ArticlePloS one2012
TrakEM2 software for neural circuit reconstruction.
Article in PloS one, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 526 papers, 1 of them a synthesis that pooled it.
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Who cites it
526 citing papers in PubMed, 1 synthesis or guideline pooled it.
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- Synchronous climbing fiber activity enables instructive signaling for cerebellar learning through modulation of disinhibitory circuits.Nature neuroscience · 2026Article
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466 more citing papers are in PubMed but not listed here.
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Authors and funding
9 authors.
Funding
Abstract
A key challenge in neuroscience is the expeditious reconstruction of neuronal circuits. For model systems such as Drosophila and C. elegans, the limiting step is no longer the acquisition of imagery but the extraction of the circuit from images. For this purpose, we designed a software application, TrakEM2, that addresses the systematic reconstruction of neuronal circuits from large electron microscopical and optical image volumes. We address the challenges of image volume composition from individual, deformed images; of the reconstruction of neuronal arbors and annotation of synapses with fast manual and semi-automatic methods; and the management of large collections of both images and annotations. The output is a neural circuit of 3d arbors and synapses, encoded in NeuroML and other formats, ready for analysis.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.