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722 Research products

  • Neuroinformatics
  • 2023-2023
  • Research data

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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: Chavignon, Arthur; Heiles, Baptiste; Hingot, Vincent; Orset, cyrille; +2 Authors

    Abstract: Ultrasound Localization Microscopy (ULM) enables imaging microvessels in the brain with a resolution of a few tens of micrometers in vivo. The planar architecture of arterioles and venules was revealed with a 2D ultrasound scanner in the cortex of the rat brain. However, deeper in the brain, where the vascularization becomes tri-dimensional, 2D imaging remains limited by the elevation projection. In this study, volumetric ultrasound imaging was performed in the craniotomized rat brain to yield 3D ULM in vivo within 7.5 min of acquisition with a commercial system. For instance, it highlighted the thalamus or the circle of Willis with small vessels down to 21 µm. Microbubbles tracking also gave access to the 3D velocity vector of blood flow allowing to distinguish flow directions. Volumetric ULM resolved deep complex tri-dimensional vascular structures and was compared to 2D ULM. It is a safe, simple and repeatable system to image wide field of view in the brain. Data Description: Microbubbles have been detected, localized, and tracking with 3D ultrasound imaging in vivo in a rat brain with skull removal. Individual microbubble trajectories are described in 4 columns vectores: [z, x, y, time] for each position of the path. Space positions are given in [mm], and times are given in [ms]. Trajectories data are stored in .mat files (tracks_0xx.mat and zipped inside tracks.zip) as cell arrays. Tracks can be binned inside a volumetric grid with the sample code (ULM_rendering.m). Reference to be cited: Chavignon, Heiles, Hingot, Orset, Vivien and Couture. Deep and complex vascular anatomy in the rat brain described with Ultrasound Localization Microscopy in 3D. 

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    ZENODO
    Dataset . 2023
    License: CC BY
    Data sources: ZENODO
    ZENODO
    Dataset . 2023
    License: CC BY
    Data sources: Datacite
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      ZENODO
      Dataset . 2023
      License: CC BY
      Data sources: ZENODO
      ZENODO
      Dataset . 2023
      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: Abbasi, Dr. Hossein;

    Dataset from the following publication: Abbasi, H., Dötsch, D., & Schubö, A. (under revision). Electrophysiological correlates of attentional capture in joint action. European Journal of Neuroscience. For more information see the ReadMe.pdf file.

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    data_UMR
    Dataset . 2023
    License: CC BY NC ND
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      data_UMR
      Dataset . 2023
      License: CC BY NC ND
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    Authors: Stenroos Petteri; Guillemain Isabelle; Tesler Federico; Montigon Olivier; +6 Authors

    This repository contains measured and simulated data for the manuscript titled "How Absence Seizures Impair Sensory Perception: Insights from Awake fMRI and Simulation Studies in Rats" by Stenroos P. et al. Electroencephalographic (EEG) and functional magnetic resonance imaging (fMRI) data was recorded simultaneously from awake GAERS; a rat model of absence epilepsy. Visual and whisker stimulation was experimentally applied, and visual stimulation was simulated during interictal and ictal states and whole brain hemodynamic and neural responsiveness was compared between states.

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    ZENODO
    Dataset . 2023
    License: CC BY
    Data sources: Datacite
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    ZENODO
    Dataset . 2023
    License: CC BY
    Data sources: ZENODO
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      ZENODO
      Dataset . 2023
      License: CC BY
      Data sources: Datacite
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      ZENODO
      Dataset . 2023
      License: CC BY
      Data sources: ZENODO
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    Authors: Pandey, Ravi S.; Kotredes, Kevin P.; Sasner, Michael; Howell, Gareth R.; +1 Authors

    Additional file 11: Supplementary Table 6. Enrichment of Gene ontology biological processes analyses in differentially isoform usage (DTU) genes. The attached table depicts the gene 2 ontology enrichment for the differentially isoform usage genes in Trem2*R47H male and female mice compared to age and sex-matched C7BL/6 J mice.

