bluuebunny/crossref_metadata_2025_split huggingface dataset:
Selectively Promoting or Preventing Osteoblast Growth on Titanium Functionalized with Polyelectrolyte Multilayers
Authors: Zankovych Sergiy , Bossert Jörg , Faucon Mathilde , Finger Ulrich , Jandt Klaus D. 
Published: August 2011

AbstractTitanium plays an important role in medical applications, such as hip joint implants or fixation plates. These implants must perform differently depending on their clinical application. In particular, the osseointegrative properties required of the implant vary with clinical application. The present work is aimed at the functionalization of titanium surface using polyelectrolyte multilayers consisting of natural biopolymers and testing their cell adhesive properties with respect to the osseointegration capacity.Multilayered coatings were created from chitosan (Chi), hyaluronic acid (HA), and gelatine (Gel) through layer‐by‐layer deposition. Cell adhesion, proliferation, and viability were tested in vitro with the human osteoblast cell line CAL‐72 at timescales up to 7 d. Two multilayer coatings consisting of alternated chitosan/gelatin or chitosan/hyaluronic acid layers with the outmost layer of gelatin (Chi/Gel) or hyaluronic acid (Chi/HA), respectively, were tested. The experimental results showed that surfaces functionalized with Chi/Gel and Chi/HA multilayers demonstrated a good initial adhesion of osteoblasts. After 4 d culturing, osteoblast cells were almost completely detached from the substrates functionalized with Chi/HA multilayers. In contrast to Chi/HA, the proliferation of osteoblasts on substrates with Chi/Gel multilayer coatings was statistically significantly higher compared to the control titanium.We have shown that the growth of osteoblasts can be enhanced or completely prevented on a titanium surface functionalized with polyelectrolyte multilayers consisting of natural biopolymers, as desired. Both multilayer coatings, Chi/Gel and Chi/HA, have potential for applications in the field of titanium implants, where rapid osseointegration is essential, and/or where no ingrowth of the implant is desired, respectively.
Programming many‐core architectures ‐ a case study: dense matrix computations on the Intel single‐chip cloud computer processor
Authors: Marker Bryan , Chan Ernie , Poulson Jack , van de Geijn Robert , Van der Wijngaart Rob F. , Mattson Timothy G. , Kubaska Theodore E. 
Published: August 2011

SUMMARYA message passing, distributed‐memory parallel computer on a chip is one possible design for future, many‐core architectures. We discuss initial experiences with the Intel Single‐chip Cloud Computer research processor, which is a prototype architecture that incorporates 48 cores on a single die that can communicate via a small, shared, on‐die buffer. The experiment is to port a state‐of‐the‐art, distributed‐memory, dense matrix library, Elemental, to this architecture and gain insight from the experience. We show that programmability addressed by this library, especially the proper abstraction for collective communication, greatly aids the porting effort. This enables us to support a wide range of functionality with limited changes to the library code. Copyright © 2011 John Wiley & Sons, Ltd.
Speeding up solving of differential matrix Riccati equations using GPGPU computing and MATLAB
Authors: Peinado Jesus , Ibáñez Jacinto J. , Arias Enrique , Hernández Vicente 
Published: August 2011

SUMMARYIn this work, we developed a parallel algorithm to speed up the resolution of differential matrix Riccati equations using a backward differentiation formula algorithm based on a fixed‐point method. The role and use of differential matrix Riccati equations is especially important in several applications such as optimal control, filtering, and estimation. In some cases, the problem could be large, and it is interesting to speed it up as much as possible. Recently, modern graphic processing units (GPUs) have been used as a way to improve performance. In this paper, we used an approach based on general‐purpose computing on graphics processing units. We used NVIDIA © GPUs with unified architecture. To do this, a special version of basic linear algebra subprograms for GPUs, called CUBLAS, and a package (three different packages were studied) to solve linear systems using GPUs have been used. Moreover, we developed a MATLAB © toolkit to use our implementation from MATLAB in such a way that if the user has a graphic card, the performance of the implementation is improved. If the user does not have such a card, the algorithm can also be run using the machine CPU. Experimental results on a NVIDIA Quadro FX 5800 are shown. Copyright © 2011 John Wiley & Sons, Ltd.
Evolution of a bifurcation in a meandering river with adjustable channel widths, Rhine delta apex, The Netherlands
Authors: Kleinhans Maarten G. , Cohen Kim M. , Hoekstra Jantine , IJmker Janneke M. 
Published: August 2011

