Adult Mouse Brain Coronal Section (Fresh Frozen)
Spatial Gene Expression dataset analyzed using Space Ranger 2.1.0
![](https://cdn.10xgenomics.com/image/upload/v1724182202/datasets/detail/datasets_visium.png)
Learn about Visium analysis
10x Genomics obtained fresh frozen mouse brain tissue from BioIVT Asterand. The tissue was embedded and cryosectioned as described in Visium Spatial Protocols - Tissue Preparation Guide Demonstrated Protocol (CG000240). Tissue sections of 10 µm thickness from a slice of the coronal plane were placed on Visium Gene Expression slides, then stained and imaged following the Methanol Fixation, H&E Staining & Imaging Demonstrated Protocol (CG000160).
The slide was cover-slipped and the H&E image acquired using a Nikon Ti2-E microscope with the following settings:
- Color camera
- 10X objective
- Numerical Aperture: 0.45
- Exposure: 2 ms
- Gain: 4.5X
Visium Spatial Gene Expression Library
Libraries were prepared following the Visium Spatial Gene Expression Reagent Kits User Guide (CG000239 Rev F).
- Sequencing instrument: Illumina NovaSeq
- Sequencing configuration: Paired-end (28 X 90)
- Sequencing coverage: Read 1: 28bp Read 1 (16bp Visium spatial barcode, 12bp UMI), Read 2: 120bp (transcript), 10bp i7 sample barcode and 10bp i5 sample barcode
- Dual Index set: SI-TT-E4
- Slide: V10L08-332
- Area: C1
This dataset is licensed under the Creative Commons Attribution license.