bluuebunny/crossref_metadata_2025_split huggingface dataset:
Local therapy with CpG motifs in a murine model of allergic airway inflammation in IFN-β knock-out mice
Authors: Matheu Victor , Treschow Alexandra , Teige Ingrid , Navikas Vaidrius , Issazadeh-Navikas Shohreh 
Published: March 2005

Abstract
Background
CpG oligodeoxynucleotides (CpG-ODN) are capable of inducing high amounts of type I IFNs with many immunomodulatory properties. Furthermore, type-I IFNs have been proposed to play a key role in mediating effects of CpG-ODN. The precise role of IFN-β in the immunomodulatory effects of CpG-ODN is not known.

Objective
Here, we aimed to elucidate the role of IFN-β in the anti-allergic effect of CpG motifs.

Methods
We assessed the immune response in OVA-primed/OVA-challenged IFN-β knockout (-/-) mice compared to wild type (WT) control, after intranasal and systemic treatment with synthetic CpG motifs.

Results
Vaccination with CpG-ODN reduced the number of cells in airways of OVA-sensitized WT but not IFN-β-/- mice. Although airway eosinophilia was reduced in both treated groups, they were significantly higher in IFN-β-/- mice. Other inflammatory cells, such as lymphocytes and macrophages were enhanced in airways by CpG treatment in IFN-β-/- mice. The ratio of IFN-γ/IL-4 cytokines in airways was significantly skewed to a Th1 response in WT compared to IFN-β-/- group. In contrast, IL-4 and IgE were reduced with no differences between groups. Ag-specific T-cell proliferation, Th1-cytokines such as IFN-γ, IL-2 and also IL-12 were significantly lower in IFN-β-/- mice. Surprisingly, we discovered that intranasal treatment of mice with CpG-ODN results in mild synovitis particularly in IFN-β-/- mice.

Conclusion
Our results indicate that induction of Th1 response by therapy with CpG-ODN is only slightly and partially dependent on IFN-β, while IFN-β is not an absolute requirement for suppression of airway eosinophilia and IgE. Furthermore, our finding of mild synovitis is a warning for possible negative effects of CpG-ODN vaccination.
wFleaBase: the Daphnia genome database
Authors: Colbourne John K , Singan Vasanth R , Gilbert Don G 
Published: March 2005

Abstract
Background
wFleaBase is a database with the necessary infrastructure to curate, archive and share genetic, molecular and functional genomic data and protocols for an emerging model organism, the microcrustacean Daphnia. Commonly known as the water-flea, Daphnia's ecological merit is unequaled among metazoans, largely because of its sentinel role within freshwater ecosystems and over 200 years of biological investigations. By consequence, the Daphnia Genomics Consortium (DGC) has launched an interdisciplinary research program to create the resources needed to study genes that affect ecological and evolutionary success in natural environments.

Discussion
These tools include the genome database wFleaBase, which currently contains functions to search and extract information from expressed sequenced tags, genome survey sequences and full genome sequencing projects. This new database is built primarily from core components of the Generic Model Organism Database project, and related bioinformatics tools.

Summary
Over the coming year, preliminary genetic maps and the nearly complete genomic sequence of Daphnia pulex will be integrated into wFleaBase, including gene predictions and ortholog assignments based on sequence similarities with eukaryote genes of known function. wFleaBase aims to serve a large ecological and evolutionary research community. Our challenge is to rapidly expand its content and to ultimately integrate genetic and functional genomic information with population-level responses to environmental challenges. URL: http://wfleabase.org/.
Promoter Hypermethylation Is Associated With Tumor Location, Stage, and Subsequent Progression in Transitional Cell Carcinoma
Authors: Catto James W.F. , Azzouzi Abdel-Rahmene , Rehman Ishtiaq , Feeley Kenneth M. , Cross Simon S. , Amira Najla , Fromont Gaelle , Sibony Mathilde , Cussenot Oliver , Meuth Mark , Hamdy Freddie C. 
Published: March 2005

