bluuebunny/crossref_metadata_2025_split huggingface dataset:
Differential Plasma Glycoproteome of p19ARF Skin Cancer Mouse Model Using the Corra Label-Free LC-MS Proteomics Platform
Authors: Letarte Simon , Brusniak Mi-Youn , Campbell David , Eddes James , Kemp Christopher J. , Lau Hollis , Mueller Lukas , Schmidt Alexander , Shannon Paul , Kelly-Spratt Karen S. , Vitek Olga , Zhang Hui , Aebersold Ruedi , Watts Julian D. 
Published: October 2008

AbstractIntroductionA proof-of-concept demonstration of the use of label-free quantitative glycoproteomics for biomarker discovery workflow is presented in this paper, using a mouse model for skin cancer as an example.Materials and MethodsBlood plasma was collected from ten control mice and ten mice having a mutation in the p19ARFgene, conferring them high propensity to develop skin cancer after carcinogen exposure. We enriched for N-glycosylated plasma proteins, ultimately generating deglycosylated forms of the tryptic peptides for liquid chromatography mass spectrometry (LC-MS) analyses. LC-MS runs for each sample were then performed with a view to identifying proteins that were differentially abundant between the two mouse populations. We then used a recently developed computational framework, Corra, to perform peak picking and alignment, and to compute the statistical significance of any observed changes in individual peptide abundances. Once determined, the most discriminating peptide features were then fragmented and identified by tandem mass spectrometry with the use of inclusion lists.Results and DiscussionsWe assessed the identified proteins to see if there were sets of proteins indicative of specific biological processes that correlate with the presence of disease, and specifically cancer, according to their functional annotations. As expected for such sick animals, many of the proteins identified were related to host immune response. However, a significant number of proteins are also directly associated with processes linked to cancer development, including proteins related to the cell cycle, localization, transport, and cell death. Additional analysis of the same samples in profiling mode, and in triplicate, confirmed that replicate MS analysis of the same plasma sample generated less variation than that observed between plasma samples from different individuals, demonstrating that the reproducibility of the LC-MS platform was sufficient for this application.ConclusionThese results thus show that an LC-MS-based workflow can be a useful tool for the generation of candidate proteins of interest as part of a disease biomarker discovery effort.
Homogenization of periodic semilinear parabolic degenerate PDEs
Authors: Sow A.B. , Rhodes R. , Pardoux É. 
Published: September 2008

In this paper a second order semilinear parabolic PDE with rapidly oscillating coefficients is homogenized. The novelty of our result lies in the fact that we allow the second order part of the differential operator to be degenerate in some part of\mathbf{R}^{d}.Our fully probabilistic method is based on the deep connection between PDEs and BSDEs and the weak convergence of a class of diffusion processes.
Pulsating traveling waves in the singular limit of a reaction–diffusion system in solid combustion
Authors: Monneau R. , Weiss G.S. 
Published: September 2008

We consider a coupled system of parabolic/ODE equations describing solid combustion. For a given rescaling of the reaction term (the high activation energy limit), we show that the limit solution solves a free boundary problem which is to our knowledge new.
In the time-increasing case, the limit coincides with the Stefan problem with spatially inhomogeneous coefficients. In general it is a parabolic equation with a memory term.
In the first part of our paper we give a characterization of the limit problem in one space dimension. In the second part of the paper, we construct a family of pulsating traveling waves for the limit one phase Stefan problem with periodic coefficients. This corresponds to the assumption of periodic initial concentration of reactant.
A potential model for studying the plasticity and reprogramming of human epidermal stem cells through preimplantation blastocyst microinjection
Authors: Jiang Ruzhang , Huang Bing , Jin Chenjin , Song Ge , Zhong Xiufeng , Yuan Jing , Xiang Peng , He Yuan , Liu Bingqian , Sun Xuerong , Zhang Yuehong , Ge Jian 
Published: October 2008

