bluuebunny/crossref_metadata_2025_split huggingface dataset:
Patterns of genomic aberrations suggest that Burkitt lymphomas with complex karyotype are distinct from other aggressive B‐cell lymphomas with MYC rearrangement
Authors: Havelange Violaine , Ameye Geneviève , Théate Ivan , Callet‐Bauchu Evelyne , Mugneret Francine , Michaux Lucienne , Dastugue Nicole , Penther Dominique , Barin Carole , Collonge‐Rame Marie‐Agnès , Baranger Laurence , Terré Christine , Nadal Nathalie , Lippert Eric , Laï Jean‐Luc , Cabrol Christine , Tigaud Isabelle , Herens Christian , Hagemeijer Anne , Raphael Martine , Libouton Jeanne‐Marie , Poirel Hélène A. ,   On behalf of the GFCH (Groupe Francophone de Cytogénétique Hématologique)
Published: September 2012

AbstractWe previously showed that complex karyotypes (CK) and chromosome 13q abnormalities have an adverse prognostic impact in childhood Burkitt lymphomas/leukemias (BL) and diffuse large B‐cell lymphomas (DLBCL). The aim of our study was to identify recurrent alterations associated with MYC rearrangements in aggressive B‐cell lymphomas with CK. Multicolor fluorescence in situ hybridization (M‐FISH) was performed in 84 patient samples (59 adults and 25 children), including 37 BL (13 lymphomas and 24 acute leukemias), 12 DLBCL, 28 B‐cell lymphomas with intermediate features (DLBCL/BL), 4 B‐cell precursor acute lymphoblastic leukemias (BCP‐ALL), and 3 unclassifiable B‐cell lymphomas. New (cytogenetically undetected) abnormalities were identified in 80% of patients. We also refined one‐third of the chromosomal aberrations detected by karyotyping. M‐FISH proved to be more useful in identifying chromosomal partners involved in unbalanced translocations and in revealing greater complexity of 13q rearrangements. Most of the newly identified or refined recurrent alterations involved 1q, 13q and 3q (gains/losses), 7q and 18q (gains), or 6q (losses), suggesting that these secondary aberrations may play a role in lymphomagenesis. Several patterns of genomic aberrations were identified: 1q gains in BL, trisomies 7 in DLBCL, and 18q‐translocations in adult non‐BL. BCP‐ALL usually displayed an 18q21 rearrangement. BL karyotypes were less complex and aneuploid than those of other MYC‐rearranged lymphomas. BCP‐ALL and DLBCL/BL were associated with a higher rate of early death than BL and DLBCL. These findings support the categorization of DLBCL/BL as a distinct entity and suggest that BL with CK are indeed different from other aggressive MYC‐rearranged lymphomas, which usually show greater genetic complexity. © 2012 Wiley Periodicals, Inc.
High frequency of MYC gene amplification is a common feature of radiation‐induced sarcomas. Further results from EORTC STBSG TL 01/01
Authors: Käcker Christoph , Marx Alexander , Mössinger Katharina , Svehla Frederike , Schneider Ulrike , Hogendoorn Pancras Cornelis Wilhelmus , Nielsen Ole Steen , Küffer Stefan , Sauer Christian , Fisher Cyril , Hallermann Christian , Hartmann Jörg Thomas , Blay Jean‐Yves , Mechtersheimer Gunhild , Hohenberger Peter , Ströbel Philipp 
Published: September 2012

AbstractIrradiation is a major causative factor among the small subgroup of sarcomas with a known etiology. The prognosis of radiation‐induced sarcomas (RIS) is significantly worse than that of their spontaneous counterparts. The most frequent histological subtypes include undifferentiated pleomorphic sarcomas, angiosarcomas, and leiomyosarcomas. A high frequency of MYC amplifications in radiation‐induced angiosarcomas, but not in primary angiosarcomas, has recently been described. To investigate whether MYC amplifications are also frequent in RIS other than angiosarcomas, we analyzed the MYC amplification status of 83 RIS and 192 sporadic sarcomas by fluorescence in situ hybridization. We found significantly higher numbers of MYC amplifications in RIS than in sporadic sarcomas (P < 0.0001), especially in angiosarcomas, undifferentiated pleomorphic sarcomas, and leiomyosarcomas. Angiosarcomas were special in that MYC amplifications were particularly frequent and always high level, while other RIS showed low‐level amplifications. We conclude that MYC amplifications are a frequent feature of RIS as a group and may contribute to the biology of these tumors. © 2012 Wiley Periodicals, Inc.
The histone methyltransferase Wolf–Hirschhorn syndrome candidate 1‐like 1 (WHSC1L1) is involved in human carcinogenesis
Authors: Kang Daechun , Cho Hyun‐Soo , Toyokawa Gouji , Kogure Masaharu , Yamane Yuka , Iwai Yukiko , Hayami Shinya , Tsunoda Tatsuhiko , Field Helen I. , Matsuda Koichi , Neal David E. , Ponder Bruce A. J. , Maehara Yoshihiko , Nakamura Yusuke , Hamamoto Ryuji 
Published: September 2012