Purpose Transitional cell carcinoma (TCC) is a pan-urothelial disease characterized by multiplicity. Although little is known about the molecular events in upper-tract TCC, similar carcinogenic mechanisms are thought to occur throughout the urinary tract. However, we have previously shown that distinct patterns of microsatellite instability occur in upper and lower urinary tract TCC, suggesting biologic differences between these tumors. Here we investigate the extent of promoter hypermethylation in TCC throughout the urinary tract. Patients and Methods Tissue was obtained from 280 patients (median follow-up, 56 months) whose tumors comprised 116 bladder and 164 upper-tract tumors (UTT). Analysis for hypermethylation at 11 CpG islands, using methylation-sensitive polymerase chain reaction and bisulfite sequencing, was performed for each sample and compared with the tumor's clinicopathologic details, microsatellite instability status, and subsequent behavior. Results Promoter methylation was present in 86% of TCC and occurred both more frequently and more extensively in UTT (94%) than in bladder tumors (76%; P < .0001). Methylation was associated with advanced tumor stage (P = .0001) and higher tumor progression (P = .03) and mortality rates (P = .04), when compared with tumors without methylation. Multivariate analysis revealed that methylation at the RASSF1A and DAPK loci, in addition to tumor stage and grade, were associated with disease progression (P < .04). Conclusion Despite morphologic similarities, there are genetic and epigenetic differences between TCC in the upper and lower urinary tracts. Methylation occurs commonly in urinary tract tumors, may affect carcinogenic mechanisms, and is a prognostic marker and a potential therapeutic target.
Fast-start muscle dynamics in the rainbow troutOncorhynchus mykiss: phase relationship of white muscle shortening and body curvature
Authors: Goldbogen Jeremy A. , Shadwick Robert E. , Fudge Douglas S. , Gosline John M. 
Published: March 2005

SUMMARYMuscle length changes of the lateral myotomal fast fibers of rainbow trout(Oncorhynchus mykiss) were measured using sonomicrometry during induced fast-starts. Simultaneous high-speed videography allowed for the analysis of midline kinematics to estimate the degree of muscle strain that occurs during body deformation. Comparison of these data was used to examine the phase relationship between local muscle shortening and local body bending during unsteady, large amplitude maneuvers. Our analysis finds that muscle shortening is temporally decoupled from body bending, probably due to the influence of hydrodynamic forces. The phase shift was such that midline curvature lagged behind muscle shortening at both the anterior (0.4L,where L is fork length) and posterior (0.7L) axial positions. Stronger escape responses were correlated with high peak strains and rapid strain-wave velocities, but not faster curvature-wave velocities. Under these conditions of high strain, the phase shift at the posterior position is significantly increased, whereas the anterior position fails to be affected. Curvature lag was still observed at both axial locations under conditions of low strain, suggesting that hydrodynamic forces are still significant during weaker escape responses. These data support a previous model that suggests fast-start body bending is determined by the interaction between muscle torque and hydrodynamic resistance along the body.
How does the relative wall thickness of human femora follow the biomechanical optima? An experimental study on mummies
Authors: Évinger Sándor , Suhai Bence , Bernáth Balázs , Gerics Balázs , Pap Ildikó , Horváth Gábor 
Published: March 2005

SUMMARYWe studied how the ratio (K) of the internal:external diameter of human femora follows the biomechanical optima derived earlier by other researchers for marrow-filled tubular bones with circular cross section and minimum mass designed to withstand yield and fatigue, or stiffness, or bending fracture, or impact strengths. With evaluation of radiographs of 107 femora from 57 human mummies the values of K were measured. We found that Kposterior=0.498±0.085 for the posterior radiographic view, and Kmedial=0.589±0.070 for the medial view with Kmin=0.345 and Kmax=0.783. The theoretical optima for K depend on the ratio (Q) of the marrow:bone density. Accepting the assumption of earlier authors that Q=0.50, our data show that human femora are optimised to withstand bending fracture, or yield and fatigue strengths. There were no sex-, age- and length-specific differences in K, and the means of K of the right and left femora of individuals were statistically not significantly different. The biomechanical optimization for K of human femora is not finely tuned. Compared with fox femora, K of human femora follows the biomechanical optimum to a much lesser extent. Although the relative wall thickness W=1–K of human femora are optimised, the very low relative mass increment due to deviation of K from the optimum and the considerable intraspecific variance of K make it probable that an accurate optimization of the relative wall thickness is irrelevant in humans.
The outcome of surgery in 668 patients with acromegaly using current criteria of biochemical ‘cure’
Authors: Nomikos Panagiotis , Buchfelder Michael , Fahlbusch Rudolf 
Published: March 2005

