ViBE-Z: The Virtual Brain Explorer for Zebrafish
Names
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ViBE-Z: The Virtual Brain Explorer for Zebrafish
metasource: Fairsharing.org
version: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
ViBE-Z
metasource: Fairsharing.org
version: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
Names
More detailed information about this field from each metasource.
ViBE-Z: The Virtual Brain Explorer for Zebrafish
metasource: Fairsharing.orgversion: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
ViBE-Z
metasource: Fairsharing.orgversion: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
Names
More detailed information about this field from each metasource.
ViBE-Z: The Virtual Brain Explorer for Zebrafish
metasource: Fairsharing.orgversion: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
ViBE-Z
metasource: Fairsharing.orgversion: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
ViBE-Z, the Virtual Brain Explorer for Zebrafish is an imaging and image analysis framework for virtual colocalization studies in larval zebrafish brains, currently available for 72hpf, 48hpf and 96hpf old larvae. ViBE-Z contains a database with precisely aligned gene expression patterns (1um 3 resolution), an anatomical atlas, and a software. This software creates high-quality data sets by fusing multiple confocal microscopic image stacks, and aligns these data sets to the standard larva.
Description
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ViBE-Z, the Virtual Brain Explorer for Zebrafish is an imaging and image analysis framework for virtual colocalization studies in larval zebrafish brains, currently available for 72hpf, 48hpf and 96hpf old larvae. ViBE-Z contains a database with precisely aligned gene expression patterns (1um 3 resolution), an anatomical atlas, and a software. This software creates high-quality data sets by fusing multiple confocal microscopic image stacks, and aligns these data sets to the standard larva.
metasource: Fairsharing.orgversion: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
Webpage:
http://vibez.informatik.uni-freiburg.deWebpage
More detailed information about this field from each metasource.
http://vibez.informatik.uni-freiburg.de
metasource: Fairsharing.orgversion: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
Publications:
Publications
More detailed information about this field from each metasource.
ViBE-Z: a framework for 3D virtual colocalization analysis in zebrafish larval brains
PMID: 22706672
metasource: Fairsharing.org
version: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
Publications
More detailed information about this field from each metasource.
ViBE-Z: a framework for 3D virtual colocalization analysis in zebrafish larval brains
PMID: 22706672
metasource: Fairsharing.org
version: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
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ViBE-Z: a framework for 3D virtual colocalization analysis in zebrafish larval brains
PubMed citations: 50.
50 articles citing: ViBE-Z: a framework for 3D virtual colocalization analysis in zebrafish larval brains
A Structural Atlas of the Developing Zebrafish Telencephalon Based on Spatially-Restricted Transgene Expression. PMID:35721460
Behavioral and Gene Regulatory Responses to Developmental Drug Exposures in Zebrafish. PMID:35082702
A 3D adult zebrafish brain atlas (AZBA) for the digital age. PMID:34806976
Building a three-dimensional model of early-stage zebrafish embryo brain. PMID:34693392
The "Neuro-Glial-Vascular" Unit: The Role of Glia in Neurovascular Unit Formation and Dysfunction. PMID:34646826
Cerebrovascular development: mechanisms and experimental approaches. PMID:33688979
Graphical-model framework for automated annotation of cell identities in dense cellular images. PMID:33625357
zOPT: an open source optical projection tomography system and methods for rapid 3D zebrafish imaging. PMID:32923043
Bsx Is Essential for Differentiation of Multiple Neuromodulatory Cell Populations in the Secondary Prosencephalon. PMID:32581684
The stem-like Stat3-responsive cells of zebrafish intestine are Wnt/β-catenin dependent. PMID:32467235
miR-7 Controls the Dopaminergic/Oligodendroglial Fate through Wnt/β-catenin Signaling Regulation. PMID:32183236
Conserved Genoarchitecture of the Basal Hypothalamus in Zebrafish Embryos. PMID:32116574
Tissue clearing and its applications in neuroscience. PMID:31896771
An interhemispheric neural circuit allowing binocular integration in the optic tectum. PMID:31784529
An Adult Brain Atlas Reveals Broad Neuroanatomical Changes in Independently Evolved Populations of Mexican Cavefish. PMID:31636546
Computational 3D histological phenotyping of whole zebrafish by X-ray histotomography. PMID:31063133
