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86 results for “optogenetic”
Data from: Atypical collective oscillatory activity in cardiac tissue uncovered by optogenetics
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EEG Recordings for: Optogenetic stimulation of the dorsal striatum bidirectionally controls seizures
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RubyACRs enable red-shifted optogenetic inhibition in freely behaving Drosophila
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Optogenetic silencing by combining a rhodopsin cyclase with an engineered cGMP-gated potassium channel
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Data from: Spatiotemporally precise optogenetic activation of sensory neurons in freely walking Drosophila
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Chemo- and optogenetic activation of hypothalamic Foxb1-expressing neurons and their terminal endings in the rostral-dorsolateral PAG leads to tachypnea, bradycardia, and immobility
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Optogenetic response of mouse and macaque retinal ganglion cells
<p>Data presented in "Towards optogenetic vision restoration with high resolution"<br> BioRxiv https://www.biorxiv.org/content/10.1101/470773v1, to appear in PLOS Computational Biology.<br> Please cite this paper if the data have been useful for you.</p> <p>Data contains multi-electrode array recordings of optogenetic response of retinal ganglion cells subject to checkerboard visual stimulation.<br> Mouse: blind rd1 mice (4-5 weeks old) with an AAV2 encoding ReaChR-mCitrine under a pan-neuronal hSyn promoter via intravitreal injections. <br> Macaque: retinal ganglion cells have been targeted with an AAV2 encoding a human codon optimized CatCh under a strong, RGC-specific promoter. Retinas were harvested three months after injection of the virus in the adult macaque retina.</p>
Dataset of high-density EEG recordings with auditory and optogenetic stimulation in mice
<p>[Duplicated dataset from G-Node repository: <a href="https://gin.g-node.org/hiobeen/Mouse_hdEEG_ASSR_Hwang_et_al/">https://gin.g-node.org/hiobeen/Mouse_hdEEG_ASSR_Hwang_et_al/</a>]</p> <p>A set of high-density EEG (electroencephalogram) recording obtained from awake, freely-moving mice (mus musculus). Details of experimental method are described in the original research article using the same dataset [Hwang et al., 2019, Brain Structure and Function].</p>
Dataset of high-density EEG recordings with auditory and optogenetic stimulation in mice
<p>[Duplicated dataset from G-Node repository: <a href="https://gin.g-node.org/hiobeen/Mouse_hdEEG_ASSR_Hwang_et_al/">https://gin.g-node.org/hiobeen/Mouse_hdEEG_ASSR_Hwang_et_al/</a>]</p> <p>A set of high-density EEG (electroencephalogram) recording obtained from awake, freely-moving mice (mus musculus). Details of experimental method are described in the original research article using the same dataset [Hwang et al., 2019, Brain Structure and Function].</p>
Mouse substantia nigra responses to optogenetic stimulation of projections from striatum and globus pallidus
<p>As a rodent basal ganglia (BG) output nucleus, the substantia nigra pars reticulata (SNr) is well positioned to impact behavior. SNr neurons receive GABAergic inputs from the striatum (direct pathway) and globus pallidus (GPe, indirect pathway). Dominant theories of action selection rely on these pathways' inhibitory actions. Yet, experimental results on SNr responses to these inputs are limited and include excitatory effects. Our study combines experimental and computational work to characterize, explain, and make predictions about these pathways. We observe diverse SNr responses to stimulation of SNr-projecting striatal and GPe neurons, including biphasic and excitatory effects, which our modeling shows can be explained by intracellular chloride processing. Our work predicts that ongoing GPe activity could tune the SNr operating mode, including its responses in decision-making scenarios, and GPe output may modulate synchrony and low-frequency oscillations of SNr neurons, which we confirm using optogenetic stimulation of GPe terminals within the SNr.</p>
Resonance energy transfer sensitizes and monitors in situ switching of LOV2-based optogenetic actuators
<p>Engineered light-dependent switches provide uniquely powerful opportunities to investigate and control cell regulatory mechanisms. Existing tools offer high spatiotemporal resolution, reversibility and repeatability. Yet cellular optogenetics applications remain limited in practice. Validation difficulties constrain most usage to easily verified protein translocation rather than inhibition of diffusible targets. Blue light levels commonly needed for actuation can be cytotoxic, precluding long-term experiments. We describe a simple approach overcoming these obstacles. Resonance energy transfer with an adjacent chromophore modulates actuation sensitivity over a 7-fold range. This simultaneously offers on-line monitoring of light-dependent switching and precise quantification of activation-relaxation properties in intact living cells. Applying this approach to different LOV2-based switches reveals relaxation times up to 11-fold faster than anticipated. <em>In situ</em>–measured parameter values guide the design of target-inhibiting actuation trains with minimal blue-light exposure, and context-based optimisation can increase sensitivity and experimental throughput a further 10-fold without loss of temporal precision.</p>
Supplementary information for: "A voltage-dependent fluorescent indicator for optogenetic applications, archaerhodopsin-3: Structure and optical properties from in silico modeling".
