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382 Research products

  • Neuroinformatics
  • 2023-2023
  • ZENODO

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Tesler, Federico; Linne, Marja-Leena; Destexhe, Alain;

    AbstractFunctional magnetic resonance imaging relies on the coupling between neuronal and vascular activity, but the mechanisms behind this coupling are still under discussion. Recent experimental evidence suggests that calcium signaling may play a significant role in neurovascular coupling. However, it is still controversial where this calcium signal is located (in neurons or elsewhere), how it operates and how relevant is its role. In this paper we introduce a biologically plausible model of the neurovascular coupling and we show that calcium signaling in astrocytes can explain main aspects of the dynamics of the coupling. We find that calcium signaling can explain so-far unrelated features such as the linear and non-linear regimes, the negative vascular response (undershoot) and the emergence of a (calcium-driven) Hemodynamic Response Function. These features are reproduced here for the first time by a single model of the detailed neuronal-astrocyte-vascular pathway. Furthermore, we analyze how information is coded and transmitted from the neuronal to the vascular system and we predict that frequency modulation of astrocytic calcium dynamics plays a key role in this process. Finally, our work provides a framework to link neuronal activity to the BOLD signal, and vice-versa, where neuronal activity can be inferred from the BOLD signal. This opens new ways to link known alterations of astrocytic calcium signaling in neurodegenerative diseases (e.g. Alzheimer’s and Parkinson’s diseases) with detectable changes in the neurovascular coupling.

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    Scientific Reports
    Article . 2023 . Peer-reviewed
    License: CC BY
    Data sources: Sygma; Crossref
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    ZENODO
    Article . 2023
    License: CC BY
    Data sources: ZENODO
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      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ Scientific Reportsarrow_drop_down
      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
      Scientific Reports
      Article . 2023 . Peer-reviewed
      License: CC BY
      Data sources: Sygma; Crossref
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      ZENODO
      Article . 2023
      License: CC BY
      Data sources: ZENODO
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    Authors: Oliver Keller; Stefan Appelhoff; Benjamin Paffhausen; Tobias Wenzel;

    The promise of open hardware as a branch of open science is a sustainable change of research instrumentation towards more openly documented and licensed designs. Methods, code, and data are already valued by journal editors and peer-reviews to judge if a study's result can be replicated with the information provided in a manuscript. The open hardware movement seeks to include laboratory tools and research instrumentation into the same category. Availability of and access to open hardware equipment are set to democratize professional lab work and field studies as well as enhance the transferability of methods to civic science settings. Here, we report four case studies from the first five years of the Wikimedia Program "Free Knowledge", an open science fellowship funded by Wikimedia Germany and partners. The project developers discuss and evaluate the impact related to key aspects typically attributed with open hardware: costs, availability, adaptability, community and educational value. The open hardware projects covered in this review span from natural sciences to life sciences to education.

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    Research Ideas and Outcomes
    Article . 2023 . Peer-reviewed
    License: CC BY
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    ZENODO
    Article . 2023
    License: CC BY
    Data sources: ZENODO
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    MPG.PuRe
    Article . 2023
    Data sources: MPG.PuRe
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      Research Ideas and Outcomes
      Article . 2023 . Peer-reviewed
      License: CC BY
      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
      ZENODO
      Article . 2023
      License: CC BY
      Data sources: ZENODO
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      MPG.PuRe
      Article . 2023
      Data sources: MPG.PuRe
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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Grace Mary Kanaga Edward; Angela Esther Rajakumar; Kumudha Raimond; Anitha Jeevanayagam;

    Drug addiction is a complex neurobiological disorder that necessitates comprehensive treatment of both the body and mind. It is categorized as a brain disorder due to its impact on the brain. Various methods such as electroencephalography (EEG), functional magnetic resonance imaging (FMRI), and magnetoencephalography (MEG) can capture brain activities and structures. EEG signals provide valuable insights into neurological disorders, including drug addiction. Accurate classification of drug addiction from EEG signals relies on appropriate features and channel selection. Choosing the right EEG channels is essential to reduce computational costs and mitigate the risk of overfitting associated with using all available channels. To address the challenge of optimal channel selection in addiction detection from EEG signals, this work employs the shuffled frog leaping algorithm (SFLA). SFLA facilitates the selection of appropriate channels, leading to improved accuracy. Wavelet features extracted from the selected input channel signals are then analyzed using various machine learning classifiers to detect addiction. Experimental results indicate that after selecting features from the appropriate channels, classification accuracy significantly increased across all classifiers. Particularly, the multi-layer perceptron (MLP) classifier combined with SFLA demonstrated a remarkable accuracy improvement of 15.78% while reducing time complexity.