Background and aim: The aim of this study was to illustrate the present role of transsphenoidal surgery as primary therapy in GH-secreting adenomas, and to compare the results concerning control of disease with previous series using older criteria of cure.
Method: We report on a consecutive series of 688 acromegalic patients treated over a time period of 19 years. Biochemical cure was defined as normalisation of basal GH level, suppression of GH levels to below 1 ng/ml during an oral glucose load and normalisation of IGF-I levels. Of the 506 patients undergoing primary transsphenoidal surgery, a total of 57.3% postoperatively fulfilled the criteria used.
Results: The rate of biochemical ‘cure’ correlated with the magnitude of the initial GH levels, the tumour size and invasion. The overall complication rate was below 2%. Mortality in this series was 0.1% (1 of 688). During a follow-up period of 10.7 years only two recurrences (0.4%) occurred. However, in the patients treated by transcranial surgery and by repeat surgery the cure rate was found to be relatively low (5.2 and 21.3% respectively).
Conclusions: These data suggest that surgery remains with very few exceptions the primary treatment of acromegaly for (i) a high cure rate, (ii) low morbidity, (iii) low recurrence rate and (iv) immediate decline of GH. Based on current criteria of cure, recurrences are uncommon. However, cure by surgery alone is improbable in patients harbouring extended, invasive tumours with high secretory activity, in whom further adjuvant treatment is mandatory.
Relationship between inhibin A and B, estradiol and follicle growth dynamics during ovarian stimulation in normo-ovulatory women
Authors: Hohmann Femke P , Laven Joop S E , de Jong Frank H , Fauser Bart C J M 
Published: March 2005

Objective: To investigate the relationship between serum concentrations of inhibin A, inhibin B and estradiol (E2) and the number of developing follicles during the administration of exogenous follicle-stimulating hormone (FSH) in various regimens in normo-ovulatory volunteers and to evaluate if inhibins act as suitable markers for the number of developing follicles during ovarian stimulation.
Design and methods: Serial hormone determinations and assessment of follicle numbers were carried out during unstimulated cycles and during various interventions with exogenous FSH. Subjects were randomized for FSH administration into the following groups: a single high dose (375 IU) during the early follicular phase (group A), 5 consecutive low doses (75 IU/day) starting in the mid follicular phase (group B) or daily low doses (75 IU/day) during the early to late follicular phase (starting on cycle days 3, 5 or 7; groups C, D and E respectively).
Results: Extending the FSH window increases the number of small antral follicles and hence inhibin B serum concentrations. If such an intervention results in multi-follicular growth, mid follicular phase inhibin B (P = 0.001) as well as late follicular phase inhibin B and inhibin A levels are significantly (P < 0.05 and P < 0.01 respectively) increased compared with mono-follicular cycles or the natural cycle. Although mid follicular inhibin B levels correlated well with the number of small antral (P < 0.05) and pre-ovulatory (P < 0.001) follicles in the late follicular phase, mid follicular inhibin A and estradiol serum concentrations only correlated with the number of pre-ovulatory follicles (P < 0.001 and P < 0.01 respectively).
Conclusions: The present data extend our understanding of the relationship between follicle dynamics, serum inhibins and FSH during ovarian hyperstimulation. However, although mid follicular inhibin B does correlate with the number of developing follicles, it does not facilitate the identification of women at risk for multiple follicle development.
The effects of exercise and adipose tissue lipolysis on plasma adiponectin concentration and adiponectin receptor expression in human skeletal muscle
Authors: Punyadeera Chamindie , Zorenc Antoine H G , Koopman René , McAinch Andrew J , Smit Egbert , Manders Ralph , Keizer Hans A , Cameron-Smith David , van Loon Luc J C 
Published: March 2005

