In VitroTesting of Voltage Indicators: Archon1, ArcLightD, ASAP1, ASAP2s, ASAP3b, Bongwoori-Pos6, BeRST1, FlicR1, and Chi-VSFP-Butterfly

eNeuro, Год журнала: 2020, Номер 7(5), С. ENEURO.0060 - 20.2020

Опубликована: Авг. 14, 2020

Genetically encoded voltage indicators (GEVIs) could potentially be used for mapping neural circuits at the plane of synaptic potentials and plateau potentials—two blind spots GCaMP-based imaging. In last year alone, several laboratories reported significant breakthroughs in quality GEVIs efficacy imaging equipment. One major obstacle using well performing pursuit interesting biological data is process transferring between laboratories, as their qualities (e.g., membrane targeting, brightness, sensitivity, optical signal quality) are often difficult to reproduce outside laboratory GEVI origin. We have tested eight available (Archon1, ArcLightD, ASAP1, ASAP2s, ASAP3b, Bongwoori-Pos6, FlicR1, chi-VSFP-Butterfly) two voltage-sensitive dyes (BeRST1 di-4-ANEPPS). same microscope, lens, detector, while light sources were interchanged. was attempted following three preparations: (1) cultured neurons, (2) HEK293 cells, (3) mouse brain slices. Systematic measurements successful only cells Despite differences brightness dynamic response (ON rate), all produced reasonable signals slices solid vitro properties, range initially by creator laboratories. Side-by-side comparisons organic obtained a “third party” (current data) will useful determining right indicator given research application.

Язык: Английский

---

Bidirectional control of infant rat social behavior via dopaminergic innervation of the basolateral amygdala

Neuron, Год журнала: 2021, Номер 109(24), С. 4018 - 4035.e7

Опубликована: Окт. 26, 2021

Язык: Английский

---

On the inference speed and video-compression robustness of DeepLabCut

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2018, Номер unknown

Опубликована: Окт. 30, 2018

Pose estimation is crucial for many applications in neuroscience, biomechanics, genetics and beyond. We recently presented a highly efficient method markerless pose based on transfer learning with deep neural networks called DeepLabCut. Current experiments produce vast amounts of video data, which challenges both storage analysis. Here we improve the inference speed DeepLabCut by up to tenfold benchmark these updates various CPUs GPUs. In particular, depending frame size, poses can be inferred offline at 1200 frames per second (FPS). For instance, 278 × images processed 225 FPS GTX 1080 Ti graphics card. Furthermore, show that robust standard compression (ffmpeg). Compression rates greater than 1,000 only decrease accuracy about half pixel (for 640 480 size). DeepLabCut’s robustness save time hardware expenses.

Язык: Английский

---

The NIH BRAIN Initiative: Integrating Neuroethics and Neuroscience

Neuron, Год журнала: 2019, Номер 101(3), С. 394 - 398

Опубликована: Фев. 1, 2019

Язык: Английский

---

Automatic navigation system for the mouse brain

The Journal of Comparative Neurology, Год журнала: 2019, Номер 527(13), С. 2200 - 2211

Опубликована: Янв. 12, 2019

Identification and delineation of brain regions in histologic mouse sections is especially pivotal for many neurogenomics, transcriptomics, proteomics, connectomics studies, yet this process prone to observer error bias. Here we present a novel navigation system, named NeuroInfo, whose general principle similar that global positioning system (GPS) car. NeuroInfo automatically navigates an investigator through the complex microscopic anatomy brains (thereafter: "experimental sections"). This achieved by registering digital image experimental section with three-dimensional (3D) atlas essentially based on third version Allen Mouse Brain Common Coordinate Framework (CCF v3), retrieving graphical region delineations annotations from 3D atlas, superimposing information onto computer screen. By doing so, helps solving long-standing problem faced researchers investigating under light microscope-that correctly identifying distinct contained within sections. Specifically, provides intuitive, readily-available microscopy tool enhance researchers' ability identify specific Extensive validation studies demonstrated technology performs remarkably well accurately delineating are large and/or located dorsal parts brains, independent whether were imaged fluorescence or bright-field microscopy. highly efficient way minute accurate real-time.

Язык: Английский

---

Hybrid light-sheet and light-field microscope for high resolution and large volume neuroimaging

Biomedical Optics Express, Год журнала: 2019, Номер 10(12), С. 6595 - 6595

Опубликована: Ноя. 27, 2019

Large scale simultaneous recording of fast patterns neural activity remains challenging. Volumetric imaging modalities such as scanning-beam light-sheet microscopy (LSM) and wide-field light-field (WFLFM) fall short the goal due to their complex calibration procedure, low spatial resolution, or high-photobleaching. Here, we demonstrate a hybrid (LSLFM) modality that yields high resolution with simplified alignment plane excitation plane. This new combines selective illumination volumetric imaging. overcomes current limitations LSM WFLFM implementations. Compared LSM, LSLFM captures data at frame rate 50× lower than requires no dynamic calibration. WFLFM, produces moderate improvements in resolutions, 10 times improvement contrast when fluorescent beads, 3.2× signal-to-noise ratio detection live zebrafish expressing genetically encoded calcium sensor.