AbstractHistone lysine methylation plays a fundamental role in chromatin organization. Although a set of histone methyltransferases have been identified and biochemically characterized, the pathological roles of their dysfunction in human cancers are still not well understood. In this study, we demonstrate important roles of WHSC1L1 in human carcinogenesis. Expression levels of WHSC1L1 transcript were significantly elevated in various human cancers including bladder carcinoma. Immunohistochemical analysis of bladder, lung, and liver cancers confirmed overexpression of WHSC1L1. WHSC1L1‐specific small interfering RNAs significantly knocked down its expression and resulted in suppression of proliferation of bladder and lung cancer cell lines. WHSC1L1 knockdown induced cell cycle arrest at the G2/M phase followed by multinucleation of cancer cells. Expression profile analysis using Affymetrix GeneChip® showed that WHSC1L1 affected the expression of a number of genes including CCNG1 and NEK7, which are known to play crucial roles in the cell cycle progression at mitosis. As WHSC1L1 expression is significantly low in various normal tissues including vital organs, WHSC1L1 could be a good candidate molecule for development of novel treatment for various types of cancer. © 2012 Wiley Periodicals, Inc.
Global cognition and 8‐year survival among Japanese community‐dwelling older adults
Authors: Iwasa Hajime , Kai Ichiro , Yoshida Yuko , Suzuki Takao , Kim Hunkyung , Yoshida Hideyo 
Published: September 2012

ObjectiveWe sought to examine the longitudinal relationship between cognitive function and all‐cause mortality among Japanese community‐dwelling older adults, using an 8‐year prospective cohort study design with mortality surveillance.MethodsA total of 454 men and 386 women, aged 70 years and older, participated in the study. The Mini Mental State Examination (MMSE) was administered to assess global cognition. The total MMSE score and subscale scores were used as independent variables, and age, gender, education level, chronic disease, sensory deficit, depressive symptoms, and instrumental activities of daily living were used as covariates.ResultsDuring the follow‐up period, 191 subjects (139 men and 52 women) died, and 64 subjects (31 men and 33 women) moved to a different region of Japan and were lost to follow‐up. Use of the multivariate Cox proportional hazards model, adjusted for potential confounders, showed that global cognition was significantly and independently associated with mortality (hazard ratio [HR] = 1.59, 95% confidence interval [CI]: 1.14–2.23 and HR = 2.81, 95% CI: 1.77–4.36 for the middle [24–27 points] and lowest [0–23 points] categories, respectively). Among the MMSE subscales, place orientation (HR = 1.57, 95% CI: 1.09–2.25), calculation (HR = 1.67, 95% CI: 1.18–2.35), and delayed recall (HR = 1.42, 95% CI: 1.03–1.96), were also significantly and independently associated with mortality.ConclusionsOur study suggests that among older individuals, those with lower levels of cognitive function are more likely to have a shorter lifespan compared with those with higher cognitive functioning. Copyright © 2012 John Wiley & Sons, Ltd.
Wet surface resistance of forest canopy in monsoon Asia: Implications for eddy‐covariance measurement of evapotranspiration
Authors: Hong J. , Takagi K. , Ohta T. , Kodama Y. 
Published: September 2012

