Updated CH assembly and CH/CHO-K1 annotations

May 1, 2019

We are excited to announce that the significantly improved Chinese hamster genome, CH PICR (GCF_00366804.1), along with its 2018 RefSeq annotation is now online. In addition, an updated RefSeq annotation for the CHO-K1 cell line is now available. Both can be searched (gene search and BLAST) and viewed on JBrowse. More information on the updated Chinese hamster genome can be found here.

New mRNA Expression Browser (Beta)

June 7, 2017

The browser (beta version) for the visualization of mRNA expression from CHO-K1 cells is now online. The data is from several published DNA-microarray or RNA-Seq experiments. The tutorial on how to use this browser can be found here.

Coming Soon!

March 10, 2017

Users will be able to visualize CHO cell mRNA expression data either from published DNA-microarray or RNA-Seq experiments via JBrowse. The visualized data will enable users to easily obtain gene expression levels and compare gene expression levels among different conditions.

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CH PICR Search (GenBank 2018)

Search Term
Select at least one
Symbol CH PICR (GenBank 2018 as published in Rupp et al. 2018)
Gene Name
Gene ID

The database can be searched by:

  1. Gene name (i.e. Caspase 1)
  2. Gene symbol (i.e. Casp1)
  3. Gene ID (i.e. 100759171)

BLAST the CHO-K1 RefSeq and Chinese Hamster RefSeq genomes here and at NCBI.

Tips for using the database:

  1. Search by gene name, symbol, or ID to find individual gene pages.
  2. Multiple genomes may be selected at once, but the time required for the query may increase.
  3. Each gene, transcript, and protein has a unique, individual entry. To obtain the relevant protein information or download the protein sequence, select the gene or transcript entry of interest, scroll to the bottom of the "Gene Details" page, and select the protein entry associated with the relevant transcript in the "Gene Relations" table.
  4. Many pseudogenes do not have a gene name or symbol, but all have a gene ID and may be searched.