Medaka Omics Data Portal from Tu Lab


We report a dynamic transcriptome landscape of medaka embryogenesis profiled by long-read RNA-seq, short-read RNA-seq, and ATAC-seq. Integrating these datasets together, we constructed a much-improved gene model set (26,500 genes, 41,000 transcripts), identified 150,000 potential cis-regulatory elements, and measured their activities during embryogenesis. To facilitate the use of these datasets, three tools have been implemented. For detailed information, please see the notes below.


Genome Browser (JBrowse):


Gene Viewer (Shiny):


Sequence Search (BLAST):




General: Genome Browser (JBrowse): Gene Viewer (Shiny) Sequence Search (BLAST)


Please cite:

We alao incorporated multiple published sets from other labs as well, including: