Evidence map›Paper›PMID 39358017›Full record

ReviewThe Journal of neuroscience : the official journal of the Society for Neuroscience2024

Large-Scale Mechanistic Models of Brain Circuits with Biophysically and Morphologically Detailed Neurons.

Salvador Dura-Bernal, Beatriz Herrera, Carmen Lupascu, Brianna M Marsh, Daniela Gandolfi, Addolorata Marasco, Samuel Neymotin, Armando Romani, Sergio Solinas, Maxim Bazhenov and 4 more

Abstract readReview
In one paragraph

Review in The Journal of neuroscience : the official journal of the Society for Neuroscience, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.

0numbers the graph read from it
0cells of the map it votes in
16citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

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.

2 · The registry

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.

3 · Its place in the literature

Who cites it

16 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Review
  8. From Atoms to Neuronal Spikes: A Multiscale Simulation Framework.Journal of chemical theory and computation · 2026
    Review
  9. Article
  10. Article
  11. Article
  12. From Atoms to Neuronal Spikes: A Multi-Scale Simulation Framework.bioRxiv : the preprint server for biology · 2025
    Article
  13. Article
  14. Article
  15. Review
  16. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

14 authors.

Salvador Dura-BernalState University of New York (SUNY) Downstate Health Sciences University, Brooklyn, New York 11203 salvador.dura-bernal@downstate.edu.ORCID 0000-0002-8561-5324
Beatriz HerreraAllen Institute, Seattle, Washington 98109.ORCID 0000-0001-6654-3057
Carmen LupascuInstitute of Biophysics, National Research Council/Human Brain Project, Palermo 90146, Italy.
Brianna M MarshUniversity of California San Diego, La Jolla, California 92093.
Daniela GandolfiDepartment of Engineering "Enzo Ferrari", University of Modena and Reggio Emilia, Modena 41125, Italy.
Addolorata MarascoUniversity of Naples Federico II, Naples 80138, Italy.ORCID 0000-0002-8613-7467
Samuel NeymotinNathan S. Kline Institute for Psychiatric Research, Orangeburg, New York 10962.
Armando RomaniSwiss Federal Institute of Technology Lausanne (EPFL)/Blue Brain Project, Lausanne 1015, Switzerland.ORCID 0000-0001-6388-4286
Sergio SolinasUniversity of Sassari, Sassari 07100, Italy.
Maxim BazhenovUniversity of California San Diego, La Jolla, California 92093.
Etay HayKrembil Centre for Neuroinformatics, Centre for Addiction and Mental Health, Toronto, Ontario M5T 1R8, Canada.ORCID 0000-0001-8136-6124
Michele MiglioreInstitute of Biophysics, National Research Council/Human Brain Project, Palermo 90146, Italy.ORCID 0000-0002-7584-6292
Michael ReinmannSwiss Federal Institute of Technology Lausanne (EPFL)/Blue Brain Project, Lausanne 1015, Switzerland.
Anton ArkhipovAllen Institute, Seattle, Washington 98109.

