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  • Neuroinformatics
  • UK Research and Innovation

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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: Jia, Ke;

    Learning and experience are critical for translating ambiguous sensory information from our environments to perceptual decisions. Yet, evidence on how training molds the adult human brain remains controversial, as fMRI at standard resolution does not allow us to discern the finer-scale mechanisms that underlie sensory plasticity. Here, we combine ultra-high field (7T) functional imaging at sub-millimetre resolution with orientation discrimination training to interrogate experience-dependent plasticity across cortical depths that are known to support dissociable brain computations. Our results provide evidence for recurrent plasticity, by contrast to sensory encoding vs. feedback mechanisms. We demonstrate that learning alters orientation-specific representations in superficial rather than middle V1 layers, suggesting changes in read-out rather than input signals. Further, learning increases feedforward rather than feedback layer-to-layer connectivity in occipito-parietal regions, suggesting that sensory plasticity gates perceptual decisions. Our findings reveal finer-scale plasticity mechanisms that re-weight sensory signals to inform improved decisions, bridging the gap between micro- and macro- circuits of experience-dependent plasticity. $$ \ $$ See the file 'Description of uploaded data' for a detailed description of the dataset.

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    Apollo
    Dataset
    License: CC BY
    Data sources: Apollo
    Apollo
    Dataset . 2020
    License: CC BY
    Data sources: Datacite
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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/ Apolloarrow_drop_down
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      Apollo
      Dataset
      License: CC BY
      Data sources: Apollo
      Apollo
      Dataset . 2020
      License: CC BY
      Data sources: Datacite
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  • Authors: Ledig, Christian; Schuh, Andreas; Guerrero, Ricardo; Heckemann, Rolf A.; +1 Authors

    Data accompanying the article: C. Ledig, A. Schuh, R. Guerrero, R. Heckemann, D. Rueckert, Structural brain imaging in Alzheimer's disease and mild cognitive impairment: biomarker analysis and shared morphometry database, Scientific Reports, 2018. Data derived from 5074 images from the ADNI cohort: - structural segmentations (138 regions, MALPEM); - binary brain masks (pincram); - features (volumes, asymmetry, atrophy rates) and disease labels; - lists of processed images IsSupplementTo: Ledig C, Schuh A, Guerrero R, Heckemann RA, Rueckert D (2018) Structural brain imaging in Alzheimer's disease and mild cognitive impairment: biomarker analysis and shared morphometry database. Scientific Reports, 2018. https://doi.org/10.1038/s41598-018-29295-9

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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: Franke, Barbara; Stein, Jason L; Ripke, Stephan; Anttila, Verneri; +30 Authors

    Schizophrenia is a devastating psychiatric illness with high heritability. Brain structure and function differ, on average, between schizophrenia cases and healthy individuals. As common genetic associations are emerging for both schizophrenia and brain imaging phenotypes, we can now use genome-wide data to investigate genetic overlap. Here we integrated results from common variant studies of schizophrenia (33,636 cases, 43,008 controls) and volumes of several (mainly subcortical) brain structures (11,840 subjects). We did not find evidence of genetic overlap between schizophrenia risk and subcortical volume measures either at the level of common variant genetic architecture or for single genetic markers. The current study provides proof-of-concept (albeit based on a limited set of structural brain measures), and defines a roadmap for future studies investigating the genetic covariance between structural/functional brain phenotypes and risk for psychiatric disorders.

