ArticleNeuroinformatics2021
Predicting Synaptic Connectivity for Large-Scale Microcircuit Simulations Using Snudda.
Article in Neuroinformatics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
8 citing papers in PubMed, 10 citations in OpenAlex.
- Synaptic integration and competition in the substantia nigra pars reticulata-An experimental and in silico analysis.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Mouse and human striatal projection neurons compared - somatodendritic arbor, spines and in silico analyses.PLoS computational biology · 2025Article
- Cellular and synaptic properties of molecularly defined neurons in the external globus pallidus.iScience · 2025Article
- Multiscale brain modeling: bridging microscopic and macroscopic brain dynamics for clinical and technological applications.Frontiers in cellular neuroscience · 2025Review
- Synaptic and dendritic architecture of different types of hippocampal somatostatin interneurons.PLoS biology · 2024Article
- The impact of Parkinson's disease on striatal network connectivity and corticostriatal drive: An in silico study.Network neuroscience (Cambridge, Mass.) · 2024Article
- The roles of surround inhibition for the intrinsic function of the striatum, analyzed in silico.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Dopaminergic and Cholinergic Modulation of Large Scale NetworksFrontiers in neural circuits · 2021Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Simulation of large-scale networks of neurons is an important approach to understanding and interpreting experimental data from healthy and diseased brains. Owing to the rapid development of simulation software and the accumulation of quantitative data of different neuronal types, it is possible to predict both computational and dynamical properties of local microcircuits in a 'bottom-up' manner. Simulated data from these models can be compared with experiments and 'top-down' modelling approaches, successively bridging the scales. Here we describe an open source pipeline, using the software Snudda, for predicting microcircuit connectivity and for setting up simulations using the NEURON simulation environment in a reproducible way. We also illustrate how to further 'curate' data on single neuron morphologies acquired from public databases. This model building pipeline was used to set up a first version of a full-scale cellular level model of mouse dorsal striatum. Model components from that work are here used to illustrate the different steps that are needed when modelling subcortical nuclei, such as the basal ganglia.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.