Funding

Project 5: ComputationalP50MH109429 · NIMH · NATHAN S. KLINE INSTITUTE FOR PSYCH RES · PI Michael Peter Milham · 2017 to 2026
$25.3M
Bridging Function, Connectivity, and Transcriptomics of Mouse Cortical NeuronsU01MH130907 · NIMH · ALLEN INSTITUTE · PI ANTON ARKHIPOV, MARINA E. GARRETT · 2022 to 2026
$12.5M
Cortical and thalamic mechanisms of selective auditory attentionR01DC012947 · NIDCD · NATHAN S. KLINE INSTITUTE FOR PSYCH RES · PI NEYMOTIN, SAMUEL A, SCHROEDER, CHARLES E · 2013 to 2022
$5.2M
Integrated Biophysical and Neural Model of Electrical Stimulation EffectsR01NS109553 · NINDS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI BAZHENOV, MAKSIM V, HALGREN, ERIC · 2019 to 2023
$4.4M
Cell Type and Circuit Mechanisms of Non-Invasive Brain Stimulation by Sensory EntrainmentR01NS122742 · NINDS · ALLEN INSTITUTE · PI ANTON ARKHIPOV, Li-Huei Tsai · 2021 to 2026
$4.1M
Advancing Bio-Realistic Modeling via the Brain Modeling ToolKit and SONATA Data FormatU24NS124001 · NINDS · ALLEN INSTITUTE · PI ANTON ARKHIPOV, Emad Tajkhorshid · 2021 to 2026
$3.4M
Dynamic circuit motifs underlying multimodal interactions in primate auditory cortexR01DC019979 · NIDCD · NATHAN S. KLINE INSTITUTE FOR PSYCH RES · PI Stephan Bickel, Samuel A Neymotin · 2022 to 2026
$3.3M
Role of coordinated multi-area reactivations during transitions between automatic and flexible behaviors.RF1NS132913 · NINDS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI BAZHENOV, MAKSIM V, BERKE, JOSHUA D · 2023 to 2023
$3.0M
CRCNS: Neural computations underlying sequence memory consolidation in sleepR01MH125557 · NIMH · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI BAZHENOV, MAKSIM V · 2020 to 2024
$1.8M
Dissemination of a tool for data-driven multiscale modeling of brain circuitsU24EB028998 · NIBIB · SUNY DOWNSTATE MEDICAL CENTER · PI DURA-BERNAL, SALVADOR · 2019 to 2023
$1.6M
Modeling the structure-function relation in a reconstructed cortical tissueR01EB029813 · NIBIB · ALLEN INSTITUTE · PI ARKHIPOV, ANTON, MIHALAS, STEFAN · 2020 to 2020
$1.3M
Modern On-Site High Performance Computing SystemS10OD032417 · OD · SUNY DOWNSTATE MEDICAL CENTER · PI BUNNELL, SCOTT · 2022 to 2022
$578k
NIBIB NIH HHS R01 EB029813NIBIB NIH HHS U24 EB028998NIDCD NIH HHS R01 DC012947NIDCD NIH HHS R01 DC019979NIH HHS S10 OD032417NIMH NIH HHS P50 MH109429NIMH NIH HHS R01 MH125557NIMH NIH HHS U01 MH130907NINDS NIH HHS R01 NS109553NINDS NIH HHS R01 NS122742NINDS NIH HHS RF1 NS132913NINDS NIH HHS U24 NS124001
6 · The paper itself

Abstract

Understanding the brain requires studying its multiscale interactions from molecules to networks. The increasing availability of large-scale datasets detailing brain circuit composition, connectivity, and activity is transforming neuroscience. However, integrating and interpreting this data remains challenging. Concurrently, advances in supercomputing and sophisticated modeling tools now enable the development of highly detailed, large-scale biophysical circuit models. These mechanistic multiscale models offer a method to systematically integrate experimental data, facilitating investigations into brain structure, function, and disease. This review, based on a Society for Neuroscience 2024 MiniSymposium, aims to disseminate recent advances in large-scale mechanistic modeling to the broader community. It highlights (1) examples of current models for various brain regions developed through experimental data integration; (2) their predictive capabilities regarding cellular and circuit mechanisms underlying experimental recordings (e.g., membrane voltage, spikes, local-field potential, electroencephalography/magnetoencephalography) and brain function; and (3) their use in simulating biomarkers for brain diseases like epilepsy, depression, schizophrenia, and Parkinson's, aiding in understanding their biophysical underpinnings and developing novel treatments. The review showcases state-of-the-art models covering hippocampus, somatosensory, visual, motor, auditory cortical, and thalamic circuits across species. These models predict neural activity at multiple scales and provide insights into the biophysical mechanisms underlying sensation, motor behavior, brain signals, neural coding, disease, pharmacological interventions, and neural stimulation. Collaboration with experimental neuroscientists and clinicians is essential for the development and validation of these models, particularly as datasets grow. Hence, this review aims to foster interest in detailed brain circuit models, leading to cross-disciplinary collaborations that accelerate brain research.

Indexed as

BrainModels, NeurologicalNerve NetNeuronsAnimalsHumansbiophysically detailed modelsbrain circuitsmechanistic modelsmodelingmorphologically detailed neuronsmulti-compartmental neuron modelsnetwork modelssimulations

Identifiers

PMID39358017
PMCPMC11450527

What Socratic holds

Textmetadata
Read underepoch 390

Registered trials

None linked

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 Socratic graph.