# Downloading scRNA-Seq data for mouse developing brain
**URL:** https://community.brain-map.org/t/downloading-scrna-seq-data-for-mouse-developing-brain/4532
**Category:** Technical
**Tags:** rna-seq
**Created:** [July 16, 2025, 1:08pm UTC](https://community.brain-map.org/t/downloading-scrna-seq-data-for-mouse-developing-brain/4532 "2025-07-16T13:08:31Z")
**Posts on this page:** 2
**Page:** 1
### Author:  [@ellie123](https://community.brain-map.org/u/ellie123)
#### Post date: [July 16, 2025, 1:08pm UTC](https://community.brain-map.org/t/downloading-scrna-seq-data-for-mouse-developing-brain/4532/1 "2025-07-16T13:08:31Z")
Hello! I’m looking to download the RNA-Seq genecode normalized expression values and metadata for the mouse developing brain (shown in the heatmaps). This is available for download with the developing human brain but I cannot find any downloadable data for the mouse brain that has gene expression at different developmental time periods. Is this possible to download?
For reference - this is the link to the downloadable data for human developing brain: [RNA-Seq Gencode v10 summarized to genes](https://www.brainspan.org/api/v2/well_known_file_download/267666525)
Best,
Ellie
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### Author:  [@Carol](https://community.brain-map.org/u/Carol)
#### Post date: [July 16, 2025, 10:48pm UTC](https://community.brain-map.org/t/downloading-scrna-seq-data-for-mouse-developing-brain/4532/2 "2025-07-16T22:48:38Z")
The Allen Developing Mouse Brain Atlas does _not_ include RNA-seq data or single-cell gene expression. The heatmaps you’re seeing in the atlas reflect _quantified in situ hybridization (ISH)_ signal across brain regions and developmental time points, rather than sequencing-based expression values.
However, you _can_ download the quantified ISH expression data. We’ve provided instructions in this forum topic: [API for Allen Developing Mouse Brain Atlas](https://community.brain-map.org/t/api-for-allen-developing-mouse-brain-atlas/2855).
If you’re specifically looking for RNA-seq data for the developing mouse brain, you may want to explore the **Brain Knowledge Platform Data Catalog** , where you can find single cell sequencing datasets from the developing mouse brain. Here’s the link to the catalog pre-filtered for mouse and transcriptomics data: [Catalog](https://knowledge.brain-map.org/data?filter.modality.name=CONTAINS~transcriptomics&filter.species.name=CONTAINS~mouse&limit=50&offset=0&sort=default~ASC).