Язык: Английский

---

An Introduction to theCallithrixGenus and Overview of Recent Advances in Marmoset Research

ILAR Journal, Год журнала: 2020, Номер 61(2-3), С. 110 - 138

Опубликована: Янв. 1, 2020

Abstract We provide here a current overview of marmoset (Callithrix) evolution, hybridization, species biology, basic/biomedical research, and conservation initiatives. Composed 2 subgroups, the aurita group (C C flaviceps) jacchus geoffroyi, jacchus, kuhlii, penicillata), this relatively young primate radiation is endemic to Brazilian Cerrado, Caatinga, Atlantic Forest biomes. Significant impacts on Callithrix within these biomes resulting from anthropogenic activity include (1) population declines, particularly for group; (2) widespread geographic displacement, biological invasions, range expansions penicillata; (3) hybridization; (4) epizootic Yellow Fever Zika viral outbreaks. A number legal initiatives are now in place protect threatened increase research about them. Due their small size rapid life history, marmosets prized biomedical models. As result, there increasingly sophisticated genomic resources available burgeoning functional, immuno-, epigenomic research. In both laboratory wild, have given us insight into cognition, social dynamics, human disease, pregnancy. penicillata emerging neotropical models arbovirus including Dengue Zika. Wild populations helping understand sylvatic transmission spillover viruses. All factors positioning as preeminent facilitate understanding facets conservation, infectious diseases.

Язык: Английский

---

OpenNeuro: An open resource for sharing of neuroimaging data

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2021, Номер unknown

Опубликована: Июнь 29, 2021

Abstract The sharing of research data is essential to ensure reproducibility and maximize the impact public investments in scientific research. Here we describe OpenNeuro, a BRAIN Initiative archive that provides ability openly share from broad range brain imaging types following FAIR principles for sharing. We highlight importance Brain Imaging Data Structure (BIDS) standard enabling effective curation, sharing, reuse data. presently shares more than 600 datasets including 20,000 participants, comprising multiple species measurement modalities phenotypes. shared evident growing number published reuses, currently totalling 150 publications. conclude by describing plans future development integration with other ongoing open science efforts.

Язык: Английский

---

Constructing and optimizing 3D atlases from 2D data with application to the developing mouse brain

eLife, Год журнала: 2021, Номер 10

Опубликована: Фев. 11, 2021

3D imaging data necessitate reference atlases for accurate quantitative interpretation. Existing computational methods to generate from 2D-derived result in extensive artifacts, while manual curation approaches are labor-intensive. We present a approach atlas construction that substantially reduces artifacts by identifying anatomical boundaries the underlying and using these guide transformation. Anatomical also allow extension of complete edge regions. Applying eight developmental stages Allen Developing Mouse Brain Atlas (ADMBA) led more comprehensive atlases. generated 15 whole mouse brains validate performance observed qualitative improvement (37% greater alignment between boundaries). provide pipeline as MagellanMapper software reconstructed ADMBA These resources facilitate whole-organ analysis samples across development.

Язык: Английский

---

Neuromodulatory treatments for psychiatric disease: A comprehensive survey of the clinical trial landscape

Brain stimulation, Год журнала: 2021, Номер 14(5), С. 1393 - 1403

Опубликована: Авг. 27, 2021

BackgroundNumerous neuromodulatory therapies are currently under investigation or in clinical use for the treatment of psychiatric conditions.Objective/hypothesisWe sought to catalogue past and present human research studies on neuromodulation identify relevant trends this field.MethodsClinicalTrials.gov (https://www.clinicaltrials.gov/) International Clinical Trials Registry Platform (https://www.who.int/ictrp/en/) were queried March 2020 trials assessing outcome disorders. Relevant categorized by variables such as modality, country, brain target, publication status, design, funding source.ResultsFrom 72,086 initial search results, 1252 unique identified. The number registered annually has consistently increased. Half all active a quarter have translated publications. largest proportion involved depression (45%), schizophrenia (18%), substance disorders (14%). spanned 37 countries; China, second contributor (13%) after United States (28%), increased its output substantially recent years. Over 75% non-convulsive non-invasive modalities (e.g., transcranial magnetic stimulation), while convulsive electroconvulsive therapy) invasive deep stimulation) less represented. 72% featured approved cleared interventions. Characteristic inter-modality differences observed with respect enrollment size, trial design/phase, funding. Dorsolateral prefrontal cortex accounted over half focal targets. examining biological correlates increased.Conclusion(s)These results provide comprehensive overview state research, revealing growing scope internationalism field.

Язык: Английский

---