AbstractMicroinjection of adult stem cells (ASCs) into blastocysts provides a classic model for studying ASC plasticity. To explore the molecular mechanisms that govern the reprogramming of ASCs, we evaluated the experimental model through microinjection of human epidermal stem cells (hEpiSCs) into mouse blastocysts. Mouse blastocysts underwent regular embryogenesis after microinjection of allogeneic cells, confirmed by morphological observation and embryo cell counting. hEpiSCs survive and integrate into mouse embryos, by monitoring the migration of injected cells at 2, 4, 12, 16 and 24 h. In this xenogeneic system, hEpiSCs could be reprogrammed within 24 h, as evidenced by the silencing of CK15 and Integrinβ1 gene expression, without activation of Oct4 and Nanog. Microinjection of hEpiSCs into mouse blastocysts provides an efficient model for studying the molecular mechanisms of their plasticity. Moreover, the possibility of inducing pluripotent stem cells without transgenes or viruses can be entertained.
Kinetic characterization of l‐[3H]glutamate uptake inhibition and increase oxidative damage induced by glutaric acid in striatal synaptosomes of rats
Authors: Magni Danieli Valnes , Furian Ana Flávia , Oliveira Mauro Schneider , Souza Mauren Assis , Lunardi Fabiane , Ferreira Juliano , Mello Carlos Fernando , Royes Luiz Fernando Freire , Fighera Michele Rechia 
Published: September 2008

AbstractGlutaric acidemia type I (GA‐I) is an inherited metabolic disease characterized by accumulation of glutaric acid (GA) and striatal degeneration. Although growing evidence suggests that excitotoxicity and oxidative stress play central role in the neuropathogenesis of this disease, mechanism underlying striatal damage in this disorder is not well established. Thus, we decided to investigate the in vitro effects of GA 10 nM (a low concentration that can be present initial development this disorder) on l‐[3H]glutamate uptake and reactive oxygen species (ROS) generation in synaptosomes from striatum of rats. GA reduced l‐[3H]glutamate uptake in synaptosomes from 1 up to 30 min after its addition. Furthermore, we also provided some evidence that GA competes with the glutamate transporter inhibitor l‐trans‐pyrrolidine‐2,4‐dicarboxylate (PDC), suggesting a possible interaction of GA with glutamate transporters on synaptosomes. Moreover, GA produced a significant decrease in the VMAX of l‐[3H]glutamate uptake, but did not affect the KD value. Although the GA did not show oxidant activity per se, it increased the ROS generation in striatal synaptosomes. To evaluate the involvement of reactive species generation in the GA‐induced l‐[3H]glutamate uptake inhibition, trolox (0.3, 0.6 and 6 μM) was added on the incubation medium. Statistical analysis showed that trolox did not decrease inhibition of GA‐induced l‐[3H]glutamate uptake, but decreased GA‐induced reactive species formation in striatal synaptosomes (1, 3, 5, 10, 15 and 30 min), suggesting that ROS generation appears to occur secondarily to glutamatergic overstimulation in this model of organic acidemia. Since GA induced DCFH oxidation increase, we evaluate the involvement of glutamate receptor antagonists in oxidative stress, showing that CNQX, but not MK‐801, decreased the DCFH oxidation increase in striatal synaptosomes. Furthermore, the results presented in this report suggest that excitotoxicity elicited by low concentration of GA, could be in part by maintaining this excitatory neurotransmitter in the synaptic cleft by non‐competitive inhibition of glutamate uptake. Thus the present data may explain, at least partly, initial striatal damage at birth, as evidenced by acute bilateral destruction of caudate and putamen observed in children with GA‐I.
Pre‐treatment with ebselen and vitamin E modulate acetylcholinesterase activity: interaction with demyelinating agents
Authors: Mazzanti Cinthia M. , Spanevello Roselia , Ahmed Musthaq , Pereira Luciane B. , Gonçalves Jamile F. , Corrêa Maisa , Schmatz Roberta , Stefanello Naiara , Leal Daniela B.R. , Mazzanti Alexandre , Ramos Adriano T. , Martins Tessie B. , Danesi Cristiane Cademartori , Graça Dominguita L. , Morsch Vera M. , Schetinger Maria Rosa C. 
Published: September 2008

