Source 1review2022Frontiers in Neural Circuits
Toolkit/calcium indicators
calcium indicators
Taxonomy: Mechanism Branch / Component. Workflows sit above the mechanism and technique branches rather than replacing them.
Summary
This review provides a broad overview of ... newly developed calcium, and voltage indicators
Usefulness & Problems
Why this is useful
Calcium indicators are described as tools used to monitor neural circuit activity. The review includes them among contemporary methods for investigating circuit architecture and function.; monitoring neural circuit activity; investigating circuit function; Calcium indicators are used to assess activity during optogenetic functional mapping experiments. The abstract includes them as one of the readout classes paired with optogenetic stimulation.; assessing activity during optogenetic functional mapping
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Calcium indicators are described as tools used to monitor neural circuit activity. The review includes them among contemporary methods for investigating circuit architecture and function.
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monitoring neural circuit activity
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investigating circuit function
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Calcium indicators are used to assess activity during optogenetic functional mapping experiments. The abstract includes them as one of the readout classes paired with optogenetic stimulation.
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assessing activity during optogenetic functional mapping
Problem solved
They support activity monitoring in neural circuits.; enables optical monitoring of neural activity; It offers a way to monitor activity responses evoked by targeted optical stimulation.; provides an activity readout modality for optogenetic mapping
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They support activity monitoring in neural circuits.
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enables optical monitoring of neural activity
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It offers a way to monitor activity responses evoked by targeted optical stimulation.
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provides an activity readout modality for optogenetic mapping
Problem links
enables optical monitoring of neural activity
LiteratureThey support activity monitoring in neural circuits.
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They support activity monitoring in neural circuits.
provides an activity readout modality for optogenetic mapping
LiteratureIt offers a way to monitor activity responses evoked by targeted optical stimulation.
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It offers a way to monitor activity responses evoked by targeted optical stimulation.
Published Workflows
Objective: Map, monitor, and manipulate neural circuitry with increasing functional precision.
Why it works: The review frames neural-circuit study as requiring complementary stages: anatomical tracing to define connectivity, monitoring to observe activity patterns, and manipulation to infer function causally.
genetic targetingviral tracingelectrophysiological recordingoptical activity sensingneurochemical sensingactivity manipulationrecombination-based targetingactivity-driven targetingviral tracingelectrophysiologycalcium imagingvoltage imagingbiosensor-based monitoringoptogeneticschemogeneticsgenetic ablation
Stages
- 1.Genetic targeting of neural cell populations(library_design)
The review states that cell-type-specific genetic tools allow interrogation of neural circuits with increased precision.
Selection: cell-type-specific access using recombination-based or activity-driven genetic targeting approaches
- 2.Anatomical tracing of neural circuits(functional_characterization)
The abstract states that functionally precise brain mapping requires anatomically tracing neural circuits.
Selection: use contemporary viral tracing strategies to define circuit architecture
- 3.Monitoring neural activity patterns(functional_characterization)
The abstract states that functionally precise mapping requires monitoring activity patterns and lists multiple monitoring modalities.
Selection: use electrophysiological recording methods, calcium indicators, voltage indicators, and neurotransmitter or neuropeptide biosensors to observe circuit function
- 4.Manipulation of neural activity to infer function(confirmatory_validation)
The abstract states that manipulating neural activity is required to infer function.
Selection: use genetically targeted cellular ablation, optogenetics, chemogenetics, or ion-channel over-expression for acute or chronic perturbation
Taxonomy & Function
Primary hierarchy
Mechanism Branch
Component: A low-level RNA part used inside a larger architecture that realizes a mechanism.
Mechanisms
calcium-dependent activity reportingTechniques
No technique tags yet.
Target processes
No target processes tagged yet.
Implementation Constraints
cofactor dependency: cofactor requirement unknownencoding mode: genetically encodedimplementation constraint: context specific validationoperating role: sensor
The method requires calcium-sensitive indicators and an optical readout setup alongside optogenetic stimulation.; must be paired with optogenetic stimulation
Independent follow-up evidence is still limited. Validation breadth across biological contexts is still narrow. Independent reuse still looks limited, so the evidence base may be fragile. No canonical validation observations are stored yet, so context-specific performance remains under-specified.
Validation
Cell-freeBacteriaMammalianMouseHumanTherapeuticIndep. Replication
Supporting Sources
Ranked Claims
Functionally precise mapping of the mammalian brain requires tracing neural circuits, monitoring their activity patterns, and manipulating their activity to infer function.
