A molecularly defined and spatially resolved cell atlas of the whole mouse brain
[ DOI: https://doi.org/10.35077/act-bag ]
Dataset Citation:
Zhuang, Xiaowei, Jung, Won, Zhang, Meng. (2023). A molecularly defined and spatially resolved cell atlas of the whole mouse brain. [ Dataset / Microscopy ]. Brain Image Library. https://doi.org/10.35077/act-bag
Abstract:
In this project, we used MERFISH to perform in situ gene expression profiling of individual cells in the entire mouse brain, determine the cell-type identity of these cells and map the spatial organization of the cell types. We performed MERFISH imaging on 1124 or 1147 genes in a total of 245 brain slices (217 coronal, 28 sagittal) from a total of 4 animals.
TechnicalInfo:
| DATASET METADATA: | |
| title | A molecularly defined and spatially resolved cell atlas of the whole mouse brain |
| GeneralModality | spatial transcriptomics |
| Technique | MERFISH |
| SPECIMEN METADATA: | |
| LocalID | Mouse 1 |
| Species | Mouse |
| NCBITaxonomy | NCBI :txid10090 |
| Age | 57 -63 |
| Ageunit | Days |
| Sex | Male |
| SampleLocalID | Mouse 1 |
| LocalID | Mouse 2 |
| Species | Mouse |
| NCBITaxonomy | NCBI :txid10090 |
| Age | 57 -63 |
| Ageunit | Days |
| Sex | Female |
| SampleLocalID | Mouse 2 |
| LocalID | Mouse 3 |
| Species | Mouse |
| NCBITaxonomy | NCBI :txid10090 |
| Age | 57 -63 |
| Ageunit | Days |
| Sex | Male |
| SampleLocalID | Mouse 3 |
| LocalID | Mouse 4 |
| Species | Mouse |
| NCBITaxonomy | NCBI :txid10090 |
| Age | 57 -63 |
| Ageunit | Days |
| Sex | Male |
| SampleLocalID | Mouse 4 |
| INSTRUMENT METADATA: | |
| MicroscopeType | Inverted |
| MicroscopeManufacturerAndModel | Nikon TI2 - U |
| IMAGE METADATA: | |
| xAxis | left - to - right |
| yAxis | left - to - right |
| zAxis | left - to - right |
| Number | 1.0 |
| displayColor | single color, gray scale |
| stepSizeX | 0.109 |
| stepSizeY | |
Funding:
National Institutes of Health 5-U19-MH114830-05 A comprehensive whole-brain atlas of transcriptomic cell types in the mouse
Contributors:
Zhuang, Xiaowei (ProjectLeader) [ORCID: https://orcid.org/0000-0002-6034-7853 ] Harvard UniversityJung, Won (Researcher) [ORCID: https://orcid.org/0000-0003-2810-5528 ] Harvard University
Zhang, Meng (Researcher) [ORCID: https://orcid.org/0000-0002-9753-0635 ] Harvard University
Related Identifiers:
No related identifiers found.
Data location on the Brain Image Library Analysis Ecosystem:
/bil/data/29/3c/293cc39ceea87f6d
Dataset Download Link:
[ https: https://download.brainimagelibrary.org/29/3c/293cc39ceea87f6d]