bluuebunny/crossref_metadata_2025_split huggingface dataset:
Histological evaluation of periodontal regeneration in autogenous tooth transplantation in the dog: a comparison between one and two‐stage surgical techniques, a pilot study
Authors: Marques Ferreira Manuel , Filomena Botelho Maria , Lina Carvalho , Barbara Oliveiros , Palmeirão Carrilho Eunice Virgínia 
Published: January 2010

Abstract –  Objective:  To compare the periodontal regeneration, associated with autogenous tooth transplantation in dogs, using either one‐ or two‐stage surgical techniques.Methods:  The study group consisted of three Beagles, older than 5 months, in which six incisors and six premolars were transplanted to mechanically prepared recipient sockets. One group was transplanted using a one‐stage method to recipient beds prepared immediately before transplantation. The second group of teeth were transplanted using a two‐stage method in which the recipient beds were prepared and left to heal for 7 days before transplantation. Clinical examinations were done every week and the animals were euthanized 9 weeks later. Subsequently, decalcified sections were prepared for routine and imunohistochemical histological evaluation. Periodontal healing was evaluated by undertaking histomorphometric analysis and analyzed using the Mann–Whitney test (P = 0.05).Results:  All the transplanted teeth in both groups survived. No statistically significant difference was found in the complete healing between the treatment groups (P = 0.053). There was no difference between the occurrence of inflammatory root resorption (P = 0.135) and replacement root resorption (P = 0.081).Conclusions:  This study demonstrated that there was no difference between the two surgical techniques in terms of preventing root resorption in transplanted teeth.
High-Throughput Identification of Bacteria and Yeast by Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry in Conventional Medical Microbiology Laboratories
Authors: van Veen S. Q. , Claas E. C. J. , Kuijper Ed J. 
Published: January 2010

ABSTRACT

Matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) is suitable for high-throughput and rapid diagnostics at low costs and can be considered an alternative for conventional biochemical and molecular identification systems in a conventional microbiological laboratory. First, we evaluated MALDI-TOF MS using 327 clinical isolates previously cultured from patient materials and identified by conventional techniques (Vitek-II, API, and biochemical tests). Discrepancies were analyzed by molecular analysis of the 16S genes. Of 327 isolates, 95.1% were identified correctly to genus level, and 85.6% were identified to species level by MALDI-TOF MS. Second, we performed a prospective validation study, including 980 clinical isolates of bacteria and yeasts. Overall performance of MALDI-TOF MS was significantly better than conventional biochemical systems for correct species identification (92.2% and 83.1%, respectively) and produced fewer incorrect genus identifications (0.1% and 1.6%, respectively). Correct species identification by MALDI-TOF MS was observed in 97.7% of
Enterobacteriaceae
, 92% of nonfermentative Gram-negative bacteria, 94.3% of staphylococci, 84.8% of streptococci, 84% of a miscellaneous group (mainly
Haemophilus
,
Actinobacillus
,
Cardiobacterium
,
Eikenella
, and
Kingella
[HACEK]), and 85.2% of yeasts. MALDI-TOF MS had significantly better performance than conventional methods for species identification of staphylococci and genus identification of bacteria belonging to HACEK group. Misidentifications by MALDI-TOF MS were clearly associated with an absence of sufficient spectra from suitable reference strains in the MALDI-TOF MS database. We conclude that MALDI-TOF MS can be implemented easily for routine identification of bacteria (except for pneumococci and viridans streptococci) and yeasts in a medical microbiological laboratory.
Acute Cholecystitis Caused by NontoxigenicVibrio choleraeO1 Inaba
Authors: Vogt Adam P. , Doshi Rupali K. , Higgins Judy E. , Burd Eileen M. , Ribner Bruce S. , Kraft Colleen S. 
Published: January 2010

ABSTRACTA rare case of acute cholecystitis caused by serogroup O1Vibrio choleraein an 83-year-old man is presented. His risk factors for cholecystitis included advanced age and previous abdominal surgeries. The patient had consumed raw oysters several days before presentation. The patient had a poor outcome after admission for this infection, likely due to his underlying illnesses that complicated his hospital course.
Prophylactic Administration of Bacterially Derived Immunomodulators Improves the Outcome of Influenza Virus Infection in a Murine Model
Authors: Norton Elizabeth B. , Clements John D. , Voss Thomas G. , Cárdenas-Freytag Lucia 
Published: January 2010

