bluuebunny/crossref_metadata_2025_split huggingface dataset:
PHOENIX, a web interface for (re)analysis of microarray data
Authors: Berger Fabrice , Hertogh Benoît , Pierre Michaël , Bareke Eric , Gaigneaux Anthoula , Depiereux Eric 
Published: November 2009

Abstract
Microarrays are tools to study the expression profile of an entire genome. Technology, statistical tools and biological knowledge in general have evolved over the past ten years and it is now possible to improve analysis of previous datasets. We have developed a web interface called PHOENIX that automates the analysis of microarray data from preprocessing to the evaluation of significance through manual or automated parameterization. At each analytical step, several methods are possible for (re)analysis of data. PHOENIX evaluates a consensus score from several methods and thus determines the performance level of the best methods (even if the best performing method is not known). With an estimate of the true gene list, PHOENIX can evaluate the performance of methods or compare the results with other experiments. Each method used for differential expression analysis and performance evaluation has been implemented in the PEGASE back-end package, along with additional tools to further improve PHOENIX. Future developments will involve the addition of steps (CDF selection, geneset analysis, meta-analysis), methods (PLIER, ANOVA, Limma), benchmarks (spike-in and simulated datasets), and illustration of the results (automatically generated report).
Blue 473-nm solid state diode pumped Nd:YAG/BiBO microchip laser
Authors: Antończak A. , Sotor J. , Matysiak M. , Abramski K. 
Published: November 2009

AbstractIn this paper we present a design of a compact, low power diode-pumped CW Nd:YAG laser operating at 946 nm with intracavity blue light generation at 473 nm for battery operated applications. The nonlinear crystal used in the experiment is a BiBO crystal cut for phase-matching type I. Using 0.8 W of pumping power, 20-mW stabile output power of blue light was achieved. The second harmonic generation conversion efficiency was 2.5%.
Differential association of MUC5AC and CLCA1 expression in small cartilaginous airways of RAO‐affected and control horses
Authors: Gerber V. , De Feijter‐Rupp H. , Wagner J. , Venta P. , Harkema J. R. , Robinson N. E. 
Published: November 2009

Summary Reasons for performing study: Airway mucus accumulation is associated with indoor irritant and allergen exposure in horses with recurrent airway obstruction (RAO). Epidermal growth factor receptor (EGFR) and a chloride channel (calcium activated, family member 1; CLCA1) are key signalling molecules involved in mucin gene expression. Objectives: We hypothesised that exposure to irritants and aeroallergens would lead to increased expression of the mucin gene eqMUC5AC and increased stored mucosubstance in the airways of RAO‐affected horses, associated with increased neutrophils and CLCA1 and EGFR mRNA levels. Methods: We performed quantitative RT‐PCR of eqMUC5AC, CLCA1 and EGFR; volume density measurements of intraepithelial mucosubstances; and cytological differentiation of intraluminal inflammatory cells in small cartilaginous airways from cranial left and right and caudal left and right lung lobes of 5 clinically healthy and 5 RAO‐affected horses that had been exposed to indoor stable environment for 5 days before euthanasia. Results: Neutrophils were increased in RAO‐affected horses compared to clinically healthy controls. EqMUC5AC mRNA levels were positively correlated with both CLCA1 and EGFR mRNA levels in RAO‐affected horses but only with CLCA1 in controls. The relationship between eqMUC5AC and CLCA1 differed in the 2 groups of horses with RAO‐affected animals overexpressing CLCA1 in relation to eqMUC5AC. Conclusions: These data implicate CLCA1 as a signalling molecule in the expression of eqMUC5AC in horses but also suggest differential regulation by CLCA1 and EGFR between horses with RAO and those with milder degrees of airway inflammation.
Prevalence of infiltrative lymphocytic mural folliculitis in equine inflammatory skin diseases
Authors: Yasuda K. , Scott D. W. , Erb H. N. , Mcdonough S. P. 
Published: November 2009

SummaryInfiltrative lymphocytic mural folliculitis (ILMF) is a histopathological reaction pattern reported to occur in a small number of equine inflammatory dermatoses. However, the prevalence of ILMF in a variety of equine dermatoses has not been reported. Skin biopsy specimens from 250 horses with inflammatory dermatoses and from 27 horses with physically healthy skin were therefore evaluated. ILMF was present in 82% of the diseased skin specimens examined. ILMF was not seen in physically healthy skin. It appears that ILMF is frequently seen in a wide variety of equine inflammatory dermatoses and therefore is of little diagnostic significance. However, ILMF is not seen in physically healthy equine skin and the presence of lymphocytes in equine hair follicle epithelium should therefore be considered abnormal.
Health Care Procedures
Authors: Zaiss A. , Schulz S. , Hanser S. 
Published: November 2009