Calcium indicators, voltage indicators, and neurotransmitter or neuropeptide biosensors are being used to investigate circuit architecture and function.
Genetically targeted cellular ablation, optogenetics, chemogenetics, and over-expression of ion channels are methods for acute or chronic manipulation of neural activity.
Approval Evidence
2 sources2 linked approval claimsfirst-pass slug calcium-indicators
This review provides a broad overview of ... newly developed calcium, and voltage indicators
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We review recently developed functional mapping methods that use optogenetic single-point stimulation in the rodent brain and employ cellular electrophysiology, evoked motor movements, voltage sensitive dyes (VSDs), calcium indicators, or functional magnetic resonance imaging (fMRI) to assess activity.
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review scope summarysupports
Functionally precise mapping of the mammalian brain requires tracing neural circuits, monitoring their activity patterns, and manipulating their activity to infer function.
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use case summarysupports
Calcium indicators, voltage indicators, and neurotransmitter or neuropeptide biosensors are being used to investigate circuit architecture and function.
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Comparisons
Source-stated alternatives
The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.; The abstract lists electrophysiology, evoked motor movements, VSD imaging, and fMRI as alternative readouts.
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The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.
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The abstract lists electrophysiology, evoked motor movements, VSD imaging, and fMRI as alternative readouts.
Source-backed strengths
described as newly developed indicators in the neural-circuit toolkit
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described as newly developed indicators in the neural-circuit toolkit
Compared with biosensors
The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.
Shared frame: source-stated alternative in extracted literature
Strengths here: described as newly developed indicators in the neural-circuit toolkit.
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The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.
Compared with biosensors for active Rho detection
The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.
Shared frame: source-stated alternative in extracted literature
Strengths here: described as newly developed indicators in the neural-circuit toolkit.
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The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.
Compared with electrophysiology
The abstract lists electrophysiology, evoked motor movements, VSD imaging, and fMRI as alternative readouts.
Shared frame: source-stated alternative in extracted literature
Strengths here: described as newly developed indicators in the neural-circuit toolkit.
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The abstract lists electrophysiology, evoked motor movements, VSD imaging, and fMRI as alternative readouts.
Compared with fluorescent protein based reporters and biosensors
The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.
Shared frame: source-stated alternative in extracted literature
Strengths here: described as newly developed indicators in the neural-circuit toolkit.
Source:
The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.
Compared with functional magnetic resonance imaging
The abstract lists electrophysiology, evoked motor movements, VSD imaging, and fMRI as alternative readouts.
Shared frame: source-stated alternative in extracted literature
Strengths here: described as newly developed indicators in the neural-circuit toolkit.
Source:
The abstract lists electrophysiology, evoked motor movements, VSD imaging, and fMRI as alternative readouts.
Compared with genetically engineered biosensors
The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.
Shared frame: source-stated alternative in extracted literature
Strengths here: described as newly developed indicators in the neural-circuit toolkit.
Source:
The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.
Compared with imaging
The abstract lists electrophysiology, evoked motor movements, VSD imaging, and fMRI as alternative readouts.
Shared frame: source-stated alternative in extracted literature
Strengths here: described as newly developed indicators in the neural-circuit toolkit.
Source:
The abstract lists electrophysiology, evoked motor movements, VSD imaging, and fMRI as alternative readouts.
Compared with imaging surveillance
The abstract lists electrophysiology, evoked motor movements, VSD imaging, and fMRI as alternative readouts.
Shared frame: source-stated alternative in extracted literature
Strengths here: described as newly developed indicators in the neural-circuit toolkit.
Source:
The abstract lists electrophysiology, evoked motor movements, VSD imaging, and fMRI as alternative readouts.
Compared with neuropeptide biosensors
The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.
Shared frame: source-stated alternative in extracted literature
Strengths here: described as newly developed indicators in the neural-circuit toolkit.
Source:
The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.
Compared with voltage indicators
The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.
Shared frame: source-stated alternative in extracted literature
Strengths here: described as newly developed indicators in the neural-circuit toolkit.
Source:
The abstract contrasts calcium indicators with voltage indicators, electrophysiological recording methods, and neurotransmitter or neuropeptide biosensors.
Compared with voltage-sensitive dye imaging
The abstract lists electrophysiology, evoked motor movements, VSD imaging, and fMRI as alternative readouts.
Shared frame: source-stated alternative in extracted literature
Strengths here: described as newly developed indicators in the neural-circuit toolkit.
Source:
The abstract lists electrophysiology, evoked motor movements, VSD imaging, and fMRI as alternative readouts.
Ranked Citations
- 1.