ABSTRACTProphylactic or therapeutic immunomodulation is an antigen-independent strategy that induces nonspecific immune system activation, thereby enhancing host defense to disease. In this study, we investigated the effect of prophylactic immunomodulation on the outcome of influenza virus infection using three bacterially derived immune-enhancing agents known for promoting distinct immunological profiles. BALB/c mice were treated nasally with either cholera toxin (CT), a mutant form of the CT-relatedEscherichia coliheat-labile enterotoxin designated LT(R192G), or CpG oligodeoxynucleotide. Mice were subsequently challenged with a lethal dose of influenza A/PR/8/34 virus 24 h after the last immunomodulation treatment and either monitored for survival or sacrificed postchallenge for viral and immunological analysis. Treatment with the three immunomodulators prevented or delayed mortality and weight loss, but only CT and LT(R192G) significantly reduced initial lung viral loads as measured by plaque assay. Analysis performed 4 days postinfection indicated that prophylactic treatments with CT, LT(R192G), or CpG resulted in significantly increased numbers of CD4 T cells, B cells, and dendritic cells and altered costimulatory marker expression in the airways of infected mice, coinciding with reduced expression of pulmonary chemokines and the appearance of inducible bronchus-associated lymphoid tissue-like structures in the lungs. Collectively, these results suggest that, despite different immunomodulatory mechanisms, CT, LT(R192G), and CpG induce an initial inflammatory process and enhance the immune response to primary influenza virus challenge while preventing potentially damaging chemokine expression. These studies provide insight into the immunological parameters and immune modulation strategies that have the potential to enhance the nonspecific host response to influenza virus infection.
Breadth of Neutralizing Antibodies Elicited by Stable, Homogeneous Clade A and Clade C HIV-1 gp140 Envelope Trimers in Guinea Pigs
Authors: Nkolola Joseph P. , Peng Hanqin , Settembre Ethan C. , Freeman Michael , Grandpre Lauren E. , Devoy Colleen , Lynch Diana M. , La Porte Annalena , Simmons Nathaniel L. , Bradley Ritu , Montefiori David C. , Seaman Michael S. , Chen Bing , Barouch Dan H. 
Published: January 2010

ABSTRACTThe native envelope (Env) spike on the surface of human immunodeficiency virus type 1 (HIV-1) is trimeric, and thus trimeric Env vaccine immunogens are currently being explored in preclinical immunogenicity studies. Key challenges have included the production and purification of biochemically homogeneous and stable trimers and the evaluation of these immunogens utilizing standardized virus panels for neutralization assays. Here we report the binding and neutralizing antibody (NAb) responses elicited by clade A (92UG037.8) and clade C (CZA97.012) Env gp140 trimer immunogens in guinea pigs. These trimers have been selected and engineered for optimal biochemical stability and have defined antigenic properties. Purified gp140 trimers with Ribi adjuvant elicited potent, cross-clade NAb responses against tier 1 viruses as well as detectable but low-titer NAb responses against select tier 2 viruses from clades A, B, and C. In particular, the clade C trimer elicited NAbs that neutralized 27%, 20%, and 47% of tier 2 viruses from clades A, B, and C, respectively. Heterologous DNA prime, protein boost as well as DNA prime, recombinant adenovirus boost regimens expressing these antigens, however, did not result in an increased magnitude or breadth of NAb responses in this system. These data demonstrate the immunogenicity of stable, homogeneous clade A and clade C gp140 trimers and exemplify the utility of standardized tier 1 and tier 2 virus panels for assessing the NAb responses of candidate HIV-1 Env immunogens.
EFFICIENT NON-INTERSECTION QUERIES ON AGGREGATED GEOMETRIC DATA
Authors: GUPTA PROSENJIT , JANARDAN RAVI , SMID MICHIEL 
Published: January 2010

