News

Updated chromosome-scale CH assembly and CH/CHO-K1 annotations

January 27, 2021

A significantly more continuous version of the Chinese hamster genome, CH PICRH (GCF_003668045.3), along with its 2020 RefSeq annotation is now on CHOgenome.org. Long-range scaffolding of the previous CH genome assembly was performed using high-throughput chromosome conformation capture (Hi-C) and now 97% of the genome is contained in 11 large scaffolds corresponding to the CH chromosomes. In addition, the updated 2020 RefSeq annotation for the CHO-K1 cell line is available. Both can be searched (gene search and BLAST) and viewed on JBrowse. More information on the most recent version of the Chinese hamster genome can be found here.

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.

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Advanced Search Page

Search Term
Select at least one		 Genome
Select at least one
Symbol Chinese Hamster (RefSeq Assembly GCF_003668045.3 | 12July2020 - Release 104) 
Gene Name CHO-K1 (RefSeq Assembly GCF_000223135.1 | 12July2020 - Release 104)
Gene ID Chinese Hamster (RefSeq Assembly GCF_003668045.1 | 18Dec2018 - Release 103)
Transcript CHO-K1 (RefSeq Assembly GCF_000223135.1 | 18Dec2018 - Release 103)
CHO-K1 (RefSeq Assembly GCF_000223135.1 | 2May2014 - Release 101)
Chinese Hamster (RefSeq Assembly GCF_000419365.1 | 2May2014 - Release 101)
CHO-K1 (RefSeq Assembly GCF_000223135.1 | 15Mar2012 - Release 1)

The Chinese hamster and CHO-K1 RefSeq databases can be searched by:

  1. Gene name (i.e. Caspase 1)
  2. Gene symbol (i.e. Casp1)
  3. Gene ID (i.e. 100759171)
  4. Transcript RefSeq ID (i.e. XM_027415199.2)

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.