AbstractDuring the Asian monsoon period, intense precipitation commonly occurs for an extended period in accompaniment with a reduction in solar radiation. This suggests that wet surface evapotranspiration is an important contributor to the total evapotranspiration. Therefore, investigating evapotranspiration over a wet canopy surface is critical to achieve a better understanding of water and energy cycles in Asia. In this study, we estimated surface resistances under wet conditions in a mixed forest influenced by the East Asian monsoon system. We showed that the surface resistance had a non‐negligible magnitude of about 30 sm−1 even under wet conditions. We also found that the ratio between the actual and potential evapotranspiration depended on the friction velocity regardless of the time of day. Our analyses suggest that this dependency is tightly related to the underestimation of turbulent fluxes by the eddy‐covariance system under wet surface conditions. Together, our findings suggest that the wet surface resistance, although small, should be considered in simulating evapotranspiration because the forest ecosystem is strongly coupled to the overlying atmosphere. This could significantly improve the shortcomings of evapotranspiration measurement and modeling in Asian forest canopies influenced by the monsoon system. Copyright © 2012 John Wiley & Sons, Ltd.
Evidence for central sensitization in chronic whiplash: A systematic literature review
Authors: Van Oosterwijck J. , Nijs J. , Meeus M. , Paul L. 
Published: September 2012

AbstractBackground and objectivesIt has been suggested that sensitization of the central nervous system plays an important role in the development and maintenance of chronic (pain) complaints experienced by whiplash patients. According to thePRISMAguidelines, a systematic review was performed to screen and evaluate the existing clinical evidence for the presence of central sensitization in chronic whiplash.Databases and data treatmentPredefined keywords regarding central sensitization and chronic whiplash were combined in electronic search enginesPubMed andWeb ofScience. Full text clinical reports addressing studies of central sensitization in human adults with chronic complaints due to a whiplash trauma were included and reviewed on methodological quality by two independent reviewers.ResultsFrom the 99 articles that were identified, 24 met the inclusion criteria, and 22 articles achieved sufficient scores on methodological quality and were discussed. These studies evaluated the sensitivity to different types of stimuli (mechanical, thermal, electrical). Findings suggest that although different central mechanisms seem to be involved in sustaining the pain complaints in whiplash patients, hypersensitivity of the central nervous system plays a significant role. Persistent pain complaints, local and widespread hyperalgesia, referred pain and (thoracic) allodynia, decreased spinal reflex thresholds, inefficient diffuse noxious inhibitory controls activation and enhanced temporal summation of pain were established in chronic whiplash patients.ConclusionsAlthough the majority of the literature provides evidence for the presence of central sensitization in chronic whiplash, underlying mechanisms are still unclear and future studies with good methodological quality are necessary. In addition, international guidelines for the definition, clinical recognition, assessment and treatment of central sensitization are warranted.
Microcystin‐LR induces cytotoxicity and affects carp immune cells by impairment of their phagocytosis and the organization of the cytoskeleton
Authors: Rymuszka Anna 
Published: September 2012

ABSTRACTMicrocystin‐LR (MC‐LR) is the main isoform of hepatotoxin produced by cyanobacteria, which occur worldwide in the aquatic environment. The present study investigated the in vitro toxic MC‐LR effects on immune cells isolated from the blood of carp. Cells were exposed to different MC‐LR concentrations ranging from 0.01 to 1 µg ml–1 for 2, 6 and 24 h. In addition, the effect of the toxin on the phagocytic activity of leukocytes and on actin and tubulin re‐organization in phagocytic cells was studied. We observed that MC‐LR induces apoptosis in lymphocytes 2 h after incubation, whereas high toxin concentrations induced necrosis in lymphocytes in a time‐ and concentration‐dependent manner. Incubation of the cells for 2 h with 0.1 and 1 µg ml–1 MC‐LR inhibited phagocytosis without affecting apoptosis or glutathione (GSH) levels. Moreover, at this time point and with these concentrations, the toxin also induced a significant re‐organization of the actin cytoskeleton in phagocytes, which subsequently collapsed around the nucleus leading to cell shrinkage and the disappearance of filopodia. These results suggest that both phagocytes and lymphocytes are targets for MC‐LR and the disturbances of phagocytosis may impair the balance of the immune system. Copyright © 2012 John Wiley & Sons, Ltd.
Rotamer decomposition and protein dynamics: Efficiently analyzing dihedral populations from molecular dynamics
Authors: Watanabe Hiroshi , Elstner Marcus , Steinbrecher Thomas 
Published: September 2012