Geometric intersection searching problems are a well-studied class of query-retrieval problems with many applications. The goal here is to preprocess a set of geometric objects so that the ones that are intersected by a query object can be reported efficiently. Often, a more general version of the problem arises, where the data comes aggregated in disjoint groups and of interest are the groups, not the individual objects, that are intersected by the query object. One approach to a generalized problem is to ignore the grouping, solve the corresponding classical problem, and then infer the groups from the reported answer. However, this is not efficient, since the number of objects intersected can be much larger than the number of groups (i.e., the output size). The problem of designing efficient, output-sensitive query algorithms for generalized intersection searching has received much attention in recent years, and such solutions have been developed for several problems. This paper considers a new class of generalized query-retrieval problems. Specifically, given aggregated geometric data the goal is to report the distinct groups such that no objects from those groups are intersected by the query. Of interest in these generalized non-intersection searching problems are solutions where the query time is sensitive to the output size, i.e., the number of groups reported. Unfortunately, the obvious approaches of (i) solving the corresponding generalized intersection searching problem and reporting the complement, or (ii) solving a generalized intersection searching problem with the complement of the query are either inefficient or incorrect. This paper provides efficient, output-sensitive solutions to several generalized non-intersection searching problems, using techniques such as geometric duality, sparsification, persistence, filtering search, and pruning.
Seismic interpretation of Dinantian carbonate platforms in the Netherlands; implications for the palaeogeographical and structural development of the Northwest European Carboniferous Basin
Authors: Kombrink Henk , Lochem Henk Van , Zwan Kees J.Van Der 
Published: January 2010

Abstract:
The Northwest European Carboniferous Basin is characterized by a series of carbonate platforms and intervening shale-dominated troughs during the Dinantian Sub-period. These structures have been mainly found along the margins of the basin. Here we present the results of an investigation of high-quality 3D seismic surveys, which has allowed the construction of a palaeogeographical and structural framework of the Dinantian Sub-period in the centre of the Northwest European Carboniferous Basin. Analysis of these data has revealed a series of structures characterized by flat tops, well-developed slopes and onlap by overlying strata. These geometrical features suggest that the structures represent Dinantian carbonate platforms, an interpretation that is supported by recently published well data. These findings suggest the following sequential depositional and structural model for the area: (1) during the Tournaisian Stage, carbonate sedimentation took place in basinal areas; (2) continued subsidence, probably induced by rifting, resulted in the gradual onlap of carbonate deposition onto topographically higher areas; (3) during the Late Viséan Stage, rimmed shelf deposition took place, by analogy with observations from the UK and Belgium. The seismically mapped structures represent these rimmed-shelf carbonate platforms.
Age of alkaline rocks in the Seiland Igneous Province, Northern Norway
Authors: Roberts R.J. , Corfu F. , Torsvik T.H. , Hetherington C.J. , Ashwal L.D. 
Published: January 2010

Abstract:
Spatially associated carbonatite and syenite complexes at Breivikbotn on the island of Sørøy, in the Caledonian nappes of northern Norway, have been dated by isotope dilution thermal ionization mass spectrometry U–Pb analysis on zircon and titanite. Zircon crystals in malignite and silico-carbonatite contain many inclusions of Th- and U-rich minerals and have been locally affected by dissolution–reprecipitation processes, all features that tend to cause disturbed U–Pb systems. Some alkalic gneisses also exhibit evidence of new zircon growth during the Caledonian metamorphism. The carbonatite was emplaced into the Kalak Nappe Complex at 574 ± 5 Ma, and various alkaline gneisses and nepheline syenite dykes intruded the neighbouring Breivikbotn Gabbro and its metasedimentary host between 580 and 560 Ma. The alkaline rocks were coeval with, and probably genetically related to major mafic and ultramafic magmatism throughout the Seiland Igneous Province, preceding the emplacement of nepheline syenite pegmatites at 530–520 Ma. The ages of the Seiland Igneous Province indicate formation in an extensional setting, the multistage history of the host Kalak Nappe Complex pointing to a potential origin as an Avalonian-type peri-Gondwanan terrane.
InSAR maps and time series observations of surface displacements of rock salt extruded near Garmsar, northern Iran
Authors: Baikpour Shahram , Zulauf Gernold , Dehghani Maryam , Bahroudi Abbas 
Published: January 2010

Abstract:

