A5070546556- Cell Image Analysis Techniques
- Functional Brain Connectivity Studies
- Neuroscience and Neuropharmacology Research
- Neural dynamics and brain function
- Receptor Mechanisms and Signaling
- Scientific Computing and Data Management
- Single-cell and spatial transcriptomics
- Animal testing and alternatives
- Neuroinflammation and Neurodegeneration Mechanisms
- Bioinformatics and Genomic Networks
- Memory and Neural Mechanisms
- Metabolomics and Mass Spectrometry Studies
- Health, Environment, Cognitive Aging
- Biomedical Text Mining and Ontologies
- Medical Image Segmentation Techniques
- Neuroscience, Education and Cognitive Function
- Stress Responses and Cortisol
- Advanced Neuroimaging Techniques and Applications
- Meta-analysis and systematic reviews
- Advanced Fluorescence Microscopy Techniques
- Neurological disorders and treatments
- Neonatal Respiratory Health Research
- S100 Proteins and Annexins
- Computational Drug Discovery Methods
- Ethics in Clinical Research
University of Oslo
2018-2024
Norwegian University of Science and Technology
2018
Volumetric brain atlases are increasingly used to integrate and analyze diverse experimental neuroscience data acquired from animal models, but until recently a publicly available digital atlas with complete coverage of the rat has been missing. Here we present an update Waxholm Space atlas, comprehensive open-access volumetric resource. This features annotations 222 structures, which 112 new 57 revised compared previous versions. It provides detailed map cerebral cortex, hippocampal region,...
Registration of data to a common frame reference is an essential step in the analysis and integration diverse neuroscientific data. To this end, volumetric brain atlases enable histological datasets be spatially registered analyzed, yet accurate registration remains expertise-dependent slow. In order address limitation, we have trained neural network, DeepSlice, register mouse images Allen Brain Common Coordinate Framework, retaining accuracy while improving speed by >1000 fold.
The calcium-binding proteins parvalbumin and calbindin are expressed in neuronal populations regulating brain networks involved spatial navigation, memory processes, social interactions. Information about the numbers of these neurons across regions is required to understand their functional roles but scarcely available. Employing semi-automated image analysis, we performed brain-wide analysis immunohistochemically stained sections show that distribute complementary patterns mouse brain....
Alzheimer's disease (AD) is broadly characterized by neurodegeneration, pathology accumulation, and cognitive decline. There considerable variation in the progression of clinical symptoms humans, highlighting importance genetic diversity study AD. To address this, we analyze cell composition amyloid-beta deposition 6- 14-month-old AD-BXD mouse brains. We utilize analytical QUINT workflow- a suite software designed to support atlas-based quantification, which expand deliver highly effective...
Brain atlases are widely used in neuroscience as resources for conducting experimental studies, and integrating, analyzing, reporting data from animal models. A variety of available, it may be challenging to find the optimal atlas a given purpose perform efficient atlas-based analyses. Comparing findings reported using different is also not trivial, represents barrier reproducible science. With this perspective article, we provide guide how mouse rat brain can analyzing accordance with FAIR...
Neuroscientists employ a range of methods and generate increasing amounts data describing brain structure function. The anatomical locations from which observations or measurements originate represent common context for interpretation, starting point identifying interest. However, the multimodality abundance pose challenge efforts to organize, integrate, analyze based on locations. While structured metadata allow faceted queries, different types are not easily represented in standardized...
In experimental neuroscientific research, anatomical location is a key attribute of observations and critical for interpretation results, replication findings, comparison data across studies. With steadily rising numbers publications reporting basic there an increasing need integration synthesis data. Since relies on consistently defined locations, it major concern that practices precision in the from different types studies seem to vary considerably. To elucidate possibly meet this...
The dopaminergic system undergoes major reorganization during development, a period especially vulnerable to mental disorders. Forebrain neurons expressing dopamine 1 and 2 receptors (D1R D2R, respectively) play key role in this system. However, neuroanatomical information about the typical development of these is sparse scattered across publications investigating one or few brain regions. We here present public online collection microscopic images immunohistochemically stained serial...
Abstract Volumetric brain atlases are increasingly used to integrate and analyse diverse experimental neuroscience data acquired from animal models, but until recently a publicly available digital atlas with complete coverage of the rat has been missing. Here we present new Waxholm Space atlas, comprehensive open-access volumetric resource. This full features annotations 222 structures, which 112 57 revised compared previous versions. It maps in detail cerebral cortex, hippocampal region,...
As the European Flagship Human Brain Project (HBP) ends in September 2023, a meeting dedicated to Partnering Projects (PPs), collective of independent research groups that partnered with HBP, was held on 4–7, 2022. The purpose this allow these present their results, reflect collaboration HBP and discuss future interactions Research Infrastructure (RI) EBRAINS has emerged from HBP. In report, we share tour-de-force were have made furthering knowledge concerning various aspects We describe...
Abstract Studies of the adult mouse brain have benefited from three-dimensional atlases providing a standard frame reference for data analysis and integration. Extending these resources to developing has been challenging due need integrate time as dimension atlas. To address this, we present Developmental Mouse Brain Atlas, four-dimensional atlas encompassing each postnatal day 4 56.
The dopaminergic system of the brain is involved in complex cognitive functioning and undergoes extensive reorganization during development. Yet, these changes are poorly characterized. We have quantified density dopamine 1- 2-receptor (D1 D2) positive cells across forebrain male female mice at five developmental stages using validated transgenic expressing green fluorescent protein producing D1 or D2 mRNA. After analyzing >4,500 coronal images, a cortico-subcortical shift D1/D2 balance was...
Grid cells in layer II of the medial entorhinal cortex (MEC LII) generate multiple regular firing fields response to position and speed an individual within environment. They exhibit a protracted postnatal development and, adult, show activity differences along dorsoventral axis (DVA). Evidence suggests parvalbumin-positive (PV + ) interneurons, most which are perisomatic-targeting cells, play crucial role generation hexagonal grid cell pattern. We therefore hypothesized that organization PV...
Abstract Quantitative measurements and descriptive statistics of different cellular elements in the brain are typically published journal articles as text, tables, example figures, represent an important basis for creation biologically constrained computational models, design intervention studies, comparison subject groups. Such data can be challenging to extract from publications difficult normalise compare across few studies have so far attempted integrate quantitative information...
Abstract The dopaminergic system of the brain is involved in complex cognitive functioning and undergoes extensive reorganization during development. Yet, these changes are poorly characterized. We have quantified density dopamine 1- 2-receptor (D1 D2) positive cells across forebrain male female mice at five developmental stages. Our findings show a cortico-subcortical shift D1/D2 balance, with increasing D1 dominance cortical regions as maturational pattern that occurs earlier females....
Abstract Alzheimer’s disease (AD) is characterized by neurodegeneration, pathology accumulation, and progressive cognitive decline. There significant variation in age at onset severity of symptoms highlighting the importance genetic diversity study AD. To address this, we analyzed cell composition 6- 14-month-old AD-BXD mouse brains using semi-automated workflow (QUINT); which expanded to allow for nonlinear refinement brain atlas-registration, quality control assessment atlas-registration...