Objective: It has been suggested that adiponectin regulates plasma free fatty acid (FFA) clearance by stimulating FFA uptake and/or oxidation in muscle. We aimed to determine changes in plasma adiponectin concentration and adiponectin receptor 1 and 2 mRNA expression in skeletal muscle during and after prolonged exercise under normal, fasting conditions (high FFA trial; HFA) and following pharmacological inhibition of adipose tissue lipolysis (low FFA trial; LFA). Furthermore, we aimed to detect and locate adiponectin in skeletal muscle tissue.Methods: Ten subjects performed two exercise trials (120 min at 50% VO2max). Indirect calorimetry was used to determine total fat oxidation rate. Plasma samples were collected at rest, during exercise and during post-exercise recovery to determine adiponectin, FFA and glycerol concentrations. Muscle biopsies were taken to determine adiponectin protein and adiponectin receptor 1 and 2 mRNA expression and to localise intramyocellular adiponectin.Results: Basal plasma adiponectin concentrations averaged 6.57±0.7 and 6.63±0.8 mg/l in the HFA and LFA trials respectively, and did not change significantly during or after exercise. In the LFA trial, plasma FFA concentrations and total fat oxidation rates were substantially reduced. However, plasma adiponectin and muscle adiponectin receptor 1 and 2 mRNA expression did not differ between trials. Immunohistochemical staining of muscle cross-sections showed the presence of adiponectin in the sarcolemma of individual muscle fibres and within the interfibrillar arterioles.Conclusion: Plasma adiponectin concentrations and adiponectin receptor 1 and 2 mRNA expression in muscle are not acutely regulated by changes in adipose tissue lipolysis and/or plasma FFA concentrations. Adiponectin is abundantly expressed in muscle, and, for the first time, it has been shown to be present in/on the sarcolemma of individual muscle fibres.
Separation Techniques for Carbon Nanotubes
Authors: Krupke R. , Hennrich F. 
Published: March 2005

AbstractSingle‐walled carbon nanotubes have considerable potential as building blocks in future nanoscale electronics. The tubes exist in two modifications, metallic and semiconducting, which might be used in a range of electronic applications. One of the grand challenges is to separate metallic from semiconducting tubes in substantial quantities. In this respect, this article gives a brief overview over the separation techniques in this new field of nanotube research.
Di(p‐tert‐butylphenyl)‐N,N‐di‐(iso‐butyl)carbamoylmethylphosphine oxide and its organotin and uranyl adducts: structural and spectroscopic characterization
Authors: Kapoor Ramesh N. , Guillory Paulette , Schulte Louis , Cervantes‐Lee Francisco , Haiduc Ionel , Parkanyi Laszlo , Pannell Keith H. 
Published: March 2005

AbstractThe single‐crystal structure of the hydrophobic actinide extractant di(p‐tert‐butylphenyl)‐N,N‐di‐(iso‐butyl)carbamoylmethylphosphine oxide (CMPO, 1) has been determined, as has that of its 1:1 chelate complex with uranyl nitrate (2), its 1:1 monodentate complexes with Ph3SnCl (3) and Me2SnCl2 (4) bonding via the PO group. A 1:1 bidentate complex with Ph2SnCl2 bonding via both PO and CO functionalities (5) was obtained which in solution exhibits a CO → Sn bond dissociation to exist as the monodentate isomer coordinating only through the PO group. Copyright © 2005 John Wiley & Sons, Ltd.
Monoorganotin(IV) phosphonates
Authors: Chandrasekhar Vadapalli , Gopal Kandasamy 
Published: March 2005

AbstractRecent progress in the assembly of monoorganotin(IV) phosphonates is reviewed. The molecular structures of these compounds and their dependence on the nature of the organotin precursor and that of the phosphonic acid are discussed. Copyright © 2005 John Wiley & Sons, Ltd.
Biochemical mode of action and differential activity of new ecdysone agonists against mosquitoes and moths
Authors: Palli S. R. , Tice C. M. , Margam V. M. , Clark A. M. 
Published: March 2005