Summary
Background: ICD is used for coding medical diagnoses across the world, but there is no globally accepted coding system for health care procedures. The need for the introduction of a common international medical procedure classification has been addressed by the Australian NCCH, which proposed the International Classification of Health Interventions (ICHI) as the basis of an international procedure classification. In parallel, the French multiaxial Classification Commune des Actes Médicaux (CCAM) has been established.
Objectives: The aim is to compare ICHI to the CCAM architecture and to assess their appropriateness for supporting international comparability of procedure data and give a recommendation for the further development of international procedure classifications.
Methods: The architecture of both ICHI and CCAM was thoroughly analyzed. ICHI classes were mapped to the classes of the multiaxial CCAM basic coding tables. This was done manually by domain experts, which analyzed the exact wording of each ICHI title. The result was assessed in terms of representability and granularity.
Results: 78.4% of ICHI classes could be mapped directly to CCAM. The anatomical site could be represented in 99.3%. Numerous ICHI classes combined anatomical sites requiring more than one CCAM code. Problems arouse due to imprecise ICHI descriptions. Conclusions: CCAM appeared as the more elaborate and mature system whereas ICHI had some drawback regarding ambiguity and varying granularity. It is recommended to improve the structure of ICHI by the beneficial aspects of the CCAM and to avoid semantic ambiguities by applying ontological principles and logic-based representation languages.
On Using References as Evidence
Authors: Talmon J. , Brender J. 
Published: November 2009

Summary
Background: One has to start to consider references as a kind of evidence similar to measured data and observations. Moreover, proper referencing adds to the credibility of a paper and gives appropriate credits to work of others. Experience of reviewers and editors indicate that there is room for improvement in the way that our scientific evidence base is referred to.
Objective: To provide guidelines for referencing in medical informatics publications.
Method: The authors have collected examples of poor as well as good referencing as encountered in manuscripts submitted for review as well as in published literature.
Results and Conclusion: A set of 12 rules for proper referencing was derived. The rationale for each rule is provided and examples of rule violations and proper use of the rule are pre sented.
Identification of Lipoteichoic Acid as a Ligand for Draper in the Phagocytosis of Staphylococcus aureus by Drosophila Hemocytes
Authors: Hashimoto Yumi , Tabuchi Yukichika , Sakurai Kenji , Kutsuna Mayumi , Kurokawa Kenji , Awasaki Takeshi , Sekimizu Kazuhisa , Nakanishi Yoshinobu , Shiratsuchi Akiko 
Published: November 2009

Abstract
Phagocytosis is central to cellular immunity against bacterial infections. As in mammals, both opsonin-dependent and -independent mechanisms of phagocytosis seemingly exist in Drosophila. Although candidate Drosophila receptors for phagocytosis have been reported, how they recognize bacteria, either directly or indirectly, remains to be elucidated. We searched for the Staphylococcus aureus genes required for phagocytosis by Drosophila hemocytes in a screening of mutant strains with defects in the structure of the cell wall. The genes identified included ltaS, which encodes an enzyme responsible for the synthesis of lipoteichoic acid. ltaS-dependent phagocytosis of S. aureus required the receptor Draper but not Eater or Nimrod C1, and Draper-lacking flies showed reduced resistance to a septic infection of S. aureus without a change in a humoral immune response. Finally, lipoteichoic acid bound to the extracellular region of Draper. We propose that lipoteichoic acid serves as a ligand for Draper in the phagocytosis of S. aureus by Drosophila hemocytes and that the phagocytic elimination of invading bacteria is required for flies to survive the infection.
P-Selectin Glycoprotein Ligand-1 Negatively Regulates T-Cell Immune Responses
Authors: Matsumoto Masanori , Miyasaka Masayuki , Hirata Takako 
Published: November 2009