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    ZENODO
    Article . 2023
    License: CC BY
    Data sources: ZENODO
    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
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      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ ZENODOarrow_drop_down
      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
      ZENODO
      Article . 2023
      License: CC BY
      Data sources: ZENODO
      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
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    Authors: Ioannis Vogiatzakis; Mario Balzan; Evangelia Drakou; Stelios Katsanevakis; +17 Authors

    European islands are hotspots of biological and cultural diversity, which, compared to mainland, are more vulnerable to climate change, tourism development, uncontrolled land-use changes and the consequences of financial crisis. These drivers of change have increasingly resulted in severe impacts on socio-economic and environmental parameters. Projected climate, land-use and socio-economic change will impact on islands’ biodiversity, ecosystem services and, in turn, on the quality of life of island inhabitants. Even if the existing methods can adequately predict the abovementioned changes of the larger islands, this is not the case for small and medium-size islands, where there is a need for refinement. Although ecosystem services (ES) assessments have been carried out worldwide in different geographical areas, islands are still under-represented. Despite the recognised islands’ importance and vulnerability, efforts to date have focused solely on the pressures they face. Still, we know little about ES supply, flow and demand and their spatio-temporal variability, whilst integrated approaches that consider ES cross-island realms (terrestrial, marine and their interface) remain scarce. Even more under-represented are studies that explore the telecoupled relationship amongst islands and their mainland counterparts. Moreover, the current conceptual approaches guiding ES mapping and assessment need further refinement to account for the complex manifestations of nature and culture arising from peoples’ interaction with island spaces. This paper discusses the creation of a platform for coordinated interdisciplinary research on several aspects of mapping and assessment of ES in small and medium European islands in order to synthesise and strengthen the knowledge base for conservation of island realms and contribute to their sustainable development.

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ ZENODO; Research Ide...arrow_drop_down
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    ZENODO; Research Ideas and Outcomes
    Article . 2023 . Peer-reviewed
    License: CC BY
    Data sources: ZENODO; Crossref
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      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ ZENODO; Research Ide...arrow_drop_down
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      ZENODO; Research Ideas and Outcomes
      Article . 2023 . Peer-reviewed
      License: CC BY
      Data sources: ZENODO; Crossref
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    Authors: Daniel Neidigk; Allie Linkous; Rodney Guttmann;

    Studies have demonstrated that some individuals display pathological hallmarks of Alzheimer's disease (AD) but are not afflicted with cognitive decline. The ability to maintain cognitive function despite the presence of pathology is referred to as cognitive reserve. This project aims to identify the molecular pathways involved in cognitive reserve using Drosophila melanogaster (Drosophila) models of AD. Specifically, a theoretical approach using experimental evolution to drive a population of AD-like Drosophila carrying a tau mutation to develop cognitive reserve is proposed. To accomplish this, a population of AD-like Drosophila will be placed in a single population cage along with wild-type flies and forced to compete for food and water. The first generation of AD-like Drosophila will be generated using random mutagenesis of the initially isogenic AD-like fly. The selected tau mutant displays a rough eye condition which allows for easy distinction between tau mutant and wild-type flies. It is hypothesised that AD-like flies with cognitive decline will be unable to survive because their limited cognitive abilities will prevent them from effectively competing for food and water. In contrast, AD-like flies with mutations that promote cognitive reserve will be better capable of survival. After 90-99% of mutant flies have died, the surviving mutant flies will be back-crossed to the P1 mutant to maintain tau mutation stability. It is expected that artificial selection will result in the creation of a generation of tau mutant flies that demonstrate cognitive abilities comparable to those of wild-type flies despite maintaining an AD-like tau mutation. This approach will monitor the successful trajectory of the evolution of increased cognitive reserve through survival curve analysis and measures of cognition. A limitation of the method is that only a dominant mutation or series of dominant mutations would be identified using this approach.