ABSTRACTRivers may dramatically change course on a fluvial plain. Such an avulsion temporarily leads to two active channels connected at a bifurcation. Here we study the effect of dynamic meandering at the bifurcation and the effect of channel width adjustment to changing discharge in both downstream branches on the evolution of a bifurcation and coexisting channels. As an example, we reconstructed the last major avulsion at the Rhine delta apex.We combined historical and geological data to reconstruct a slowly developing avulsion process spanning 2000 years and involving channel width adjustment and meandering at the bifurcation. Based on earlier idealised models, we developed a one‐dimensional model for long‐term morphodynamic prediction of upstream channel and bifurcates connected at the bifurcation node. The model predicts flow and sediment partitioning at the node, including the effect of migrating meanders at the bifurcation and channel width adjustment.Bifurcate channel width adaptation to changing discharge partitioning dramatically slows the pacing of bifurcation evolution because the sediment balance for width adjustment and bed evolution are coupled. The model further shows that meandering at the bifurcation modulates channel abandonment or enlargement periodically. This explains hitherto unrecognised reactivation signals in the sedimentary record of the studied bifurcation meander belts, newly identified in our geological reconstruction. Historical maps show that bifurcation migration due to meander bend dynamics increases the bifurcation angle, which increases the rate of closure of one bifurcate.The combination of model and reconstruction identifies the relevant timescales for bifurcation evolution and avulsion duration. These are the time required to fill one downstream channel over one backwater length, the time to translate one meander wavelength downstream and, for strong river banks, the adaptation timescale to adjust channel width. The findings have relevance for all avulsions where channel width can adjust to changing discharge and where meandering occurs. Copyright © 2011 John Wiley & Sons, Ltd.
Transcriptional profiling in Saccharomyces cerevisiae relevant for predicting alachlor mechanisms of toxicity
Authors: Gil Fátima N , Gonçalves Alina C , Jacinto Maria João , Becker Jörg D , Viegas Cristina A 
Published: August 2011

Abstract
Alachlor has been a commonly applied herbicide and is a substance of ecotoxicological concern. The present study aims to identify molecular biomarkers in the eukaryotic model Saccharomyces cerevisiae that can be used to predict potential cytotoxic effects of alachlor, while providing new mechanistic clues with possible relevance for experimentally less accessible eukaryotes. It focuses on genome-wide expression profiling in a yeast population in response to two exposure scenarios exerting effects from slight to moderate magnitude at phenotypic level. In particular, 100 and 264 genes, respectively, were found as differentially expressed on a 2-h exposure of yeast cells to the lowest observed effect concentration (110 mg/L) and the 20% inhibitory concentration (200 mg/L) of alachlor, in comparison with cells not exposed to the herbicide. The datasets of alachlor-responsive genes showed functional enrichment in diverse metabolic, transmembrane transport, cell defense, and detoxification categories. In general, the modifications in transcript levels of selected candidate biomarkers, assessed by quantitative reverse transcriptase polymerase chain reaction, confirmed the microarray data and varied consistently with the growth inhibitory effects of alachlor. Approximately 16% of the proteins encoded by alachlor-differentially expressed genes were found to share significant homology with proteins from ecologically relevant eukaryotic species. The biological relevance of these results is discussed in relation to new insights into the potential adverse effects of alachlor in health of organisms from ecosystems, particularly in worst-case situations such as accidental spills or careless storage, usage, and disposal. Environ. Toxicol. Chem. 2011;30:2506–2518. © 2011 SETAC
Avoidance, weight loss, and cocoon production assessment for Eisenia fetida exposed to C60 in soil
Authors: Li Dong , Alvarez Pedro J.J 
Published: August 2011