    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/ Nature Neurosciencearrow_drop_down
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    Nature Neuroscience
    Article . 2016
    Data sources: PubMed Central
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      Nature Neuroscience
      Article . 2016
      Data sources: PubMed Central
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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: Giorgio, Joseph; Landau, Susan; Jagust, William; Tino, Peter; +1 Authors

    Multimodal biological and cognitive data used as predictors and outcomes for machine learning models can be found in 'master data sheet.xls'. With the exception of the derived PLS Derived GM all data were downloaded from the ADNI repository http://adni.loni.usc.edu/. For description on derivation of the PLS Dervived GM see ���Methods: Partial Least Squares Regression with Recursive Feature Elimination (PLSr-RFE).��� in the final publication DATA SETS: 1.) ���Methods: Partial Least Squares Regression with Recursive Feature Elimination (PLSr-RFE).��� Data available: RIDS: The ADNI identifier, DIAG(1CN, 2MCI): Baseline diagnosis (1:cognitively normal, 2: MCI) ADNI Mem: ADNI Memory composite measure used as outcome variable for the PLSr-RFE, PLS Derived GM: Variable derived from the PLSr-RFE procedure. These data are presented in ���Results: Composite grey matter score for predicting cross-modality associations��� 2.) ���Statistical Validation: Out-of-Sample validation[cross-modality associations ]��� Data available: RIDS: The ADNI identifier, DIAG(1CN, 2DEM, 3MCI): Baseline diagnosis (1:cognitively normal, 2:demented, 3: MCI), PLS Derived GM: Variable derived out-of-sample. FTP Braak(12): tau PET SUVR for Braak stage (1,2), FTP Braak(34): tau PET SUVR for Braak stage (3,4), FTP Braak(56): tau PET SUVR for Braak stage (5,6). These data are presented in ���Results: Composite grey matter score for predicting cross-modality associations��� 3.)���Statistical Validation: Out-of-Sample validation [Cross-modal associations -adni mem]��� Data available: RIDS: The ADNI identifier ADNI Mem: ADNI Memory composite measure used as outcome variable. These data are presented in ���Results: Composite grey matter score for predicting cross-modality associations��� 4.) ��� Methods:GMLVQ Cognitive model��� Data available: RIDS: The ADNI identifier, ADNI Mem: ADNI memory composite used as predictor, ADNI EF: ADNI executive function composite used as predictor, GDS: Geriatric Depression Score used as predictor. 1pMCI, 2sMCI: Outcome classes, 1:progressive Mild Cognitive Impairment, 2: stable Mild Cognitive Impairment. ���Results: Cognitive Classification Models for predicting sMCI vs pMCI��� 5.) ��� Methods:GMLVQ Biological model��� Data available: RIDS: The ADNI identifier, PLS Derived GM: grey matter score used as predictor, FBP: florbetapir SUVR used as a predictor, APOE4: APOE 4 genotype used as predictor. 1pMCI, 2sMCI: Outcome classes, 1:progressive Mild Cognitive Impairment, 2: stable Mild Cognitive Impairment. ���Results: Biological Classification Models for predicting sMCI vs pMCI��� 6.) ��� Methods: GMLVQ-Scalar Projection *Cognitive model*��� Data available: RIDS: The ADNI identifier, ADNI Mem: ADNI memory composite used as predictor, ADNI EF: ADNI executive function composite used as predictor, GDS: Geriatric Depression Score used as predictor, �� ADNI-Mem: Change in ADNI mem from baseline. 7.) ��� Methods: GMLVQ-Scalar Projection *Biological model*��� Data available: RIDS: The ADNI identifier, PLS Derived GM: grey matter score used as predictor, FBP: florbetapir SUVR used as a predictor, APOE4: APOE 4 genotype used as predictor, �� ADNI-Mem: Change in ADNI mem from baseline. ���Results: Trajectory modelling: Predicting Individual Variability in the Rate of Future Cognitive Decline. 8.) ���Methods: Statistical Validation: Out-of-Sample-[Cognitive model]��� Data available: RIDS: The ADNI identifier, ADNI Mem: ADNI memory composite used as predictor, ADNI EF: ADNI executive function composite used as predictor, GDS: Geriatric Depression Score used as predictor, �� ADNI-Mem: Change in ADNI mem from baseline. 9.) ���Methods: Statistical Validation: Out-of-Sample-[Biological model]��� : RIDS: The ADNI identifier, PLS Derived GM: grey matter score used as predictor, FBP: florbetapir SUVR used as a predictor, APOE4: APOE 4 genotype used as predictor, �� ADNI-Mem: Change in ADNI mem from baseline. ���Results: Trajectory modelling: Predicting Individual Variability in the Rate of Future Cognitive Decline.��� For a more detailed description of the populations these data were extracted for see 'description of uploaded files.doc'