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    Research Ideas and Outcomes
    Article . 2023 . Peer-reviewed
    License: CC BY
    Data sources: Crossref
    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    ZENODO
    Article . 2023
    License: CC BY
    Data sources: ZENODO
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      Research Ideas and Outcomes
      Article . 2023 . Peer-reviewed
      License: CC BY
      Data sources: Crossref
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      ZENODO
      Article . 2023
      License: CC BY
      Data sources: ZENODO
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    Authors: Shekari, Mahnaz; Verwer, Eline E; Boellaard, Ronald; Consortium, AMYPAD; +8 Authors

    Abstract Background Image harmonization has been proposed to minimize heterogeneity in brain PET scans acquired in multi-center studies. However, standard validated methods and software tools are lacking. Here, we assessed the performance of a framework for the harmonization of brain PET scans in a multi-center European clinical trial. Method Hoffman 3D brain phantoms were acquired in 28 PET systems and reconstructed using site-specific settings. Full Width at Half Maximum (FWHM) of the Effective Image Resolution (EIR) and harmonization kernels were estimated for each scan. The target EIR was selected as the coarsest EIR in the imaging network. Using “Hoffman 3D brain Analysis tool,” indicators of image quality were calculated before and after the harmonization: The Coefficient of Variance (COV%), Gray Matter Recovery Coefficient (GMRC), Contrast, Cold-Spot RC, and left-to-right GMRC ratio. A COV% ≤ 15% and Contrast ≥ 2.2 were set as acceptance criteria. The procedure was repeated to achieve a 6-mm target EIR in a subset of scans. The method’s robustness against typical dose-calibrator-based errors was assessed. Results The EIR across systems ranged from 3.3 to 8.1 mm, and an EIR of 8 mm was selected as the target resolution. After harmonization, all scans met acceptable image quality criteria, while only 13 (39.4%) did before. The harmonization procedure resulted in lower inter-system variability indicators: Mean ± SD COV% (from 16.97 ± 6.03 to 7.86 ± 1.47%), GMRC Inter-Quartile Range (0.040–0.012), and Contrast SD (0.14–0.05). Similar results were obtained with a 6-mm FWHM target EIR. Errors of ± 10% in the DRO activity resulted in differences below 1 mm in the estimated EIR. Conclusion Harmonizing the EIR of brain PET scans significantly reduced image quality variability while minimally affecting quantitative accuracy. This method can be used prospectively for harmonizing scans to target sharper resolutions and is robust against dose-calibrator errors. Comparable image quality is attainable in brain PET multi-center studies while maintaining quantitative accuracy.

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    DZNE Pub
    Article . 2023
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    EJNMMI Physics
    Article . 2023
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    https://doi.org/10.21203/rs.3....
    Preprint . 2023
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    ZENODO; EJNMMI Physics
    Other literature type . Article . 2023 . Peer-reviewed
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      DZNE Pub
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      EJNMMI Physics
      Article . 2023
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      https://doi.org/10.21203/rs.3....
      Preprint . 2023
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      ZENODO; EJNMMI Physics
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    Authors: Alicia Haydo; Andrej Wehle; Christel Herold‐Mende; Donat Kögel; +2 Authors

    AbstractGlioblastoma is a very aggressive tumor and represents the most common primary brain malignancy. Key characteristics include its high resistance against conventional treatments, such as radio‐ and chemotherapy and its diffuse tissue infiltration, preventing complete surgical resection. The analysis of migration and invasion processes in a physiological microenvironment allows for enhanced understanding of these phenomena and can lead to improved therapeutic approaches. Here, we combine two state‐of‐the‐art techniques, adult organotypic brain tissue slice culture (OTC) and light‐sheet fluorescence microscopy (LSFM) of cleared tissues in a combined method termed OTCxLSFM. Using this methodology, we can show that glioblastoma tissue infiltration can be effectively blocked through treatment with arsenic trioxide or WP1066, as well as genetic depletion of the tetraspanin, transmembrane receptor CD9, or signal transducer and activator of transcription 3 (STAT3). With our analysis pipeline, we gain single‐cell level, three‐dimensional information, as well as insights into the morphological appearance of the tumor cells.

