In silico Transcriptome (iTranscriptome)

Geo-seq: 3D Transcriptome of the mouse embryo at gastrulation

Querying the interested gene

Please input the interested gene symbol:

General information of this gene:
Gene symbol:
Gene ID:
Ensembl ID:
Gene Type:

Corn plot of this gene:
* Values are log10(FPKM+1) transformed

3D plot files (Epiblast/Ectoderm) of this gene:

To download the 3D mapping file, please click here

How to use?
How to use the downloaded files for 3D visualization?
  • - Download the .tar.gz file from the download link
  • - Uncompress the downloaded file
  • - Download the visualization software from the VAA3D
  • - Load all individual images into the software (VAA3D)
  • (For more information about the reconstruction, please refer to our manual User Manual)

Original expression (FPKM) of this gene: Expand/Hide

Key features

- High resolution - More sensitive
- 2D & 3D visualization - Searchable web service

E70 embryo database

Pattern search by gene
Query and display the expression pattern of a query gene in either a corn plot or a 3D embryo model
Gene search by gene
Search for genes that share similar expression patterns of a query gene.
Gene search by pattern
Search for genes using a query pattern (Choose one of 5 predefined patterns or input interested pattern).
Gene activity score
Calculate the enrichment score for a query gene list based on ranked gene expression of each sample.