AbstractMolecular mechanics methods have matured into powerful methods to understand the dynamics and flexibility of macromolecules and especially proteins. As multinanosecond to microsecond length molecular dynamics (MD) simulations become commonplace, advanced analysis tools are required to generate scientifically useful information from large amounts of data. Some of the key degrees of freedom to understand protein flexibility and dynamics are the amino acid residue side chain dihedral angles. In this work, we present an easily automated way to summarize and understand the relevant dihedral populations. A tremendous reduction in complexity is achieved by describing dihedral timeseries in terms of histograms decomposed into Gaussians. Using the familiar and widely studied protein lysozyme, it is demonstrated that our approach captures essential properties of protein structure and dynamics. A simple classification scheme is proposed that indicates the rotational state population for each dihedral angle of interest and allows a decision if a given side chain or peptide backbone fragment remains rigid during the course of an MD simulation, adopts a converged distribution between conformational substates or has not reached convergence yet. © 2012 Wiley Periodicals, Inc.
Lattice microbes: High‐performance stochastic simulation method for the reaction‐diffusion master equation
Authors: Roberts Elijah , Stone John E. , Luthey‐Schulten Zaida 
Published: September 2012

AbstractSpatial stochastic simulation is a valuable technique for studying reactions in biological systems. With the availability of high‐performance computing (HPC), the method is poised to allow integration of data from structural, single‐molecule and biochemical studies into coherent computational models of cells. Here, we introduce the Lattice Microbes software package for simulating such cell models on HPC systems. The software performs either well‐stirred or spatially resolved stochastic simulations with approximated cytoplasmic crowding in a fast and efficient manner. Our new algorithm efficiently samples the reaction‐diffusion master equation using NVIDIA graphics processing units and is shown to be two orders of magnitude faster than exact sampling for large systems while maintaining an accuracy of ∼0.1%. Display of cell models and animation of reaction trajectories involving millions of molecules is facilitated using a plug‐in to the popular VMD visualization platform. The Lattice Microbes software is open source and available for download at http://www.scs.illinois.edu/schulten/lm © 2012 Wiley Periodicals, Inc.
Holocene and Lateglacial relative sea‐level change in north‐west England: implications for glacial isostatic adjustment models
Authors: Lloyd Jeremy M. , Zong Yongqiang , Fish Paul , Innes James B. 
Published: September 2012

AbstractRelative sea‐level (RSL) change is reconstructed for central Cumbria, UK, based on litho‐ and biostratigraphical analysis from the Lateglacial to the late Holocene. The RSL curve is constrained using ten new radiocarbon‐dated sea‐level index points in addition to published data. The sea‐level curve identifies a clear Lateglacial sea‐level highstand approximately 2.3 m OD at c. 15–17 k cal a BP followed by rapid RSL fall to below −5 m OD. RSL then rose rapidly during the early Holocene culminating in a mid‐Holocene highstand of approximately 1 m OD at c. 6 k cal a BP followed by gradual fall to the present level. These new data provide an important test for the RSL predictions from glacial isostatic adjustment models, particularly for the Lateglacial where there are very little data from the UK. The new RSL curve shows similar broad‐scale trends in RSL movement predicted by the models. However, the more recent models fail to predict the Lateglacial sea level highstand above present reconstructed by the new data presented here. Future updates to the models are needed to reduce this mismatch. This study highlights the importance for further RSL data to constrain Lateglacial sea level from sites in northern Britain. Copyright © 2012 John Wiley & Sons, Ltd.
A Green Route for the Preparation of Aliphatic Polyesters via Lipase‐catalyzed Prepolymerization and Low‐temperature Postpolymerization
Authors: Vouyiouka Stamatina N. , Topakas Evangelos , Katsini Adamantia , Papaspyrides Constantine D. , Christakopoulos Paul 
Published: September 2012

AbstractLipase‐catalyzed polycondensation of two biobased diacids, 1,12‐dodecanedioic acid and 1,14‐tetradecanedioic acid, with 1,8‐octanediol was achieved using immobilized Lipase B from Candida antarctica. The procedure resulted in partially renewable prepolymers, while poly(octylene adipate) from petroleum‐based adipic acid was also synthesized for comparison reasons, revealing a dependence of the enzymatic polymerization degree on monomer composition. The prepolymers were further submitted to bulk postpolymerization at temperatures in the vicinity of their melting point under flowing nitrogen. The intrinsic viscosity increase was found up to 12%, with no significant impact on the polyesters thermal properties. magnified image
Effect of Clay Modification on the Mechanism of Local Deformations in PA6 Nanocomposites
Authors: Dominkovics Zita , Naveau Elodie , Jérôme Christine , Hári József , Renner Károly , Móczó János , Alexandre Michaël , Pukánszky Béla 
Published: September 2012