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    ZENODO
    Article . 2023
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    ZENODO
    Article . 2023
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    EMBO Reports
    Article . 2023 . Peer-reviewed
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    Article . 2023
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      ZENODO
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      ZENODO
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      EMBO Reports
      Article . 2023 . Peer-reviewed
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    Authors: Madden, Lachlan;

    This paper suggests that competitiveness is an emotion in itself and outlines what the emotions are that stem from competitiveness, that being winning, losing, power, greed, grief and jealousy. This paper uses the eight question spacetime equation to describe emotions and describes what the generalised emotional equation is. Now these aren’t separate emotion particles, strings, waves, and fields but rather overlay and cascade into the particles, strings, waves, and fields of chemical interactions

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    ZENODO
    Preprint . 2023
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    ZENODO
    Preprint . 2023
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      ZENODO
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      ZENODO
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    Authors: Gorniak, Stacey L.; Wagner, Victoria E.; Vaughn, Kelly; Perry, Jonathan; +5 Authors

    Older adults with Type II Diabetes Mellitus (DM) experience mild cognitive impairment, specifically in the domain of recall/working memory. No consistent causative structural cortical deficits have been identified in persons with DM (PwDM). Memory deficits may be exacerbated in older adult females, who are at the highest risk of cardiovascular decline due to DM. The focus of the current study was to evaluate functional cortical hemodynamic activity during memory tasks in postmenopausal PwDM. Functional Near Infrared Spectroscopy (fNIRS) was used to monitor oxyhemoglobin (HbO) and deoxyhemoglobin (HbR) during memory-based tasks in a cross-sectional sample of postmenopausal women with DM. Twenty-one community-dwelling DM females (age = 65 ± 6 years) and twenty-one age- and sex-matched healthy controls (age = 66 ± 6 years) were evaluated. Working memory performance (via N-back) was evaluated while study participants donned cortical fNIRS. Health state, metabolic data, and menopausal status data were also collected. Deficits in working memory accuracy were found in the DM group as compared to controls. Differences in HbO responses emerged in the DM group. The DM group exhibited altered PFC activity magnitudes and increased functional cortical activity across ROIs compared to controls. HbO and HbR responses were not associated with worsened health state measures. These data indicate a shift in cortical activity patterns with memory deficits in postmenopausal PwDM. This DM-specific shift of HbO is a novel finding that is unlikely to be detected by fMRI. This underscores the value of using non-MRI-based neuroimaging techniques to evaluate cortical hemodynamic function to detect early mild cognitive impairment.

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    Experimental Brain Research
    Article . 2023 . Peer-reviewed
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      Experimental Brain Research
      Article . 2023 . Peer-reviewed
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    Authors: Madden, Lachlan;

    This paper aims to describe the generations of particles and waves and describes the type of decisions they represent. This paper suggests that communication, decisions, certainty, and their variants are fundamental, and that universe as a whole is communicating the non-contradiction contradiction, or the contradictory non-contradiction, that which one cannot truly know, which is false. This paper introduces an equation for gravity and tries to explain what the result of a quantum gravitational system is. This paper uses physics to explain biology and uses biology to explain physics. This paper introduces a bio-space-time model representing the brains ability states, where space is recognition, time is perception, and spacetime is sense, and all together is communication. This paper was written under the implication that anything that describes everything is false.

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    ZENODO
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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Tesler, Federico; Linne, Marja-Leena; Destexhe, Alain;

    AbstractFunctional magnetic resonance imaging relies on the coupling between neuronal and vascular activity, but the mechanisms behind this coupling are still under discussion. Recent experimental evidence suggests that calcium signaling may play a significant role in neurovascular coupling. However, it is still controversial where this calcium signal is located (in neurons or elsewhere), how it operates and how relevant is its role. In this paper we introduce a biologically plausible model of the neurovascular coupling and we show that calcium signaling