AbstractThe ethidium bromide (EB) demyelinating model was associated with vitamin E (Vit E) and ebselen (Ebs) treatment to evaluate acetylcholinesterase (AChE) activity in the striatum (ST), hippocampus (HP), cerebral cortex (CC) and erythrocytes. Rats were divided into seven groups: I—Control (saline), II—(canola); III—(Ebs), IV—(Vit E); V—(EB); VI—(EB + Ebs) and VII—(EB + Vit E). At 3 days after the EB injection, AChE activity in the CC and HC was significantly reduced in groups III, IV, V, VI and VII (p < 0.05) and in the ST it was reduced in groups III and V (p < 0.05) when compared to the control group. At 21 days after the EB injection, AChE activity in the CC was significantly reduced in groups III, IV and V, while in groups VI and VII a significant increase was observed when compared to the control group. In the HC and ST, AChE activity was significantly reduced in groups V, VI and VII when compared to the control group (p < 0.05). In the erythrocytes, at 3 days after the EB injection, AChE activity was significantly reduced in groups III, IV, V, VI and VII and at 21 days there was a significant reduction only in groups VI and VII (p < 0.05) when compared to the control group. In conclusion, this study demonstrated that Ebs and Vit E interfere with the cholinergic neurotransmission by altering AChE activity in the different brain regions and in the erythrocytes. Furthermore, treatment with Vit E and Ebs protected against the demyelination lesion caused by EB. In this context, we can suggest that ebselen and Vit E should be considered potential therapeutics and scientific tools to be investigated in brain disorders associated with demyelinating events.
Changes in hippocampal NMDA‐R subunit composition induced by exposure of neonatal rats tol‐glutamate
Authors: Rivera‐Cervantes M.C. , Flores‐Soto M.E. , Chaparro‐Huerta V. , Reyes‐Gómez J. , Feria‐Velasco A. , Schliebs R. , Beas‐Zárate C. 
Published: September 2008

AbstractOveractivation of NMDA‐Rs may mediate excitotoxic cell death associated with epileptic seizures, and hypoxic–ischemic conditions. We assessed whether repeated subcutaneous administration ofl‐glutamate to neonatal rats affects the subunit composition of NMDA‐Rs. Accordingly, cortical and hippocampal tissue from 14‐day‐old rats was analyzed by Western blotting and RT‐PCR to quantify the protein and mRNA expression of different NMDA‐R subunits. In addition, tissue sections were Nissl stained to assess the cell damage in this tissue. Early exposure of neonatal rats tol‐glutamate differentially affects the expression of mRNA transcripts for NMDA‐R subunits in the cerebral cortex and hippocampus. In the cerebral cortex, a decrease in NR2B subunit mRNA expression was observed, as well as a loss of NR1 and NR2A protein. By contrast, neonatall‐glutamate administration augmented the transcripts encoding the NR1, NR2B, and NR2C subunits in the hippocampal formation. The expression of mRNA encoding the NR2A subunit was not affected by neonatall‐glutamate administration in either of the brain regions examined. This differential expression of NMDA‐R subunits following neonatal exposure tol‐glutamate may represent an adaptive response of the glutamate receptors to overactivation in order to reduce the effect of highl‐glutamate during the early period of life when the animal is more vulnerable to excitotoxicity.
Linking improved knowledge management to operational and organizational performance
Authors: Fugate Brian S. , Stank Theodore P. , Mentzer John T. 
Published: September 2008

AbstractThis research empirically examines the importance of knowledge management processes to operational and overall organizational performance (OPERF). Specifically, results indicate that a shared interpretation of knowledge among operational personnel mediates how knowledge is disseminated and used to design and implement a unified operational response to that knowledge. Further, results collected in a logistics operations (LO) context support a strong positive relationship between this knowledge management process and operational and organizational performance. Importantly, psychometric measures for organizational performance collected from managerial respondents were strongly correlated with secondary financial data for participating firms obtained from Compustat, thus supporting a link about operational performance and hard organizational performance data.
Adaptation to moving targets: Culture/gene coevolution, not either/or
Authors: Barrett H. Clark , Frankenhuis Willem E. , Wilke Andreas 
Published: October 2008