A large allochthonous sheet of Eocene rock salt is forming the Eyvanekey plateau west of Garmsar along the northern periphery of the Great Kavir basin. This salt extruded over the central plains of Iran, where the southward advancing front of the Alborz Mountains is offset by the NE–SW-trending Zirab–Garmsar strike-slip fault. Based on nine descending Advanced Synthetic Aperture Radar images, produced by the European Space Agency's ENVISAT satellite from 2003 to 2006, we used interferograms to map the displacement over 22 increments ranging in time from 2 to 18 months. To study the surface deformation at high temporal and spatial resolution, a small subset of interferograms was used to map the mean velocity of surface deformation. The results suggest that the top of the salt is subsiding continuously at rates that depend on the season. The surface displacement rate throughout the region ranges from subsidence of −40 to −50 mm a
−1
to uplift of 20 mm a
−1
. The agricultural lowlands, where groundwater extraction for irrigation exceeds recharge, are subsiding faster than the salt sheet. Correlation of surface displacements with active folds and seismic faults around the salt sheet also suggests that the study area is undergoing active deformation.

Supplementary material:

Interferogram for the period 19.08.2003–14.02.2006 is available at
http://www.geolsoc.org.uk/SUP18383
.
Marginal and Mixed-Effects Models in the Analysis of Human Papillomavirus Natural History Data
Authors: Xue Xiaonan , Gange Stephen J. , Zhong Ye , Burk Robert D. , Minkoff Howard , Massad L. Stewart , Watts D. Heather , Kuniholm Mark H. , Anastos Kathryn , Levine Alexandra M. , Fazzari Melissa , D'Souza Gypsyamber , Plankey Michael , Palefsky Joel M. , Strickler Howard D. 
Published: January 2010

AbstractHuman papillomavirus (HPV) natural history has several characteristics that, at least from a statistical perspective, are not often encountered elsewhere in infectious disease and cancer research. There are, for example, multiple HPV types, and infection by each HPV type may be considered separate events. Although concurrent infections are common, the prevalence, incidence, and duration/persistence of each individual HPV can be separately measured. However, repeated measures involving the same subject tend to be correlated. The probability of detecting any given HPV type, for example, is greater among individuals who are currently positive for at least one other HPV type. Serial testing for HPV over time represents a second form of repeated measures. Statistical inferences that fail to take these correlations into account would be invalid. However, methods that do not use all the data would be inefficient. Marginal and mixed-effects models can address these issues but are not frequently used in HPV research. The current study provides an overview of these methods and then uses HPV data from a cohort of HIV-positive women to illustrate how they may be applied, and compare their results. The findings show the greater efficiency of these models compared with standard logistic regression and Cox models. Because mixed-effects models estimate subject-specific associations, they sometimes gave much higher effect estimates than marginal models, which estimate population-averaged associations. Overall, the results show that marginal and mixed-effects models are efficient for studying HPV natural history, but also highlight the importance of understanding how these models differ. Cancer Epidemiol Biomakers Prev; 19(1); 159–69
Cardiovascular Risk Factors in Adult Survivors of Pediatric Cancer—A Report from the Childhood Cancer Survivor Study
Authors: Meacham Lillian R. , Chow Eric J. , Ness Kirsten K. , Kamdar Kala Y. , Chen Yan , Yasui Yutaka , Oeffinger Kevin C. , Sklar Charles A. , Robison Leslie L. , Mertens Ann C. 
Published: January 2010