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    Apollo
    Dataset
    License: CC BY
    Data sources: Apollo
    Apollo
    Dataset . 2020
    License: CC BY
    Data sources: Datacite
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      Apollo
      Dataset
      License: CC BY
      Data sources: Apollo
      Apollo
      Dataset . 2020
      License: CC BY
      Data sources: Datacite
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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: Ashan, Syed; Koutsoupidou Maria; Razzicchia Eleonora; Sotiriou Ioannis; +1 Authors

    This paper presents some hardware advances towards a microwave system for brain imaging. In particular, we present a new antenna array design for efficient propagation of microwave signals in the head, as well as a metamaterial structure designed for transmission enhancement through impedance matching. The presented system is modelled in CST Microwave Studio R , using a specific anthropomorphic mannequin (SAM) head model to analyse performance. Simulations results suggest that our designs can be useful in designing a microwave scanner for brain imaging applications such as stroke detection and monitoring.

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    King's Research Portal
    Contribution for newspaper or weekly magazine . 2019
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    ZENODO
    Article . Conference object . 2019
    License: CC BY
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    ZENODO
    Conference object . 2019
    License: CC BY
    Data sources: Datacite
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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/ King's Research Port...arrow_drop_down
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      King's Research Portal
      Contribution for newspaper or weekly magazine . 2019
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      ZENODO
      Article . Conference object . 2019
      License: CC BY
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      ZENODO
      Conference object . 2019
      License: CC BY
      Data sources: Datacite
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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: Uhlhaas, Peter J.; Liddle, Peter; Linden, David E.J.; Nobre, Anna C.; +2 Authors

    The application of neuroimaging to provide mechanistic insights into circuit dysfunctions in major psychiatric conditions and the development of biomarkers are core challenges in current psychiatric research. In this review, we propose that recent technological and analytic advances in Magnetoencephalography (MEG), a technique which allows the measurement of neuronal events directly and non-invasively with millisecond resolution, provides novel opportunities to address these fundamental questions. Because of its potential in delineating normal and abnormal brain dynamics, we propose that MEG provides a crucial tool to advance our understanding of pathophysiological mechanisms of major neuropsychiatric conditions, such as Schizophrenia, Autism Spectrum Disorders, and the dementias. In our paper, we summarize the mechanisms underlying the generation of MEG signals and the tools available to reconstruct generators and underlying networks using advanced source-reconstruction techniques. We then survey recent studies that have utilized MEG to examine aberrant rhythmic activity in neuropsychiatric disorders. This is followed by links with preclinical research, which have highlighted possible neurobiological mechanisms, such as disturbances in excitation/inhibition parameters, which could account for measured changes in neural oscillations. In the final section of the paper, challenges as well as novel methodological developments are discussed which could pave the way for a widespread application of MEG in translational research with the aim of developing biomarkers for early detection and diagnosis.

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    Article . 2017
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    Europe PubMed Central
    Article . 2017
    Data sources: PubMed Central
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      Article . 2017
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      Europe PubMed Central
      Article . 2017
      Data sources: PubMed Central
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    Authors: Karlaftis, VM; Rui, Wang; Shen, Yuan; Tino, Peter; +3 Authors

    Behavioural data and DTI connectivity data (see supporting data description .doc file for more information)

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    Apollo
    Dataset
    License: CC BY
    Data sources: Apollo
    Apollo
    Dataset . 2019
    License: CC BY
    Data sources: Datacite
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      Apollo
      Dataset
      License: CC BY
      Data sources: Apollo
      Apollo
      Dataset . 2019
      License: CC BY
      Data sources: Datacite
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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: Nir, Goren; James, Avery; Thomas, Dowrick; Eleanor, Mackle; +3 Authors