An active texture-based digital atlas enables automated mapping of structures and markers across brains. PMID:30858600
Dynamic and non-contact 3D sample rotation for microscopy. PMID:30487638
Brain-wide Organization of Neuronal Activity and Convergent Sensorimotor Transformations in Larval Zebrafish. PMID:30473013
Fishing forward and reverse: Advances in zebrafish phenomics. PMID:30130581
Morphometric analysis and neuroanatomical mapping of the zebrafish brain. PMID:29936090
Expression of the eight GABAA receptor α subunits in the developing zebrafish central nervous system. PMID:29702678
Comprehensive Identification and Spatial Mapping of Habenular Neuronal Types Using Single-Cell RNA-Seq. PMID:29576475
Normalizing brain activity across individuals using functional reference mapping. PMID:29214995
High-precision registration between zebrafish brain atlases using symmetric diffeomorphic normalization. PMID:28873968
Midbrain-Hindbrain Boundary Morphogenesis: At the Intersection of Wnt and Fgf Signaling. PMID:28824384
FluoRender: joint freehand segmentation and visualization for many-channel fluorescence data analysis. PMID:28549411
The rise of photoresponsive protein technologies applications in vivo: a spotlight on zebrafish developmental and cell biology. PMID:28413613
Automated deep-phenotyping of the vertebrate brain. PMID:28406399
A bioimage informatics platform for high-throughput embryo phenotyping. PMID:27742664
Function Over Form: Modeling Groups of Inherited Neurological Conditions in Zebrafish. PMID:27458342
Automatic Segmentation of Drosophila Neural Compartments Using GAL4 Expression Data Reveals Novel Visual Pathways. PMID:27426516
Motivated state control in larval zebrafish: behavioral paradigms and anatomical substrates. PMID:27293113
Whole-brain activity mapping onto a zebrafish brain atlas. PMID:26778924
A 3D Searchable Database of Transgenic Zebrafish Gal4 and Cre Lines for Functional Neuroanatomy Studies. PMID:26635538
In vivo three-dimensional characterization of the adult zebrafish brain using a 1325 nm spectral-domain optical coherence tomography system with the 27 frame/s video rate. PMID:26504643
Object-based representation and analysis of light and electron microscopic volume data using Blender. PMID:26208945
Delivering regeneration. PMID:25787171
Optical tomography complements light sheet microscopy for in toto imaging of zebrafish development. PMID:25655702
A digital framework to build, visualize and analyze a gene expression atlas with cellular resolution in zebrafish early embryogenesis. PMID:24945246
Advances in whole-embryo imaging: a quantitative transition is underway. PMID:24739741
Whole-brain activity maps reveal stereotyped, distributed networks for visuomotor behavior. PMID:24656252
Animal microsurgery using microfluidics. PMID:24484877
Brain on the stage - spotlight on nervous system development in zebrafish: EMBO practical course, KIT, Sept. 2013. PMID:24350623
Variational attenuation correction in two-view confocal microscopy. PMID:24350574
Automated processing of zebrafish imaging data: a survey. PMID:23758125
Generation and application of signaling pathway reporter lines in zebrafish. PMID:23674148
Integrating anatomy and function for zebrafish circuit analysis. PMID:23630469
Light microscopy applications in systems biology: opportunities and challenges. PMID:23578051
Whole-body gene expression pattern registration in Platynereis larvae. PMID:23199348
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Tags
More detailed information about this field from each metasource.
biological imaging
metasource: Fairsharing.org
version: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
brain imaging
metasource: Fairsharing.org
version: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
gene expression
metasource: Fairsharing.org
version: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
microscopy
metasource: Fairsharing.org
version: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
Tags
More detailed information about this field from each metasource.
biological imaging
metasource: Fairsharing.orgversion: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
brain imaging
metasource: Fairsharing.orgversion: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
gene expression
metasource: Fairsharing.orgversion: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
microscopy
metasource: Fairsharing.orgversion: FAIRsharing.org: ViBE-Z; ViBE-Z: The Virtual Brain Explorer for Zebrafish; DOI: https://doi.org/10.25504/FAIRsharing.xypv6g; Last edited: Jan. 8, 2019, 1:23 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
biological imaging brain imaging gene expression microscopy
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