Abstract
Eisenia fetida was used as a model terrestrial organism to assess the potential ecotoxicity of molecular pristine C60 in soil. Reproduction (assessed by counting cocoon numbers) was hindered only at very high C60 concentrations (5% by weight), and C60 (up to 1%) was not avoided and did not hinder earthworm growth. This suggests that E. fetida is unlikely to experience acute toxicity as a result of C60 occurrence in soil. Whether sublethal toxicity may decrease earthworm populations that are chronically exposed to C60 at lower concentrations remains to be determined. Environ. Toxicol. Chem. 2011;30:2542–2545. © 2011 SETAC
Probabilistic assessment of one‐step‐ahead rainfall variation by Split Markov Process
Authors: Maity Rajib 
Published: August 2011

AbstractIn this paper, Split Markov Process (SMP) is developed to assess one‐step‐ahead variation of daily rainfall at a rain gauge station. SMP is an advancement of general Markov Process and specially developed for probabilistic assessment of change in daily rainfall magnitude. The approach is based on a first‐order Markov chain to simulate daily rainfall variation at a point through state/sub‐state transitional probability matrix (TPM). The state/sub‐state TPM is based on the historical transitions from a particular state to a particular sub‐state, which is the basic difference between SMP and general Markov Process. The cumulative state/sub‐state TPM is represented in a contour plot at different probability levels. The developed cumulative state/sub‐state TPM is used to assess the possible range of rainfall in next time step, in a probabilistic sense. Application of SMP is investigated for daily rainfall at four rain gauge stations – Khandwa, Jabalpur, Sambalpur, and Puri, located at various parts in India. There are 99 years of record available out of which approximately 80% of data are used for calibration, and 20% of data are used to assess the performance. Thus, 80 years of daily monsoon rainfall is used to develop the state/sub‐state TPM, and 19 years data are used to investigate its performance. Model performance is assessed in terms of hit rate (HR), false alarm rate (FAR), and percentage captured. It is found that percentage captured is maximum for Khandwa (70%) and minimum for Sambalpur (44%) whereas hit rate is maximum for Sambalpur and minimum for Khandwa (73%). FAR is around 30% or below for Jabalpur, Sambalpur, and Puri. FAR is maximum for Khandwa (37%). Overall, the assessed range, particularly the upper limit, provides a quantification possible extreme value in the next time step, which is a very useful information to tackle the extreme events, such as flooding, water logging and so on. Copyright © 2011 John Wiley & Sons, Ltd.
Reo + mCRL2 : A framework for model-checking dataflow in service compositions
Authors: Kokash Natallia , Krause Christian , de Vink Erik 
Published: August 2011

Abstract
The paradigm of service-oriented computing revolutionized the field of software engineering. According to this paradigm, new systems are composed of existing stand-alone services to support complex cross-organizational business processes. Correct communication of these services is not possible without a proper coordination mechanism. The Reo coordination language is a channel-based modeling language that introduces various types of channels and their composition rules. By composing Reo channels, one can specify Reo connectors that realize arbitrary complex behavioral protocols. Several formalisms have been introduced to give semantics to Reo. In their most basic form, they reflect service synchronization and dataflow constraints imposed by connectors. To ensure that the composed system behaves as intended, we need a wide range of automated verification tools to assist service composition designers. In this paper, we present our framework for the verification of Reo using the mCRL2 toolset. We unify our previous work on mapping various semantic models for Reo, namely, constraint automata, timed constraint automata, coloring semantics and the newly developed action constraint automata, to the process algebraic specification language of mCRL2, address the correctness of this mapping, discuss tool support, and present a detailed example that illustrates the use of Reo empowered with mCRL2 for the analysis of dataflow in service-based process models.
Attitudes toward political engagement and willingness to participate in politics: Trajectories throughout adolescence ⋆
Authors: Eckstein Katharina , Noack Peter , Gniewosz Burkhard 
Published: August 2011