    Electrical Impedance Tomography (EIT) is a non-invasive imaging technique, which has the potential to expedite the differentiation of ischaemic or haemorrhagic stroke, decreasing the time to treatment. Whilst demonstrated in simulation, there are currently no suitable imaging or classification methods which can be successfully applied to human stroke data. Development of these complex methods is hindered by a lack of quality Multi-Frequency EIT (MFEIT) data. To address this, MFEIT data were collected from 23 stroke patients, and 10 healthy volunteers, as part of a clinical trial in collaboration with the Hyper Acute Stroke Unit (HASU) at University College London Hospital (UCLH). Data were collected at 17 frequencies between 5 Hz and 2 kHz, with 31 current injections, yielding 930 measurements at each frequency. This dataset is the most comprehensive of its kind and enables combined analysis of MFEIT, Electroencephalography (EEG) and Computed Tomography (CT) or Magnetic Resonance Imaging (MRI) data in stroke patients, which can form the basis of future research into stroke classification.

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    Europe PubMed Central
    Article . 2018
    Data sources: PubMed Central
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      Europe PubMed Central
      Article . 2018
      Data sources: PubMed Central
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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: Ellis, Sam; Reader, Andrew J;

    This dataset contains the data used to produce the paper: 'Simultaneous maximum a posteriori longitudinal PET image reconstruction' by Ellis and Reader, Physics in Medicine and Biology (2017). DOI: http://dx.doi.org/10.1088/1361-6560/aa7b49. Please see the article for a full description of methodology used to obtain this data.  The dataset comprises a number of MATLAB data files (.mat), MATLAB scripts (.m), and plain text files (.txt), corresponding to each figure in the article. Running the .m script in MATLAB for each figure will reproduce that figure approximately as it appears in the article. Furthermore, the .txt files describe the contents of the .mat data files in order to allow independent exploration of the data. Note that the function plotSparseMarker is required to be able to run fig5.m. This work was funded by the King’s College London & Imperial College London EPSRC Centre for Doctoral Training in Medical Imaging (grant number EP/L015226/1) and supported by the EPSRC grant number EP/M020142/1. This data has been made available in accordance with the EPSRC's policy framework on research data.

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    ZENODO
    Dataset . 2017
    License: CC BY
    Data sources: ZENODO
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    ZENODO
    Dataset . 2017
    License: CC BY
    Data sources: Datacite
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      ZENODO
      Dataset . 2017
      License: CC BY
      Data sources: ZENODO
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      ZENODO
      Dataset . 2017
      License: CC BY
      Data sources: Datacite
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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: Bryan M, Li; Leonardo V, Castorina; Maria Del C, Valdés Hernández; Una, Clancy; +9 Authors

    Vast quantities of Magnetic Resonance Images (MRI) are routinely acquired in clinical practice but, to speed up acquisition, these scans are typically of a quality that is sufficient for clinical diagnosis but sub-optimal for large-scale precision medicine, computational diagnostics, and large-scale neuroimaging collaborative research. Here, we present a critic-guided framework to upsample low-resolution (often 2D) MRI full scans to help overcome these limitations. We incorporate feature-importance and self-attention methods into our model to improve the interpretability of this study. We evaluate our framework on paired low- and high-resolution brain MRI structural full scans (i.e., T1-, T2-weighted, and FLAIR sequences are simultaneously input) obtained in clinical and research settings from scanners manufactured by Siemens, Phillips, and GE. We show that the upsampled MRIs are qualitatively faithful to the ground-truth high-quality scans (PSNR = 35.39; MAE = 3.78E−3; NMSE = 4.32E−10; SSIM = 0.9852; mean normal-appearing gray/white matter ratio intensity differences ranging from 0.0363 to 0.0784 for FLAIR, from 0.0010 to 0.0138 for T1-weighted and from 0.0156 to 0.074 for T2-weighted sequences). The automatic raw segmentation of tissues and lesions using the super-resolved images has fewer false positives and higher accuracy than those obtained from interpolated images in protocols represented with more than three sets in the training sample, making our approach a strong candidate for practical application in clinical and collaborative research.

