from that observed in patients with pulmonary tuberculosis.In summary, the incidence of nontuberculous mycobacteria pulmonary infections in HIV-negative patients was estimated at 0.74, 0.73 and 0.72 cases per 100,000 inhabitants in 2001, 2002 and 2003, respectively.
Cis-motifs upstream of the transcription and translation initiation sites are effectively revealed by their positional disequilibrium in eukaryote genomes using frequency distribution curves
Authors: Berendzen Kenneth W , Stüber Kurt , Harter Klaus , Wanke Dierk 
Published: November 2006

Abstract

Background
The discovery of cis-regulatory motifs still remains a challenging task even though the number of sequenced genomes is constantly growing. Computational analyses using pattern search algorithms have been valuable in phylogenetic footprinting approaches as have expression profile experiments to predict co-occurring motifs. Surprisingly little is known about the nature of cis-regulatory element (CRE) distribution in promoters.

Results
In this paper we used the Motif Mapper open-source collection of visual basic scripts for the analysis of motifs in any aligned set of DNA sequences. We focused on promoter motif distribution curves to identify positional over-representation of DNA motifs. Using differentially aligned datasets from the model species Arabidopsis thaliana, Caenorhabditis elegans, Drosophila melanogaster and Saccharomyces cerevisiae, we convincingly demonstrated the importance of the position and orientation for motif discovery. Analysis with known CREs and all possible hexanucleotides showed that some functional elements gather close to the transcription and translation initiation sites and that elements other than the TATA-box motif are conserved between eukaryote promoters. While a high background frequency usually decreases the effectiveness of such an enumerative investigation, we improved our analysis by conducting motif distribution maps using large datasets.

Conclusion
This is the first study to reveal positional over-representation of CREs and promoter motifs in a cross-species approach. CREs and motifs shared between eukaryotic promoters support the observation that an eukaryotic promoter structure has been conserved throughout evolutionary time. Furthermore, with the information on positional enrichment of a motif or a known functional CRE, it is possible to get a more detailed insight into where an element appears to function. This in turn might accelerate the in depth examination of known and yet unknown cis-regulatory sequences in the laboratory.