Academic Journal
Analyzing Large Connectome Graphs With BossDB Network Tools.
| Τίτλος: | Analyzing Large Connectome Graphs With BossDB Network Tools. |
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| Συγγραφείς: | Matelsky JK; Johns Hopkins Applied Physics Laboratory, Laurel, Maryland.; University of Pennsylvania Department of Bioengineering, Philadelphia, Pennsylvania., Martinez H; Johns Hopkins Applied Physics Laboratory, Laurel, Maryland., Xenes D; Johns Hopkins Applied Physics Laboratory, Laurel, Maryland., Robinette M; Johns Hopkins Applied Physics Laboratory, Laurel, Maryland., Panigrahi A; Johns Hopkins Applied Physics Laboratory, Laurel, Maryland., Wester B; Johns Hopkins Applied Physics Laboratory, Laurel, Maryland. |
| Πηγή: | Current protocols [Curr Protoc] 2025 Dec; Vol. 5 (12), pp. e70273. |
| Τύπος έκδοσης: | Journal Article |
| Γλώσσα: | English |
| Στοιχεία περιοδικού: | Publisher: John Wiley & Sons Country of Publication: United States NLM ID: 101773894 Publication Model: Print Cited Medium: Internet ISSN: 2691-1299 (Electronic) Linking ISSN: 26911299 NLM ISO Abbreviation: Curr Protoc Subsets: MEDLINE |
| Imprint Name(s): | Original Publication: Hoboken, NJ : John Wiley & Sons, [2021]- |
| Ιατρικοί όροι (MeSH): | Connectome*/methods , Computational Biology*/methods , Neurosciences*/methods, Nerve Net/physiology ; Datasets as Topic ; Workflow ; Software ; Databases, Factual ; Humans ; Animals ; Data Visualization |
| Περίληψη: | Modern connectomics enables large-scale, comparative network neuroscience across individuals, species, development, and evolution. The field now regularly produces extensive maps of neural connectivity exceeding hundreds of millions of synapses in continuous volumes. When connectomes are deposited in central archives such as BossDB with standardized metadata, researchers can pose previously intractable questions about neuronal networks. Here, we present step-by-step protocols for connectome dataset discovery and access, scalable graph construction and analysis, and reproducible comparative connectomics using BossDB, Motif Studio, DotMotif, Neuroglancer, neuPrint, and Python-based workflows. These protocols target bench neuroscientists and computational biologists and emphasize replicability, cloud-friendly options, and publication-quality visualization. © 2025 Wiley Periodicals LLC. Basic Protocol 1: Discovering connectome datasets and computing summary statistics with BossDB and Motif Studio Basic Protocol 2: Writing queries with DotMotif Basic Protocol 3: Querying known network motifs locally with DotMotif Support Protocol 1: Provisioning ad hoc graph databases for large-scale graph analysis Support Protocol 2: Querying structures and systems in the cloud with neuPrint Basic Protocol 4: Viewing anatomical motif features with BossDB and Neuroglancer. (© 2025 Wiley Periodicals LLC.) |
| Grant Information: | R24 MH114785 United States MH NIMH NIH HHS |
| Contributed Indexing: | Keywords: BossDB; cloud computing; comparative neuroscience; connectomics; data visualization; graph theory; network analysis |
| Entry Date(s): | Date Created: 20251226 Date Completed: 20260427 Latest Revision: 20260427 |
| Update Code: | 20260428 |
| PubMed Central ID: | PMC13080708 |
| DOI: | 10.1002/cpz1.70273 |
| PMID: | 41451919 |
| Βάση Δεδομένων: | MEDLINE |
| ISSN: | 2691-1299 |
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| DOI: | 10.1002/cpz1.70273 |