ABSTRACTDrawing on data from a longitudinal cohort‐sequential project, the present study examined developmental trajectories of adolescents’ attitudes toward political engagement and their willingness to participate in politics from grade 7 to 11 while accounting for the influence of school track and gender. Moreover, stabilities on the dependent variables were assessed. The results revealed differential trajectories regarding adolescents’ educational level. Increases were mainly shown for students attending the college‐bound school track. Generally, both orientations toward political behaviors were shown to become more stable throughout the adolescent years. Together, the findings confirmed adolescence to be a crucial period in life concerning the emergence, consolidation, and development of political points of view.
Activity‐dependent reduction of dopamine D2 receptors during a postnatal critical period of plasticity in rat striatum is not affected by prenatal haloperidol treatment
Authors: Soiza‐Reilly Mariano , Azcurra Julio M. 
Published: August 2011

AbstractMotor activity induced in the Circling Training test (CT) during a postnatal (PN) critical period of plasticity (PN30–37) produces a long‐lasting decrease in the number of binding sites and mRNA expression levels of the dopamine D2 receptor (D2R) in rat striatum. Prenatal exposure to the antipsychotic haloperidol also decreases postnatal levels of the striatal D2R in the offspring. We examined whether such fetal exposure to haloperidol could affect the activity‐dependent reduction of the D2R system during the critical period. Half of the male offspring exposed to either haloperidol (2.5 mg/kg/day), i.p.) or saline during gestational days 5–18 were subjected to the CT during the critical period, while the remaining represented CT control animals. The adult number of binding sites and mRNA expression levels of the striatal D2R at PN90 were not changed by prenatal haloperidol treatment alone. On the other hand, only pups subjected to the CT during the critical period showed decreases in both studied parameters, regardless the prenatal treatment. These findings indicated that the postnatal reduction of the striatal D2R binding induced prenatally by haloperidol does not affect long‐lasting activity‐dependent plastic changes on the same receptor system elicited by motor activity in an ontogenetic critical period of plasticity in rat striatum.
Developmental differences in peripheral glabrous skin mechanosensory nerve receptive field and intracellular electrophysiologic properties: phenotypic characterization in infant and juvenile rats
Authors: Boada M. Danilo , Gutierrez Silvia , Houle Timothy , Eisenach James C. , Ririe Douglas G. 
Published: August 2011

AbstractDevelopmental differences in peripheral neuron characteristics and functionality exist. Direct measurement of active and passive electrophysiologic and receptive field characteristics of single mechanosensitive neurons in glabrous skin was performed and phenotypic characterization of fiber subtypes was applied to analyze developmental differences in peripheral mechanosensitive afferents. After Institutional approval, male Sprague‐Dawley infant (P7: postnatal day 7) and juvenile (P28) rats were anesthetized and single cell intracellular electrophysiology was performed in the dorsal root ganglion (DRG) soma of mechanosensitive cells with receptive field (RF) in the glabrous skin of the hindpaw. Passive and active electrical properties of the cells and RF size and characteristics determined. Fiber subtype classification was performed and developmental differences in fiber subtype properties analyzed. RF size was smaller at P7 for both low and high threshold mechanoreceptor (LTMR and HTMR) with no differences between A‐ and C‐HTMR (AHTMR and CHTMR). The RF size was also correlated to anatomic location on glabrous skin, toes having smaller RF. Conduction velocity (CV) was adequate at P28 for AHTMR and CHTMR classification, but not at P7. Only width of the action potential at half height (D50) was significantly different between HTMR at P7, while D50, CV and amplitude of the AP were significant for HTMR at P28. RF size is determined in part by the RF distribution of the peripheral neuron. Developmental differences in RF size occur with larger RF sizes occurring in younger animals. This is consistent with RF size differences determined by measuring RF in the spinal cord, except the peripheral RF is much smaller, more refined, and in some cases pinpoint. Developmental differences make CV alone unreliable for neuron classification. Utilizing integration of all measured parameters allows classification of neurons into subtypes even at the younger ages. This will prove important in understanding changes that occur in the peripheral sensory afferents in the face of ongoing development and injury early in life.
Concentration‐dependent cellular responses of arsenic in keratinocytes
Authors: Liao Wei‐Ting , Lan Cheng‐Che Eric , Lee Chih‐Hung , Yu Hsin‐Su 
Published: August 2011