<p>This is supplementary data for F1000Research article: A voltage-dependent fluorescent indicator for optogenetic applications, archaerhodopsin-3: Structure and optical properties from in silico modeling.</p> <p>Here are files for modeling archaerhodopsin-3 with I-TASSER, Medeller and RosettaCM algorithms, structure postprocessing and spectra calculations.</p> <p>Please, refer to the readme.txt for the description.</p>
Increasing the Expression Level of ChR2 Enhances the Optogenetic Excitability of Cochlear Neurons
<p>This study reveals a dose-response relationship between channelrhodopsin expression and optogenetic excitation. Both single cell and organismal responses depend on the expression level of the heterologous protein. Expression level of the opsin is thus an important variable in determining the outcome of an optogenetic experiment. These results are key to the implementation of neural prostheses based on optogenetics, such as next generation cochlear implants, which would use light to elicit a neural response to sound.</p>
Dataset 2 for paper - Distinct prelimbic cortex neuronal responses drive emotion recognition in male mice during Social Interactions-Behavior - Behavior, Piezo, FP and optogenetics datasets
<p>The uploaded folders contain data for:</p> <p>1) Analyzed video clips for behavioral testing of C57BL/6J ESP data for both males and females in ESPr, ESPs, ESPi, and ESPi with female subject and male stimuli, and the Three Discrimination Task. Relevant for Figure.1 and Supp.1.</p> <p>2) Piezo data for ESPs with males, ESPi with males, and ESPi with females. Relevant for Fig.2 Each task folder contains 3 subfolders:</p> <p> 1- Timestamps</p> <p> 2- Piezo-sensors signal</p> <p> 3- Analyzed videos</p> <p>2) Fiber Photometry data for the SP, ESPs, ESPi, and Food vs. Object tasks. Relevant for Fig.3-4 and Supp.2-8. The data for each task is divided into 3 folders:</p> <p> 1- Timestamps</p> <p> 2- Fiber photometry signal</p> <p> 3- Analyzed videos</p> <p>3) Optogenetics data for SP, ESPs (excitation and inhibition), and stimulation with Empty Chambers. Relevant for Fig.8 and Supp.16. The SP and ESPs tasks in this experiment have 4 conditions, and the stimulation with empty chambers test has only the first 3 conditions of the following:</p> <p> 1- No stimulation</p> <p> 2- Stimulation with stimulus 1</p> <p> 3- Stimulation with stimulus 2</p> <p> 4- Free stimulation</p> <p>Data folders for conditions 2 and 3 contain two sub-folders:</p> <p> 1- Timestamps for the delivered optic stimulations</p> <p> 2- Analyzed videos</p>
Data: Similar neural and perceptual masking effects of low-power optogenetic stimulation in primate V1
Can direct stimulation of primate V1 substitute for a visual stimulus and mimic its perceptual effect? To address this question, we developed an optical-genetic toolkit to "read" neural population responses using widefield calcium imaging, while simultaneously using optogenetics to "write" neural responses into V1 of behaving macaques. We focused on the phenomenon of visual masking, where detection of a dim target is significantly reduced by a co-localized medium-brightness pedestal. Using our toolkit, we tested whether V1 optogenetic stimulation can recapitulate the perceptual masking effect of a visual pedestal. We find that, similar to a visual pedestal, low-power optostimulation can significantly reduce visual detection sensitivity, that a sublinear interaction between visual and optogenetic evoked V1 responses could account for this perceptual effect, and that these neural and behavioral effects are spatially selective. Our toolkit and results open the door for further exploration of perceptual substitutions by direct stimulation of sensory cortex.
Optogenetic activation of visual thalamus generates artificial visual percepts
<p>The lateral geniculate nucleus (LGN), a retinotopic relay center where visual inputs from the retina are processed and relayed to the visual cortex, has been proposed as a potential target for artificial vision. At present, it is unknown whether optogenetic LGN stimulation is sufficient to elicit behaviorally relevant percepts, and the properties of LGN neural responses relevant for artificial vision have not been thoroughly characterized. Here, we demonstrate that tree shrews pre-trained on a visual detection task can detect optogenetic LGN activation using an AAV2-CamKIIα-ChR2 construct and readily generalize from visual to optogenetic detection. Simultaneous recordings of LGN spiking activity and primary visual cortex (V1) local field potentials (LFP) during optogenetic LGN stimulation show that LGN neurons reliably follow optogenetic stimulation at frequencies up to 60 Hz, and uncovered a striking phase locking between the V1 local field potential (LFP) and the evoked spiking activity in LGN. These phase relationships were maintained over a broad range of LGN stimulation frequencies, up to 80 Hz, with spike field coherence values favoring higher frequencies, indicating the ability to relay temporally precise information to V1 using light activation of the LGN. Finally, V1 LFP responses showed sensitivity values to LGN optogenetic activation that were similar to the animal's behavioral performance. Taken together, our findings confirm the LGN as a potential target for visual prosthetics in a highly visual mammal closely related to primates.</p>
OPTICS: an interactive online platform for photosensory and bio-functional proteins in optogenetic systems
<p>The cutting-edge technology of optogenetics opens to new ideas for control of cellular bio-functional proteins (CPs) using optogenetic tools (OTs) in spatial and temporal. Over the past decade, hundreds of optogenetic systems (OSs) have been constructed for various applications from living cells to freely moving organisms. In this work, a new database named OPTICS (an interactive online platform for photosensory and bio-functional proteins in optogenetic systems) was thus introduced. Our OPTICS is unique in (i) systematically describing diverse OSs from the perspective of photoreceptor-based classification and mechanism of action; (ii) featuring the detailed biophysical properties and functional data of OSs; (iii) providing the interaction between OT and CP of each OS refers to distinct applications in research, diagnosis, and therapy; and (iv) enabling light response property-based search against all OSs in the database. Since the information of OSs is essential for design of optogenetic controls, the comprehensive data provided in OPTICS lay a solid foundation for the future development of novel OSs. The OPTICS is freely accessible at <a href="https://idrblab.org/optics/">https://idrblab.org/optics/</a>.</p>
Data: Similar neural and perceptual masking effects of low-power optogenetic stimulation in primate V1
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Optogenetic activation of visual thalamus generates artificial visual percepts
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Data from: Transient inhibition and long-term facilitation of locomotion by phasic optogenetic activation of serotonin neurons
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.