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    figshare
    Dataset . 2023
    License: CC BY
    Data sources: Datacite
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    figshare
    Dataset . 2023
    License: CC BY
    Data sources: Datacite
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      figshare
      Dataset . 2023
      License: CC BY
      Data sources: Datacite
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      figshare
      Dataset . 2023
      License: CC BY
      Data sources: Datacite
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  • Authors: Bahne H. Bahners; Lofredi, Roxanne; Sander, Tilmann; Schnitzler, Alfons; +2 Authors
    OpenNeuroarrow_drop_down
    OpenNeuro
    Dataset . 2023
    Data sources: Datacite
    OpenNeuro
    Dataset . 2023
    Data sources: Datacite
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      OpenNeuroarrow_drop_down
      OpenNeuro
      Dataset . 2023
      Data sources: Datacite
      OpenNeuro
      Dataset . 2023
      Data sources: Datacite
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  • Authors: Clayson, Peter E.; Larson, Michael J.;
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  • Authors: Rybář, Milan; Poli, Riccardo; Daly, Ian;
    OpenNeuroarrow_drop_down
    OpenNeuro
    Dataset . 2023
    Data sources: Datacite
    OpenNeuro
    Dataset . 2023
    Data sources: Datacite
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      OpenNeuroarrow_drop_down
      OpenNeuro
      Dataset . 2023
      Data sources: Datacite
      OpenNeuro
      Dataset . 2023
      Data sources: Datacite
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    Authors: Migliorini, Duccio; Auger-Rozenberg, Marie-Anne; Battisti, Andrea; Brockerhoff, Eckehard; +11 Authors

    File 1

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    ZENODO
    Dataset . 2023
    License: CC 0
    Data sources: ZENODO
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      ZENODO
      Dataset . 2023
      License: CC 0
      Data sources: ZENODO
  • Authors: Qihong Zou; Gao, Jia-Hong;

    Data overviewSleep, as one of the most important physiological processes in human beings, plays a critical role in various aspects of health and well-being, yet its underlying mechanisms have not been elucidated. Simultaneous EEG-fMRI combines both electrophysiology high temporal resolution and fMRI with high spatial resolution that characterizes spatiotemporal dynamics in brain function during sleep. Here, we present a comprehensive dataset of sleep EEG-fMRI data from 138 healthy adults with a total duration over 390 hours in nocturnal sleep, capturing all five physiological stages. Remarkably, we are able to obtain stable rapid eye-movement (REM) sleep data from 22 participants, which is unprecedented in sleep EEG-fMRI literature. Our resource of EEG-fMRI data would accelerate theoretical studies of sleep mechanism, EEG and fMRI mythological studies, and establishing a reference for understanding sleep-related mental disorders. Sleep EEG-fMRI dataset includes high-resolution T1-weighted structural MR images, and BOLD fMRI data simultaneously acquired with EEG during the nocturnal sleep. The sleep EEG-fMRI scan started around midnight and ended around 3 AM. Sleep stages were scored every 30 s by an experienced technician based on EEG data according to the AASM criteria. One hundred and thirty-six out of the 138 participants (98.55%) fell asleep with at least one 30-s epoch. During the sleep EEG-fMRI scan, the participants spent 0.69 hours in wakefulness (24.82%), 0.50 hours in non-REM stage 1 (N1) (18.06%), 1.03 hours in N2 (37.02%), 0.48 hours in N3 (17.82%) and 0.063 hours in REM (2.27%) sleep. Sleep diaries, sleep questionnaires, cognitive tests and whole-night sleep recordings of the participants are also acquired and shared. Data summaryParticipants: 138 healthy young adultsImaging scanner: 3T MR (Siemens Prisma)EEG: 64-channel caps with EEG, ECG, EMG, and EOG (Brain Products)Institution: Peking University, Beijing, ChinaFunding agencies: Beijing United Imaging Research Institute of Intelligent Imaging Foundation; the National Natural Scientific Foundation of China; the National Science and Technology Innovation 2030 Program; the Chinese Institute for Brain Research (Beijing) and the Ministry of Science and Technology of China. To access the data, investigators must complete the application file Data Use Agreement on Sleep EEG-fMRI Project and have it reviewed and approved by the PIs of the project (Drs. Jia-Hong Gao and Qihong Zou). All terms specified by the Data Use Agreement on Sleep EEG-fMRI Project must be complied with.

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    Authors: Sokolov, Aleksandr V.; Manu, Diana-Maria; Nordberg, Didi O. T.; Boström, Adrian D. E.; +2 Authors

    Additional file 17: Table S9. 9.1 The source publications of stress-related CpG sites. 9.2 CpG–CpG associations in the SKI. The models were calculated, using the standard implementation of linear regression. The covariates are specific for every cohort (see methods). The p values were adjusted with the false discovery rate method. The Stress CpG genes were obtained from Illumina annotation files for HumanMethylation450 and MethylationEPIC arrays. 9.3 CpG–CpG associations in the Grady sample. 9.4 CpG–CpG associations in the E-GEOD-41826 (glia) sample. 9.5 CpG–CpG associations in the GSE88890 (BA11) sample. 9.6 CpG–CpG associations in the GSE88890 (BA25) sample. 9.7 Pooled CpG–CpG associations that were nominally significant and detected more than once. 9.8 Pooled CpG–CpG associations that were nominally significant, were detected more than once, and had matching directions for beta coefficients.