AbstractTHQ (1‐aroyl‐4‐(arylamino)‐1,2,3,4‐tetrahydroquinoline) compounds were identified by FMC Corporation in cell‐based assays that used ecdysone receptors from Drosophila melanogaster, Heliothis virescens, or Plodia interpunctata. THQ compounds showed weak insecticidal activity against H. virescens and, therefore, were not developed further. Several ecdysone agonists based on THQ chemotype have been synthesized and tested for their activity against a number of EcRs in transactivation assays. The THQ compound, RG‐120768, activated AaEcR (EcR from A. aegypti) but did not activate EcRs cloned from other insects. In transactivation assays, all six THQ ligands tested functioned through AaEcR but not through CfEcR (EcR from Choristoneura fumiferana). Three THQ compounds that showed higher activity in transactivation assays were tested in tobacco bud moth, H. virescens, and yellow fever mosquito, A. aegypti. These compounds showed higher activity in A. aegypti when compared to their activity in H. virescens. These data show that the THQ ligands are a new class of non‐steroidal ecdysone agonists with preferential activity against mosquitoes. Arch. Insect Biochem. Physiol. 58:234–242, 2005. © 2005 Wiley‐Liss, Inc.
Differences in tumor core distribution between palpable and nonpalpable prostate tumors in patients diagnosed using extensive transperineal ultrasound‐guided template prostate biopsy
Authors: Demura Takayoshi , Hioka Takaya , Furuno Tsuyoshi , Kaneta Tatsuo , Gotoda Hiroko , Muraoka Shunji , Sato Toshihiro , Mochizuki Tsutomu , Nagamori Satoshi , Shinohara Nobuo 
Published: March 2005

AbstractBACKGROUNDThe authors performed extensive transperineal ultrasound‐guided template prostate biopsies to investigate carcinoma core distribution.METHODSBetween August 2000 and May 2004, 371 men underwent template biopsies. Three hundred twelve patients had not undergone a previous biopsy (first group) and 59 had undergone previous transrectal sextant biopsies (repeat group). Of the 312 patients in the first group, 236 had normal digital rectal examination (DRE) findings (DRE– first group) and 76 patients had an abnormal DRE (DRE+ first group). A mean of 20.1 biopsy cores (range, 9–38 cores) was taken from the entire prostate. The region > 2.0 cm from the rectal face of the prostate was defined as the anterior region and the remaining area was defined as the posterior region.RESULTSIn the DRE– first group, the carcinoma core rate (number of tumor cores/number of biopsy cores) in the anterior region (7.2%) did not differ from that of the posterior region (7.3%) (P = 0.9635). However, in the DRE+ first group, the carcinoma core rate in the posterior region (22.0%) was found to be higher than in the anterior region (13.2%) (P < 0.0001). In the repeat group, the carcinoma core rate in the posterior region (3.1%) was significantly (P = 0.0008) lower than that exhibited in the anterior region (7.2%).CONCLUSIONSThe results of the current study suggest that nonpalpable prostate carcinoma is distributed equally within the entire prostate, although palpable carcinoma is distributed mainly in the posterior region and many of the tumor foci in the anterior region may be missed by a transrectal sextant biopsy. The examination of radical prostatectomy specimens is required to prove these results. Cancer 2005. © 2005 American Cancer Society.
Empirical force‐field assessment: The interplay between backbone torsions and noncovalent term scaling
Authors: Sorin Eric J. , Pande Vijay S. 
Published: March 2005

AbstractThe kinetic and thermodynamic aspects of the helix‐coil transition in polyalanine‐based peptides have been studied at the ensemble level using a distributed computing network. This study builds on a previous report, which critically assessed the performance of several contemporary force fields in reproducing experimental measurements and elucidated the complex nature of helix‐coil systems. Here we consider the effects of modifying backbone torsions and the scaling of noncovalent interactions. Although these elements determine the potential of mean force between atoms separated by three covalent bonds (and thus largely determine the local conformational distributions observed in simulation), we demonstrate that the interplay between these factors is both complex and force field dependent. We quantitatively assess the heliophilicity of several helix‐stabilizing potentials as well as the changes in heliophilicity resulting from such modifications, which can “make or break” the accuracy of a given force field, and our findings suggests that future force field development may need to better consider effect that vary with peptide length. This report also serves as an example of the utility of distributed computing in analyzing and improving upon contemporary force fields at the level of absolute ensemble equilibrium, the next step in force field development. © 2005 Wiley Periodicals, Inc. J Comput Chem 26: 682–690, 2005