Abstract
Cell surface sialomucins often act as antiadhesive molecules by virtue of their extended structure and negative charge. CD43 is one such sialomucin, expressed on most leukocytes. P-selectin glycoprotein ligand-1 (PSGL-1) is another sialomucin expressed by leukocytes. It serves as a major selectin ligand, but no antiadhesive role for it has been described. In this study, we showed that PSGL-1-deficient T cells, like CD43-deficient T cells, exhibited increased adhesion and proliferation compared with wild-type cells. The loss of both PSGL-1 and CD43 led to a further increase in T cell adhesion and proliferation. The reexpression of full-length PSGL-1 or CD43 in double-deficient CD4+ T cells reversed their increased adhesion and proliferation phenotype. Using chimeric constructs of human CD8 and either PSGL-1 or CD43, we demonstrated that the intracellular domain of PSGL-1 or CD43 is required for suppressing proliferation but not adhesion. Furthermore, in a mouse model of inflammatory bowel disease induced by the adoptive transfer of naive T cells into RAG-deficient hosts, a PSGL-1 deficiency exacerbated the development of inflammation. These results reveal a novel regulatory role for PSGL-1 in T cell adhesion and proliferation and suggest that PSGL-1 negatively regulates T cell immune responses in vivo.
Bioluminescence resonance energy transfer
Authors: Jockers Ralf , Marullo Stefano 
Published: November 2009

AbstractBioluminescence Resonance Energy Transfer (BRET) has become a method of choice to monitor and quantify both constitutive and regulated interactions among proteins in intact cells. Despite the fact that BRET cannot be used to visualize the subcellular compartment where the interaction between two proteins occurs, it offers a number of practical advantages over FRET, including higher sensitivity in microplate‐based high‐throughput assays. The advantages of BRET‐based approaches are illustrated by some significant advances obtained in various fields, such as protein oligomerization, ligand‐induced conformational changes, and regulated movement of proteins between subcellular compartments.
An Overview of Arsenic Metabolism and Toxicity
Authors: Drobna Zuzana , Styblo Miroslav , Thomas David J. 
Published: November 2009

AbstractIt is likely that at least some of the toxic and carcinogenic effects associated with exposure to inorganic arsenic are, in fact, due to actions of its methylated metabolites. Here, we provide an overview of current models for the biological methylation of arsenicals. This information provides a context for understanding the chemical, biochemical, and genetic approaches to elucidation of the formation and function of methylated arsenicals, which are presented in the following units in this chapter. Curr. Protoc. Toxicol. 42:4.31.1‐4.31.6. © 2009 by John Wiley & Sons, Inc.
Analgesics, Antipyretics, and Antiinflammatory Agents
Authors: Nugent Richard A. , Hall Charles M. 
Published: November 2009

Abstract

Opioid Agonists

Synthetic and Semisynthetic Agonists

Opioid Antagonists and Partial Agonists

Other Analgesic Agents

Antiinflammatories and Antipyretics

Economic Aspects
N

‐Vinylamide Polymers
Authors: Login Robert B. 
Published: November 2009

Abstract

Monomers

Homopolymerization of
N
‐Vinyl‐2‐Pyrrolidinone

PVP
Hydrogels

Poly(

N

‐Vinyl‐2‐Pyrrolidinone)

Complexation

Copolymerization

Applications
Peroxides and Peroxide Compounds (Organic)
Authors: Sanchez Jose , Myers Terry N. 
Published: November 2009

AbstractHydroperoxidesDialkyl Peroxidesα‐Oxygen‐Substituted Hydroperoxides and Dialkyl PeroxidesSyntheses, Physical and Chemical PropertiesOzonides and OzonizationPeroxyacidsAcyl PeroxidesAlkyl PeroxyestersManufacture and ProcessingEconomic AspectsHealth and Safety FactorsUses
Water Soluble Polymers
Authors: Glass J. Edward 
Published: November 2009

AbstractCarbohydrate PolymersSynthetic Water‐Soluble PolymersCationic Water‐Soluble PolymersInorganic Water‐Soluble PolymersNew Commercial Water‐Soluble PolymersHydrophobe‐Modification of Water‐Soluble Polymers
Proteasome inhibition with bortezomib suppresses growth and induces apoptosis in osteosarcoma
Authors: Shapovalov Yuriy , Benavidez David , Zuch Daniel , Eliseev Roman A. 
Published: November 2009