AbstractPA nanocomposites are prepared from clays organophilized with a phosphonium and an ammonium salt, and sodium montmorillonite is used as reference. The analysis of mechanical and micromechanical properties of the composites reveal that several micromechanical deformation processes occur in the PA/MMT composites. The matrix cavitates at relatively small stress. Processes related to non‐exfoliated clay structural units are initiated at larger stresses. Sound is emitted mainly by the fracture of particles, but debonding may also occur. The plastic deformation of the matrix dominates at larger stresses and deformations. The various local deformations are independent of each other and composite properties are not determined by silicate related processes but by the deformation of the matrix.magnified image
An Investigation of the Relationship Between Molecular Topology and CYP3A4 Inhibition for Drug‐like Compounds
Authors: Oka Rurika , Engkvist Ola , Chen Hongming 
Published: September 2012

AbstractEarlier studies have shown that CYP3A4 inhibition is influenced by lipophilicity, size and fMF, where fMF is the size of the molecular framework divided by the total size of the molecule. Other previous studies have shown that there is an enrichment of compounds with only one ring system among drugs in comparison to clinical candidates and general bioactive compounds as well as enrichment among natural products and human metabolites compared to general bioactive compounds. Thus a logical extension of the earlier investigations would be to study how ring systems influence CYP3A4 inhibition. It is shown here that compounds with only one ring system have lower CYP3A4 inhibition compared to compounds with several ring systems. The reason therefore is that they are both smaller and have smaller fMF values compared to compounds with several ring systems. The investigation provides additional insights into how a molecule should be constituted to have low CYP3A4 inhibition and may influence library design and compound acquisitions.
A revisit to the validity of born approximation in high frequency scattering problems
Authors: Wang Wei , Li Jianbing , Niu Fengliang 
Published: September 2012

AbstractThe Born approximation is a widely used technique in (inverse) scattering problems to alleviate the difficulty of solving the Lippmann–Schwinger integral equation, but its validity is not well defined, in particular for high frequency cases. Based on applying the stationary phase method and operator theory to the Lippmann–Schwinger integral equation, the high order scattered fields ignored by the Born approximation are well estimated, and then a new validity criterion for the Born approximation is proposed. Compared to conventional criteria, the new one excels in its less restriction and better prediction of the relative error for the approximate technique, especially when a nonuniform scatterer is under consideration. © 2012 Wiley Periodicals, Inc. Microwave Opt Technol Lett 54:2792–2797, 2012; View this article online at wileyonlinelibrary.com. DOI 10.1002/mop.27161
A Tai‐Ji shaped circularly polarized antenna with wide axial ratio bandwidth
Authors: Li Biao , Yin Yingzeng , Ding Yang , Xie Jiaojiao 
Published: September 2012

AbstractA new design of a circularly polarized antenna is presented.The proposed antenna consists of two nonsymmetrical arc arms printed on the opposite side of the substrate. Axial ratio (AR) bandwidth can be significantly enhanced by etching a pair of nonsymmetrical arc slots. The antenna has been fabricated and measured. Experimental results show that the antenna possesses an impedance bandwidth of about 17.9% and a 3‐dB AR bandwidth of 22% relative to the centre frequency of 5.6 GHz. © 2012 Wiley Periodicals, Inc. Microwave Opt Technol Lett 54:2790–2792, 2012; View this article online at wileyonlinelibrary.com. DOI 10.1002/mop.27162
K‐band CMOS VCO using a wide tuning range varactor
Authors: Chang Ho‐Jun , Choi SeungWoon , Yun Tae‐Yeoul 
Published: September 2012

AbstractThis article presents a K‐band CMOS voltage controlled oscillator (VCO) using a wide tuning range MOSFET varactor. The proposed varactor consists of a MOSFET in which the source and drain are connected to each other through a large resistor, the body is grounded through another large resistor, and the gate and source are connected through a capacitor. The newly proposed varactor improves the tuning range of the capacitance compared to that in a conventional MOSFET varactor and a resistors‐added varactor because two large resistors partially cancels the parasitic capacitances of the MOSFET in the depletion mode, and the external capacitor supplements additional capacitance in the inversion mode. The proposed varactor achieves a capacitance tuning range of ±64.5%. The voltage controlled oscillator using the proposed varactor features a wide tuning range characteristic of 11.7% in the K‐Band and shows a good figure‐of‐merit of −186.5 dBc/Hz. © 2012 Wiley Periodicals, Inc. Microwave Opt Technol Lett 54:2751–2754, 2012; View this article online at wileyonlinelibrary.com. DOI 10.1002/mop.27164