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Cited by 215Cell Image Analysis TechniquesSingle-cell and spatial transcriptomicsFunctional Brain Connectivity Studies

An interactive framework for whole-brain maps at cellular resolution

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Fürth, Daniel, Vaissière, Thomas, Tzortzi, Ourania, Xuan, Yang, Märtin, Antje, Lazaridis, Iakovos, Spigolon, Giada, Fisone, Gilberto +6 more·2018·Nature Neuroscience
DOI 10.1038/s41593-017-0027-7PMC PMC5994773
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Abstract

To deconstruct the architecture and function of brain circuits, it is necessary to generate maps of neuronal connectivity and activity on a whole-brain scale. New methods now enable large-scale mapping of the mouse brain at cellular and subcellular resolution. We developed a framework to automatically annotate, analyze, visualize and easily share whole-brain data at cellular resolution, based on a scale-invariant, interactive mouse brain atlas. This framework enables connectivity and mapping projects in individual laboratories and across imaging platforms, as well as multiplexed quantitative information on the molecular identity of single neurons. As a proof of concept, we generated a comparative connectivity map of five major neuron types in the corticostriatal circuit, as well as an activity-based map to identify hubs mediating the behavioral effects of cocaine. Thus, this computational framework provides the necessary tools to generate brain maps that integrate data from connectivity, neuron identity and function.

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  • Advances in image registration and analysis of serial sections improve capacity for complete unbiased assessment.

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References 72 · Cited by 215

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Authors
Fürth, D., Vaissière, T., Tzortzi, O., Xuan, Y., Märtin, A., Lazaridis, I., Spigolon, G., Fisone, G., Tomer, R., Deisseroth, K., Carlén, M., Miller, C. A., Rumbaugh, G., & Meletis, K.
Affiliations
  • Karolinska Institutet (SE)
  • Stanford University (US)
  • Scripps Research Institute (US)
Corresponding author
  • Fürth, Daniel
  • Meletis, Konstantinos
ORCID
Venue
Nature Neuroscience
Publisher
Springer Science and Business Media LLC
Published
2017-12-04
Volume
21
Issue
1
Pages
139-149
ISSN
  • 1097-6256 (ISSN-L)
  • 1546-1726
DOI
10.1038/s41593-017-0027-7
PMC
PMC5994773
OpenAlex
W2773247831
Cited by
215
References
72
Citations by year
2026: 13 · 2025: 25 · 2024: 19 · 2023: 30 · 2022: 30 · 2021: 33 · 2020: 27 · 2019: 26 · 2018: 12
FWCI
9.94
Type
journal article
Language
en
Update notices
correction (2017-12-18)
Open access
Licence
www.springer.com/tdm (unspecified)
Locations
  • Nature Neuroscience (publishedVersion)
  • PubMed (publishedVersion)
  • Europe PMC (PubMed Central) (acceptedVersion)
  • PubMed Central (acceptedVersion)
Funders
  • National Institute of Mental Health (R21MH109795)
  • National Institute on Drug Abuse (R21DA036376)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Biophysics › Cell Image Analysis Techniques
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Single-cell and spatial transcriptomics
  • Life Sciences › Neuroscience › Cognitive Neuroscience › Functional Brain Connectivity Studies
Keywords
whole-brain mapping, mouse brain atlas, neuronal connectivity, corticostriatal circuits, brain network hubs, interactive visualization, data sharing, brain circuits
MeSH terms
Animals, Brain, Brain Mapping, Gene Expression Regulation, Glutamate Decarboxylase, Male, Mice, Transgenic, Motor Activity, Nerve Net, Nerve Tissue Proteins, Neural Pathways, Neurons, Neuropeptide Y, Parvalbumins, Transcription Factors, Genes, Immediate-Early, Green Fluorescent Proteins, LIM-Homeodomain Proteins

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