AbstractArsenic (As) is considered as a human carcinogen or tumor‐promoting agent. Epidemiological evidences indicated that cancer incidences of residents in arseniasis areas were significantly higher in multiple organs, including urinary bladder, lungs, and especially the skin, than those living in non‐arseniasis areas. In the context of skin cancers, keratinocytes are believed to be the main target cells in As carcinogenesis. Therefore, we discuss the significance of keratinocyte‐specific effects of As on skin carcinogenesis. As is known to be cytotoxic because of its chemical reactions with the thiol group of proteins and its ability to generate free radicals during cellular metabolism. However, at relatively low concentrations, As shows stimulatory effects, such as cell activation and proliferation. Because long‐term As exposure is associated with skin carcinogenesis, we reviewed the mechanisms of As‐induced keratinocyte dysfunctions by means of time‐ and concentration‐dependent cellular responses. The mechanisms and interactions underlying As‐induced keratinocyte dysfunctions not only provide a model of As in skin carcinogenesis process but also help in understanding the regulation of As carcinogenesis in other internal organs.
NFIB is a potential target for estrogen receptor‐negative breast cancers
Authors: Moon Hyeong-Gon , Hwang Ki-Tae , Kim Jeong-Ah , Kim Hee Sung , Lee Min-Joo , Jung Eun-Mi , Ko Eunyoung , Han Wonshik , Noh Dong-Young 
Published: August 2011

BackgroundThe association between nuclear factor I/B (NFIB) gene and triple negative breast cancer has been previously suggested.MethodsWe investigated the relationship between NFIB mRNA and protein expression and molecular subtypes of breast cancer as well as the effect of NFIB silencing on the proliferation and apoptosis of breast cancer cells. Also, the clinical importance of NFIB expression was investigated in 163 breast cancer patients.ResultsBy using 20 frozen human breast cancer tissues and various breast cancer cell lines, we observed a significant high level of NFIB mRNA level in triple negative breast cancer. NFIB protein was upregulated in ER negative breast cancer tissues but the expression level was similar between HER2 subtype and triple negative subtype. The clinical significance of NFIB was further examined in a tissue microarray from 163 invasive breast cancer patients, and the immunohistochemistry results showed a significant association between NFIB expression and nuclear grade, ER, and HER2 expression status. NFIB positive tumors were more likely to have high nuclear grade, ER negativity and HER2 over‐expression. HCC1954 cells transfected with siRNA against NFIB showed a significant reduction in cell proliferation and increase in apoptotic signaling pathway.ConclusionsOur results show a potential role of NFIB as a novel target in ER negative breast cancers.
Defining theProtein Complex Proteomeof Plant Mitochondria
Authors: Klodmann Jennifer , Senkler Michael , Rode Christina , Braun Hans-Peter 
Published: August 2011

AbstractA classical approach, protein separation by two-dimensional blue native/sodium dodecyl sulfate-polyacrylamide gel electrophoresis, was combined with tandem mass spectrometry and up-to-date computer technology to characterize the mitochondrial “protein complex proteome” of Arabidopsis (Arabidopsis thaliana) in so far unrivaled depth. We further developed the novel GelMap software package to annotate and evaluate two-dimensional blue native/sodium dodecyl sulfate gels. The software allows (1) annotation of proteins according to functional and structural correlations (e.g. subunits of a distinct protein complex), (2) assignment of comprehensive protein identification lists to individual gel spots, and thereby (3) selective display of protein complexes of low abundance. In total, 471 distinct proteins were identified by mass spectrometry, several of which form part of at least 35 different mitochondrial protein complexes. To our knowledge, numerous protein complexes were described for the first time (e.g. complexes including pentatricopeptide repeat proteins involved in nucleic acid metabolism). Discovery of further protein complexes within our data set is open to everybody via the public GelMap portal at www.gelmap.de/arabidopsis_mito.