Abstract
Background: Childhood cancer survivors are at higher risk of morbidity and mortality from cardiovascular disease compared with the general population.
Methods: Eight thousand five hundred ninety-nine survivors (52% male) and 2,936 siblings (46% male) from the Childhood Cancer Survivor Study, a retrospectively ascertained, prospectively followed study of persons who survived 5 years after childhood cancer diagnosed from 1970 to 1986, were evaluated for body mass index of ≥30 kg/m2 based on self-reported heights and weights and self-reported use of medications for hypertension, dyslipidemia, and impaired glucose metabolism. The presence of three or more of the above constituted Cardiovascular Risk Factor Cluster (CVRFC), a surrogate for Metabolic Syndrome.
Results: Survivors were more likely than siblings to take medications for hypertension [odds ratio (OR), 1.9; 95% confidence interval (95% CI), 1.6-2.2], dyslipidemia (OR, 1.6; 95% CI, 1.3-2.0) or diabetes (OR, 1.7; 95% CI, 1.2-2.3). Among these young adults (mean age of 32 years for survivors and 33 years for siblings), survivors were not more likely than siblings to be obese or have CVRFC. In a multivariable logistic regression analysis, factors associated with having CVRFC included older age at interview [≥40 versus &lt;30 years of age (OR, 8.2; 95% CI, 3.5-19.9)], exposure to total body irradiation (OR, 5.5; 95% CI, 1.5-15.8) or radiation to the chest and abdomen (OR, 2.3; 95% CI, 1.2-2.4), and physical inactivity (OR, 1.7; 95% CI, 1.1-2.6).
Conclusions: Among adult survivors of pediatric cancer, older attained age, exposure to total body irradiation or abdominal plus chest radiation, and a sedentary life-style are associated with CVRFC. Cancer Epidemiol Biomarkers Prev; 19(1); 170–81
A Rigorous and Comprehensive Validation: Common Genetic Variations and Lung Cancer
Authors: Yang Ping , Li Yafei , Jiang Ruoxiang , Cunningham Julie M. , Zhang Fang , de Andrade Mariza 
Published: January 2010

Abstract
Background: Multiple recent genome-wide studies of single nucleotide polymorphisms (SNP) reported associations between candidate chromosome loci and lung cancer susceptibility. We evaluated five of the top candidate SNPs (rs402710, rs2736100, rs4324798, rs16969968, and rs8034191) for their effects on lung cancer risk and overall survival.
Methods: Over 1,700 cases and 2,200 controls were included in this study. Seven independent, complementary case-control data sets were tested for risk assessment encompassing cigarette smokers and never smokers, using unrelated controls and unaffected full-sibling controls. Five patient groups were tested for survival prediction stratified by smoking status, histology subtype, and treatment.
Results: After considering a history of chronic obstructive pulmonary disease as a risk factor altering lung cancer risk and comparing to sibling controls, none of the five SNPs remained significant. However, the variant rs4324798 was significant in predicting overall survival (hazard ratio, 0.46; 95% confidence interval, 0.30-0.73; P = 0.001) in small cell lung cancer.
Conclusions: None of the five candidate SNPs in lung cancer risk can be confirmed in our study. The previously reported association could be explained by disparity in tobacco smoke exposure and chronic obstructive pulmonary disease history between cases and controls. Instead, we found rs4324798 to be an independent predictor in small cell lung cancer survival, warranting further elucidation of the underlying mechanisms.Cancer Epidemiol Biomarkers Prev; 19(1); 240–4
Coffee, Tea, Caffeine Intake, and Risk of Adult Glioma in Three Prospective Cohort Studies
Authors: Holick Crystal N. , Smith Scott G. , Giovannucci Edward , Michaud Dominique S. 
Published: January 2010

Abstract
Current data suggest that caffeinated beverages may be associated with lower risk of glioma. Caffeine has different effects on the brain, some of which could play a role in brain carcinogenesis, and coffee has been consistently associated with reduced risk of liver cancer, thus suggesting a potential anticarcinogenic effect. A total of 335 incident cases of gliomas (men, 133; women, 202) were available from three independent cohort studies. Dietary intake was assessed by food frequency questionnaires obtained at baseline and during follow-up. Cox proportional hazard models were used to estimate incidence rate ratios (RR) and 95% confidence intervals (CI) between consumption of coffee, tea, carbonated beverages, caffeine, and glioma risk adjusting for age and total caloric intake. Estimates from each cohort were pooled using a random-effects model. Consumption of five or more cups of coffee and tea daily compared with no consumption was associated with a decrease risk of glioma (RR, 0.60; 95% CI, 0.41-0.87; Ptrend = 0.04). Inverse, although weaker, associations were also observed between coffee, caffeinated coffee, tea, and carbonated beverages and glioma risk. No association was observed between decaffeinated coffee and glioma risk. Among men, a statistically significant inverse association was observed between caffeine consumption and risk of glioma (RR, 0.46; 95% CI, 0.26-0.81; Ptrend = 0.03); the association was weaker among women. Our findings suggest that consumption of caffeinated beverages, including coffee and tea, may reduce the risk of adult glioma, but further research is warranted to confirm these findings in other populations. Cancer Epidemiol Biomakers Prev; 19(1);39–47