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    Frontiers in Computational Neuroscience
    Article . 2022 . Peer-reviewed
    License: CC BY
    Data sources: Crossref
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      Frontiers in Computational Neuroscience
      Article . 2022 . Peer-reviewed
      License: CC BY
      Data sources: 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/
    Authors: Jia, Ke;

    Learning and experience are critical for translating ambiguous sensory information from our environments to perceptual decisions. Yet, evidence on how training molds the adult human brain remains controversial, as fMRI at standard resolution does not allow us to discern the finer-scale mechanisms that underlie sensory plasticity. Here, we combine ultra-high field (7T) functional imaging at sub-millimetre resolution with orientation discrimination training to interrogate experience-dependent plasticity across cortical depths that are known to support dissociable brain computations. Our results provide evidence for recurrent plasticity, by contrast to sensory encoding vs. feedback mechanisms. We demonstrate that learning alters orientation-specific representations in superficial rather than middle V1 layers, suggesting changes in read-out rather than input signals. Further, learning increases feedforward rather than feedback layer-to-layer connectivity in occipito-parietal regions, suggesting that sensory plasticity gates perceptual decisions. Our findings reveal finer-scale plasticity mechanisms that re-weight sensory signals to inform improved decisions, bridging the gap between micro- and macro- circuits of experience-dependent plasticity. $$ \ $$ See the file 'Description of uploaded data' for a detailed description of the dataset.

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    Apollo
    Dataset
    License: CC BY
    Data sources: Apollo
    Apollo
    Dataset . 2020
    License: CC BY
    Data sources: Datacite
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      Apollo
      Dataset
      License: CC BY
      Data sources: Apollo
      Apollo
      Dataset . 2020
      License: CC BY
      Data sources: Datacite
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  • Authors: Ledig, Christian; Schuh, Andreas; Guerrero, Ricardo; Heckemann, Rolf A.; +1 Authors

    Data accompanying the article: C. Ledig, A. Schuh, R. Guerrero, R. Heckemann, D. Rueckert, Structural brain imaging in Alzheimer's disease and mild cognitive impairment: biomarker analysis and shared morphometry database, Scientific Reports, 2018. Data derived from 5074 images from the ADNI cohort: - structural segmentations (138 regions, MALPEM); - binary brain masks (pincram); - features (volumes, asymmetry, atrophy rates) and disease labels; - lists of processed images IsSupplementTo: Ledig C, Schuh A, Guerrero R, Heckemann RA, Rueckert D (2018) Structural brain imaging in Alzheimer's disease and mild cognitive impairment: biomarker analysis and shared morphometry database. Scientific Reports, 2018. https://doi.org/10.1038/s41598-018-29295-9

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    Authors: Franke, Barbara; Stein, Jason L; Ripke, Stephan; Anttila, Verneri; +30 Authors

    Schizophrenia is a devastating psychiatric illness with high heritability. Brain structure and function differ, on average, between schizophrenia cases and healthy individuals. As common genetic associations are emerging for both schizophrenia and brain imaging phenotypes, we can now use genome-wide data to investigate genetic overlap. Here we integrated results from common variant studies of schizophrenia (33,636 cases, 43,008 controls) and volumes of several (mainly subcortical) brain structures (11,840 subjects). We did not find evidence of genetic overlap between schizophrenia risk and subcortical volume measures either at the level of common variant genetic architecture or for single genetic markers. The current study provides proof-of-concept (albeit based on a limited set of structural brain measures), and defines a roadmap for future studies investigating the genetic covariance between structural/functional brain phenotypes and risk for psychiatric disorders.

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    Nature Neuroscience
    Article . 2016
    Data sources: PubMed Central
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