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    Dataset . 2023
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    Data sources: Datacite
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    Dataset . 2023
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    Data sources: Datacite
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      Dataset . 2023
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      Data sources: Datacite
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      Dataset . 2023
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722 Research products
  • 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: Chavignon, Arthur; Heiles, Baptiste; Hingot, Vincent; Orset, cyrille; +2 Authors

    Abstract: Ultrasound Localization Microscopy (ULM) enables imaging microvessels in the brain with a resolution of a few tens of micrometers in vivo. The planar architecture of arterioles and venules was revealed with a 2D ultrasound scanner in the cortex of the rat brain. However, deeper in the brain, where the vascularization becomes tri-dimensional, 2D imaging remains limited by the elevation projection. In this study, volumetric ultrasound imaging was performed in the craniotomized rat brain to yield 3D ULM in vivo within 7.5 min of acquisition with a commercial system. For instance, it highlighted the thalamus or the circle of Willis with small vessels down to 21 µm. Microbubbles tracking also gave access to the 3D velocity vector of blood flow allowing to distinguish flow directions. Volumetric ULM resolved deep complex tri-dimensional vascular structures and was compared to 2D ULM. It is a safe, simple and repeatable system to image wide field of view in the brain. Data Description: Microbubbles have been detected, localized, and tracking with 3D ultrasound imaging in vivo in a rat brain with skull removal. Individual microbubble trajectories are described in 4 columns vectores: [z, x, y, time] for each position of the path. Space positions are given in [mm], and times are given in [ms]. Trajectories data are stored in .mat files (tracks_0xx.mat and zipped inside tracks.zip) as cell arrays. Tracks can be binned inside a volumetric grid with the sample code (ULM_rendering.m). Reference to be cited: Chavignon, Heiles, Hingot, Orset, Vivien and Couture. Deep and complex vascular anatomy in the rat brain described with Ultrasound Localization Microscopy in 3D. 

    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
    Dataset . 2023
    License: CC BY
    Data sources: ZENODO
    ZENODO
    Dataset . 2023
    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/ 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
      Dataset . 2023
      License: CC BY
      Data sources: ZENODO
      ZENODO
      Dataset . 2023
      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: Abbasi, Dr. Hossein;

    Dataset from the following publication: Abbasi, H., Dötsch, D., & Schubö, A. (under revision). Electrophysiological correlates of attentional capture in joint action. European Journal of Neuroscience. For more information see the ReadMe.pdf file.

    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/ data_UMRarrow_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/
    data_UMR
    Dataset . 2023
    License: CC BY NC ND
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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/ data_UMRarrow_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/
      data_UMR
      Dataset . 2023
      License: CC BY NC ND
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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: Stenroos Petteri; Guillemain Isabelle; Tesler Federico; Montigon Olivier; +6 Authors

    This repository contains measured and simulated data for the manuscript titled "How Absence Seizures Impair Sensory Perception: Insights from Awake fMRI and Simulation Studies in Rats" by Stenroos P. et al. Electroencephalographic (EEG) and functional magnetic resonance imaging (fMRI) data was recorded simultaneously from awake GAERS; a rat model of absence epilepsy. Visual and whisker stimulation was experimentally applied, and visual stimulation was simulated during interictal and ictal states and whole brain hemodynamic and neural responsiveness was compared between states.

    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
    Dataset . 2023
    License: CC BY
    Data sources: Datacite
    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
    Dataset . 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/ 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
      Dataset . 2023
      License: CC BY
      Data sources: Datacite
      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
      Dataset . 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/
    Authors: Pandey, Ravi S.; Kotredes, Kevin P.; Sasner, Michael; Howell, Gareth R.; +1 Authors

    Additional file 11: Supplementary Table 6. Enrichment of Gene ontology biological processes analyses in differentially isoform usage (DTU) genes. The attached table depicts the gene 2 ontology enrichment for the differentially isoform usage genes in Trem2*R47H male and female mice compared to age and sex-matched C7BL/6 J mice.

    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/ figsharearrow_drop_down
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    figshare
    Dataset . 2023
    License: CC BY
    Data sources: Datacite
    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/
    figshare
    Dataset . 2023
    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/ figsharearrow_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/
      figshare
      Dataset . 2023
      License: CC BY
      Data sources: Datacite
      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/
      figshare
      Dataset . 2023
      License: CC BY
      Data sources: Datacite
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  • Authors: Bahne H. Bahners; Lofredi, Roxanne; Sander, Tilmann; Schnitzler, Alfons; +2 Authors
    OpenNeuroarrow_drop_down
    OpenNeuro
    Dataset . 2023
    Data sources: Datacite
    OpenNeuro
    Dataset . 2023
    Data sources: Datacite
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