AbstractOsteosarcomas are primary bone tumors of osteoblastic origin that mostly affect adolescent patients. These tumors are highly aggressive and metastatic. Previous reports indicate that gain of function of a key osteoblastic differentiation factor, Runx2, leads to growth inhibition in osteosarcoma. We have previously established that Runx2 transcriptionally regulates expression of a major proapoptotic factor, Bax. Runx2 is regulated via proteasomal degradation, and proteasome inhibition has a stimulatory effect on Runx2. In this study, we hypothesized that proteasome inhibition will induce Runx2 and Runx2‐dependent Bax expression sensitizing osteosarcoma cells to apoptosis. Our data showed that a proteasome inhibitor, bortezomib, increased Runx2 and Bax in osteosarcoma cells. In vitro, bortezomib suppressed growth and induced apoptosis in osteosarcoma cells but not in nonmalignant osteoblasts. Experiments involving intratibial tumor xenografts in nude mice demonstrated significant tumor regression in bortezomib‐treated animals. Immunohistochemical studies revealed that bortezomib inhibited cell proliferation and induced apoptosis in osteosarcoma xenografts. These effects correlated with increased immunoreactivity for Runx2 and Bax. In summary, our results indicate that bortezomib suppresses growth and induces apoptosis in osteosarcoma in vitro and in vivo suggesting that proteasome inhibition may be effective as an adjuvant to current treatment regimens for these tumors. Published 2009 UICC. This article is a US Government work and, as such, is in the public domain in the United States of America.
Operating point optimization of self‐linearized differential quantum well electroabsorptive modulator
Authors: Yazdani F. , De Souza E. A. 
Published: November 2009

AbstractElectroabsorptive modulators require large depth of modulation and maximum length of in–out linearity. A systematic approach to optimize the operation of these modulators based on quantum‐confined Stark effect is presented here. The conventional operation of differential modulator, following span linearity maximization by adjusting the incident power of laser beams and modulation depth enhancement by reverse bias voltage adjustment, is presented. The results show the optimum bias voltage as 8 V and read out beam power as 175 nW. © 2009 Wiley Periodicals, Inc. Microwave Opt Technol Lett 52: 1–4, 2010; Published online in Wiley InterScience (www.interscience.wiley.com). DOI 10.1002/mop.24815
Photonic microwave bandpass filter with negative coefficients based on flat‐top
Authors: Jianping Wang , Na Liu , Bosheng Liu , Xianwei Zhou 
Published: November 2009

AbstractIn this article, a novel microwave photonic filter with negative coefficient using semiconductor optical amplifiers and Fiber Bragg Gratings is proposed. Three major factors, including input current, grating coefficients and the input signal power are analyzed and compared respectively with scrutinize their affects to the filter response. Through the simulation, a better performance of the flat‐top microwave photonic filter can be achieved. © 2009 Wiley Periodicals, Inc. Microwave Opt Technol Lett 52: 9–13, 2010; Published online in Wiley InterScience (www.interscience.wiley.com). DOI 10.1002/mop.24824
Effect of superstrate material on a high‐gain antenna using array of parasitic patches
Authors: Gupta R. K. , Mukherjee J. 
Published: November 2009

AbstractThis article highlights the effect of superstrate material on a high‐gain antenna using array of parasitic patches for wireless applications. The antenna structure consists of a microstrip antenna, which feeds an array of square parasitic patches fabricated on a ceramic or FR4 superstrate. The patches on a superstrate are suspended in air at λ0/2. The spacing between parasitic patches and patch dimensions decrease with dielectric constant and, thus, a compact antenna with almost same gain can be designed with high dielectric superstrate. The structures with 5 × 5 array of square parasitic patches provide a gain of 17.5 dB on infinite ground plane in both the cases but the array dimension is 55 × 55 mm2in ceramic as compared to 115 × 115 mm2Antenna with ceramic superstrate on finite ground requires 25% less ground plane size as compared to FR4. Structure with FR4 superstrate is designed, fabricated, and tested. The measured VSWR is <2 over 5.725–5.875 GHz frequency band. The antenna with 5 × 5 array of square parasitic patches provides a gain of 18.0 dB with 92% efficiency, SLL of −18.4 dB, and front to back lobe ratio of more than 20 dB. The proposed structure can be packaged inside an application platform. © 2009 Wiley Periodicals, Inc. Microwave Opt Technol Lett 52: 82–88, 2010; Published online in Wiley InterScience (www.interscience.wiley.com). DOI 10.1002/mop.24850
Harmonic‐suppressing bandpass filter based on coupled triangular open‐loop stepped‐impedance resonators
Authors: Chin Kuo‐Sheng , Chen Deng‐Jun 
Published: November 2009

