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This app allows the exploration of cis-regulatory elements (CREs) active in the developing mouse cerebellum and refers to a revised version of our preprint:
Sarropoulos, I., Sepp M. et al. The regulatory landscape of cells in the developing mouse cerebellum. biorxiv (2021)
https://doi.org/10.1101/2021.01.29.428632
Analyses and data are being updated as part of the peer review process. You can still access the old version of the app, referring to the preprint here
However, we highly recommend using the updated version as this contains substantial improvements over the preprint.

1. Select a CRE

You can scroll horizontally to explore additional options.

2. Show in genome browser

Your CRE is shown in red. Other robust/non-robust CREs are shown in dark/light blue respectively.
Genomic interactions highlight CRE assignment to target genes in our study (purple/blue: in/out browser view).
Genomic region displayed:

          

Please select a CRE

3. Plot CRE activity

Cell annotation


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This option is only available for shared CREs, with robust activity in both species.
Download plot

Please select a CRE

4. Download data

Warning: Some of these files are large, so downloading might take a while.
RDS files contain SummarizedExperiment objects (1.16) that can be read into R using readRDS().

Name
Size
Description
(2.0 GB)
CRE by cell matrix with associated information about peaks and cells (mouse).
(4.2 GB)
Gene scores by cell matrix (mouse).
(1.1 GB)
chromVar motif scores (deviations and Z-scores) by cell matrix (mouse).
(70 MB)
Summary information for mouse CREs (genomic and evolutionary characterization, activity etc).
(50 MB)
Summary information for mouse cells (annotation, sample, clusters etc).

(350 MB)
CRE by cell matrix (opossum).
(1.3 GB)
Gene scores by cell matrix (opossum).
(15 MB)
Summary information for opossum CREs.
(1 MB)
Summary information for opossum cells (annotation, sample, clusters etc).