AbstractWe agree that much of language evolution is likely to be adaptation of languages to properties of the brain. However, the attempt to rule out the existence of language-specific adaptations a priori is misguided. In particular, the claim that adaptation to “moving targets” cannot occur is false. Instead, the details of gene-culture coevolution in language are an empirical matter.
A biological infrastructure for communication underlies the cultural evolution of languages
Authors: de Ruiter J. P. , Levinson Stephen C. 
Published: October 2008

AbstractUniversal Grammar (UG) is indeed evolutionarily implausible. But if languages are just “adapted” to a large primate brain, it is hard to see why other primates do not have complex languages. The answer is that humans have evolved a specialized and uniquely human cognitive architecture, whose main function is to compute mappings between arbitrary signals and communicative intentions. This underlies the development of language in the human species.
Co-evolution of phylogeny and glossogeny: There is no “logical problem of language evolution”
Authors: Fitch W. Tecumseh 
Published: October 2008

AbstractHistorical language change (“glossogeny”), like evolution itself, is a fact; and its implications for the biological evolution of the human capacity for language acquisition (“phylogeny”) have been ably explored by many contemporary theorists. However, Christiansen & Chater's (C&C's) revolutionary call for a replacement of phylogenetic models with glossogenetic cultural models is based on an inadequate understanding of either. The solution to their “logical problem of language evolution” lies before their eyes, but they mistakenly reject it due to a supposed “circularity trap.” Gene/;culture co-evolution poses a series of difficult theoretical and empirical problems that will be resolved by subtle thinking, adequate models, and careful cross-disciplinary research, not by oversimplified manifestos.
Intersubjectivity evolved to fit the brain, but grammar co-evolved with the brain
Authors: Greenfield Patricia M. , Gillespie-Lynch Kristen 
Published: October 2008

AbstractWe propose that some aspects of language – notably intersubjectivity – evolved to fit the brain, whereas other aspects – notably grammar – co-evolved with the brain. Cladistic analysis indicates that common basic structures of both action and grammar arose in phylogeny six million years ago and in ontogeny before age two, with a shared prefrontal neural substrate. In contrast, mirror neurons, found in both humans and monkeys, suggest that the neural basis for intersubjectivity evolved before language. Natural selection acts upon genes controlling the neural substrates of these phenotypic language functions.
The potential for genetic adaptations to language
Authors: Pagel Mark , Atkinson Quentin D. 
Published: October 2008

AbstractWe suggest there is somewhat more potential than Christiansen & Chater (C&C) allow for genetic adaptations specific to language. Our uniquely cooperative social system requires sophisticated language skills. Learning and performance of some culturally transmitted elements in animals is genetically based, and we give examples of features of human language that evolve slowly enough that genetic adaptations to them may arise.
Identifying and individuating the psychological mechanisms that underlie musical emotions
Authors: Malmgren Helge 
Published: October 2008

AbstractJuslin & Västfjäll (J&V) have suggested a promising theoretical framework for understanding musical emotions. However, the way they classify the hypothetical underlying psychological mechanisms suffers from certain weaknesses, both in principle and when it comes to details. It is proposed that the authors consider incorporating ideas from a recent dissertation that has advanced another multimechanism theory of musical emotions.
A neurobiological strategy for exploring links between emotion recognition in music and speech
Authors: Patel Aniruddh D. 
Published: October 2008

AbstractAre the neural systems involved in recognizing affective prosody in language also used for emotion recognition in instrumental music? One way to test this idea is to study musical affect perception in patients with receptive affective aprosodia (RAA). Music perception in RAA is totally unexplored and could provide a powerful way to test the idea that we perceive music as a kind of emotional voice.
The need to consider underlying mechanisms: A response from dissonance
Authors: Peretz Isabelle 
Published: October 2008

AbstractCurrent research on emotional responses to dissonance has yielded consistent data in both developmental psychology and neuroscience. What seems to be lacking is a definition of what might constitute dissonance in non-musical domains. Thus, contrary to Juslin & Västfjäll's (J&V) proposal for the need to distinguish between six broad mechanisms, I argue that future research should rather focus on perceptual determinants of each basic emotion.
Do all musical emotions have the music itself as their intentional object?
Authors: Robinson Jenefer 
Published: October 2008