AbstractThis work develops two harmonic‐suppressing bandpass filters. One has a direct‐coupled‐resonator structure and the other has a cross‐coupled‐resonator structure. The triangular open‐loop stepped‐impedance resonator is used to synthesize filters because it can create two tunable transmission zeros to suppress multi‐spurious responses in the upper stopband. The coupling coefficients of typical coupled pairs of resonators and the external quality factors of two basic feeding configurations are exploited in filter synthesis. A three‐pole Chebyshev filter and a four‐pole selective‐response filter are designed and fabricated herein. The first spurious peaks of these two experimental filters occur at five times and four times the operating frequency, respectively. © 2009 Wiley Periodicals, Inc. Microwave Opt Technol Lett 52: 187–191, 2010; Published online in Wiley InterScience (www.interscience.wiley.com). DOI 10.1002/mop.24866
On the application of symmetry conditions and the convergence rate of modal series in the MOM‐based integral equation analysis of laterally shielded multilayered media
Authors: Golestanirad Laleh , Mattes Michael , Mosig Juan R. 
Published: November 2009

AbstractIntegral equation (IE) formulations solved by the Method of Moments (MoM) have been used successfully to address a vast variety of electromagnetic problems. Printed circuits embedded partially or totally in laterally bounded multilayered media such as microwave filters or planar antennas and their associated distribution networks are most efficiently treated by this technique. In the case that the structure as well as the excitation hold some symmetry requirements, simplifications may be applied on the problem leading to a considerable improvement in the reduction of computational time and the usage of resources. In this article, we have developed formulations providing theoretical background for applying different types of symmetry conditions in the framework of the MoM‐based IE technique applied to printed circuits embedded in shielded multilayered media fed by coaxial lines. Additionally, a comprehensive convergence study has been performed to analyze the effect of mesh resolution and different aspect‐ratios of the rectangular shield on the convergence rate of modal series representing the elements of the MoM matrix. Benefits of applying symmetry simplifications have been pointed out as well. © 2009 Wiley Periodicals, Inc. Microwave Opt Technol Lett 52: 221–226, 2010; Published online in Wiley InterScience (www.interscience.wiley.com). DOI 10.1002/mop.24868
Low‐loss silicon‐on‐quartz (SoQ)‐based aperture‐coupled antenna on RF MEMS packaging platform
Authors: Lim Sungjoon , Hyun Ik‐Jae , Kim Jong‐Man , Jung Tony J. , Baek Chang‐Wook 
Published: November 2009

AbstractThis letter presents a micromachined aperture‐coupled antenna which improves antenna performances as well as simplifies a fabrication process. The SoQ (silicon‐on‐quartz) bonding and BCB (benzocyclobutene) adhesive bonding are employed for a radio frequency microelectro‐mechanical system (RF‐MEMS) packaging platform. The SoQ/BCB packaging platform makes the air cavity and the quartz substrate where the aperture‐coupled antenna is stacked. Therefore, radiation performances can be enhanced from low‐loss air/quartz substrates while a silicon substrate has almost no effects on radiation. Furthermore, the proposed method enables simultaneous integration of the antenna with the RF MEMS devices through a single packaging process. In this letter, the antenna is manufactured based on the proposed method and the fabrication process is carefully described. The s‐parameters and shear strength are measured to evaluate both of antenna and packaging performances. © 2009 Wiley Periodicals, Inc. Microwave Opt Technol Lett 52: 125–128, 2010; Published online in Wiley InterScience (www.interscience.wiley.com). DOI 10.1002/mop.24874
A 94 GHz low‐cost frequency source using a 47 GHz micromachined air‐cavity oscillator and a doubler
Authors: Song Sangsub , Kim Youngmin , Kwon Youngwoo , Seo Kwang‐Seok 
Published: November 2009

AbstractA 94 GHz low‐cost frequency source has been developed using a 47 GHz micromachined air‐cavity oscillator and a 47‐to‐94 GHz doubler on the thin‐film substrate with the flip‐chip interconnection. The 47 GHz micromachined air‐cavity oscillator is a parallel‐feedback configuration using the micromachined air‐cavity as a parallel‐feedback element. As active devices of the oscillator and the doubler, GaAs pseudomorphic high‐electron mobility transistors were flip‐chip mounted on the thin‐film substrate with integrated passives. The developed 94‐GHz frequency source has an output power of about 3 dBm and a low‐phase‐noise of −96 dBc/Hz at 1 MHz offset with an oscillation frequency at 94.25 GHz. This work allows a low‐cost millimeter‐wave frequency source. © 2009 Wiley Periodicals, Inc. Microwave Opt Technol Lett 52: 239–241, 2010; Published online in Wiley InterScience (www.interscience.wiley.com). DOI 10.1002/mop.24884