AbstractJuslin & Västfjäll (J&V) think that all emotions aroused by music have the music itself as their “intentional object.” Some of the mechanisms they discuss almost certainly involve both cognitive appraisals and intentional objects. But some of the mechanisms are non-cognitive: they involve neither cognitive appraisals nor intentional objects. Partly for this reason they may produce moods rather than emotions proper.
All emotions are not created equal: Reaching beyond the traditional disputes
Authors: Juslin Patrik N. , Västfjäll Daniel 
Published: October 2008

AbstractMost commentators have agreed with our thesis, that musical emotions cannot be studied without regard to underlying mechanisms. However, some commentators have expressed concerns that are addressed in this response. Others have suggested directions for future research. Topics discussed in our response include terminology, elaborations on particular mechanisms, possible additional mechanisms, ways of distinguishing among emotions and mechanisms, the prevalence of musical emotions, the relationship between perceived and felt emotions, developmental issues, and evolutionary perspectives. We end our response with a plea for researchers to reach beyond the traditional disputes in the field to pave the way for more theory-driven studies that can facilitate a deeper understanding of musical emotions.
Guidance for considering ethical, legal, and social issues in health technology assessment: Application to genetic screening
Authors: Potter Beth K. , Avard Denise , Graham Ian D. , Entwistle Vikki A. , Caulfield Timothy A. , Chakraborty Pranesh , Kennedy Christine , McGuire Marissa , Griener Glenn G. , Montgomery Mark , Wells George A. , Wilson Brenda J. 
Published: October 2008

Objectives and Methods:Many authors have argued that ethical, legal, and social issues (“ELSIs”) should be explicitly integrated into health technology assessment (HTA), yet doing so poses challenges. This discussion may be particularly salient for technologies viewed as ethically complex, such as genetic screening. Here we provide a brief overview of contemporary discussions of the issues from the HTA literature. We then describe key existing policy evaluation frameworks in the fields of disease screening and public health genomics. Finally, we map the insights from the HTA literature to the policy evaluation frameworks, with discussion of the implications for HTA in genetic screening.Results and Conclusions:A critical discussion in the HTA literature considers the definition of ELSIs in HTA, highlighting the importance of thinking beyond ELSIs as impacts of technology. Existing HTA guidance on integrating ELSIs relates to three broad approaches: literature synthesis, involvement of experts, and consideration of stakeholder values. The thirteen key policy evaluation frameworks relating to disease screening and public health genomics identified a range of ELSIs relevant to genetic screening. Beyond straightforward impacts of screening, these ELSIs require consideration of factors such as the social and political context surrounding policy decisions. The three broad approaches to addressing ELSIs described above are apparent in the screening/genomics literatures. In integrating these findings we suggest that the method chosen for addressing ELSIs in HTA for genetic screening may determine which ELSIs are prioritized; and that an important challenge is the lack of guidance for evaluating such methods.
Integrating health economics modeling in the product development cycle of medical devices: A Bayesian approach
Authors: Vallejo-Torres Laura , Steuten Lotte M. G. , Buxton Martin J. , Girling Alan J. , Lilford Richard J. , Young Terry 
Published: October 2008

Objectives:Medical device companies are under growing pressure to provide health-economic evaluations of their products. Cost-effectiveness analyses are commonly undertaken as a one-off exercise at the late stage of development of new technologies; however, the benefits of an iterative use of economic evaluation during the development process of new products have been acknowledged in the literature. Furthermore, the use of Bayesian methods within health technology assessment has been shown to be of particular value in the dynamic framework of technology appraisal when new information becomes available in the life cycle of technologies.Methods:In this study, we set out a methodology to adapt these methods for their application to directly support investment decisions in a commercial setting from early stages of the development of new medical devices.Results and Conclusions:Starting with relatively simple analysis from the very early development phase and proceeding to greater depth of analysis at later stages, a Bayesian approach facilitates the incorporation of all available evidence and would help companies to make better informed choices at each decision point.